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1.
Identification of the select agent Burkholderia pseudomallei in macaques imported into the United States is rare. A purpose-bred, 4.5-y-old pigtail macaque (Macaca nemestrina) imported from Southeast Asia was received from a commercial vendor at our facility in March 2012. After the initial acclimation period of 5 to 7 d, physical examination of the macaque revealed a subcutaneous abscess that surrounded the right stifle joint. The wound was treated and resolved over 3 mo. In August 2012, 2 mo after the stifle joint wound resolved, the macaque exhibited neurologic clinical signs. Postmortem microbiologic analysis revealed that the macaque was infected with B. pseudomallei. This case report describes the clinical evaluation of a B. pseudomallei-infected macaque, management and care of the potentially exposed colony of animals, and protocols established for the animal care staff that worked with the infected macaque and potentially exposed colony. This article also provides relevant information on addressing matters related to regulatory issues and risk management of potentially exposed animals and animal care staff.Abbreviations: CDC, Centers for Disease Control and Prevention; IHA, indirect hemagglutination assay; PEP, postexposure prophylacticBurkholderia pseudomallei, formerly known as Pseudomonas pseudomallei, is a gram-negative, aerobic, bipolar, motile, rod-shaped bacterium. B. pseudomallei infections (melioidosis) can be severe and even fatal in both humans and animals. This environmental saprophyte is endemic to Southeast Asia and northern Australia, but it has also been found in other tropical and subtropical areas of the world.7,22,32,42 The bacterium is usually found in soil and water in endemic areas and is transmitted to humans and animals primarily through percutaneous inoculation, ingestion, or inhalation of a contaminated source.8, 22,28,32,42 Human-to-human, animal-to-animal, and animal-to-human spread are rare.8,32 In December 2012, the National Select Agent Registry designated B. pseudomallei as a Tier 1 overlap select agent.39 Organisms classified as Tier 1 agents present the highest risk of deliberate misuse, with the most significant potential for mass casualties or devastating effects to the economy, critical infrastructure, or public confidence. Select agents with this status have the potential to pose a severe threat to human and animal health or safety or the ability to be used as a biologic weapon.39Melioidosis in humans can be challenging to diagnose and treat because the organism can remain latent for years and is resistant to many antibiotics.12,37,41 B. pseudomallei can survive in phagocytic cells, a phenomenon that may be associated with latent infections.19,38 The incubation period in naturally infected animals ranges from 1 d to many years, but symptoms typically appear 2 to 4 wk after exposure.13,17,35,38 Disease generally presents in 1 of 2 forms: localized infection or septicemia.22 Multiple methods are used to diagnose melioidosis, including immunofluorescence, serology, and PCR analysis, but isolation of the bacteria from blood, urine, sputum, throat swabs, abscesses, skin, or tissue lesions remains the ‘gold standard.’9,22,40,42 The prognosis varies based on presentation, time to diagnosis, initiation of appropriate antimicrobial treatment, and underlying comorbidities.7,28,42 Currently, there is no licensed vaccine to prevent melioidosis.There are several published reports of naturally occurring melioidosis in a variety of nonhuman primates (NHP; 2,10,13,17,25,30,31,35 The first reported case of melioidosis in monkeys was recorded in 1932, and the first published case in a macaque species was in 1966.30 In the United States, there have only been 7 documented cases of NHP with B. pseudomallei infection.2,13,17 All of these cases occurred prior to the classification of B. pseudomallei as a select agent. Clinical signs in NHP range from subclinical or subacute illness to acute septicemia, localized infection, and chronic infection. NHP with melioidosis can be asymptomatic or exhibit clinical signs such as anorexia, wasting, purulent drainage, subcutaneous abscesses, and other soft tissue lesions. Lymphadenitis, lameness, osteomyelitis, paralysis and other CNS signs have also been reported.2,7,10,22,28,32 In comparison, human''s clinical signs range from abscesses, skin ulceration, fever, headache, joint pain, and muscle tenderness to abdominal pain, anorexia, respiratory distress, seizures, and septicemia.7,9,21,22

Table 1.

Summary of reported cases of naturally occurring Burkholderia pseudomalleiinfections in nonhuman primates
CountryaImported fromDate reportedSpeciesReference
AustraliaBorneo1963Pongo sp.36
BruneiUnknown1982Orangutan (Pongo pygmaeus)33
France1976Hamlyn monkey (Cercopithecus hamlyni) Patas monkey (Erythrocebus patas)11
Great BritainPhilippines and Indonesia1992Cynomolgus monkey (Macaca fascicularis)10
38
MalaysiaUnknown1966Macaca spp.30
Unknown1968Spider monkey (Brachytelis arachnoides) Lar gibbon (Hylobates lar)20
Unknown1969Pig-tailed macaque (Macaca nemestrina)35
Unknown1984Banded leaf monkey (Presbytis melalophos)25
SingaporeUnknown1995Gorillas, gibbon, mandrill, chimpanzee43
ThailandUnknown2012Monkey19
United StatesThailand1970Stump-tailed macaque (Macaca arctoides)17
IndiaPig-tailed macaque (Macaca nemestrina)
AfricaRhesus macaque (Macaca mulatta) Chimpanzee (Pan troglodytes)
Unknown1971Chimpanzee (Pan troglodytes)3
Malaysia1981Pig-tailed macaque (Macaca nemestrina)2
Wild-caught, unknown1986Rhesus macaque (Macaca mulatta)13
Indonesia2013Pig-tailed macaque (Macaca nemestrina)Current article
Open in a separate windowaCountry reflects the location where the animal was housed at the time of diagosis.Here we describe a case of melioidosis diagnosed in a pigtail macaque (Macaca nemestrina) imported into the United States from Indonesia and the implications of the detection of a select agent identified in a laboratory research colony. We also discuss the management and care of the exposed colony, zoonotic concerns regarding the animal care staff that worked with the shipment of macaques, effects on research studies, and the procedures involved in reporting a select agent incident.  相似文献   

2.
Mesenchymal stem cells (MSC) are adult-derived multipotent stem cells that have been derived from almost every tissue. They are classically defined as spindle-shaped, plastic-adherent cells capable of adipogenic, chondrogenic, and osteogenic differentiation. This capacity for trilineage differentiation has been the foundation for research into the use of MSC to regenerate damaged tissues. Recent studies have shown that MSC interact with cells of the immune system and modulate their function. Although many of the details underlying the mechanisms by which MSC modulate the immune system have been defined for human and rodent (mouse and rat) MSC, much less is known about MSC from other veterinary species. This knowledge gap is particularly important because the clinical use of MSC in veterinary medicine is increasing and far exceeds the use of MSC in human medicine. It is crucial to determine how MSC modulate the immune system for each animal species as well as for MSC derived from any given tissue source. A comparative approach provides a unique translational opportunity to bring novel cell-based therapies to the veterinary market as well as enhance the utility of animal models for human disorders. The current review covers what is currently known about MSC and their immunomodulatory functions in veterinary species, excluding laboratory rodents.Abbreviations: AT, adipose tissue; BM, Bone marrow; CB, umbilical cord blood; CT, umbilical cord tissue; DC, dendritic cell; IDO, indoleamine 2;3-dioxygenase; MSC, mesenchymal stem cells; PGE2, prostaglandin E2; VEGF, vascular endothelial growth factorMesenchymal stem cells (MSC, alternatively known as mesenchymal stromal cells) were first reported in the literature in 1968.39 MSC are thought to be of pericyte origin (cells that line the vasculature)21,22 and typically are isolated from highly vascular tissues. In humans and mice, MSC have been isolated from fat, placental tissues (placenta, Wharton jelly, umbilical cord, umbilical cord blood), hair follicles, tendon, synovial membrane, periodontal ligament, and every major organ (brain, spleen, liver, kidney, lung, bone marrow, muscle, thymus, pancreas, skin).23,121 For most current clinical applications, MSC are isolated from adipose tissue (AT), bone marrow (BM), umbilical cord blood (CB), and umbilical cord tissue (CT; 11,87,99 Clinical trials in human medicine focus on the use of MSC both for their antiinflammatory properties (graft-versus-host disease, irritable bowel syndrome) and their ability to aid in tissue and bone regeneration in combination with growth factors and bone scaffolds (clinicaltrials.gov).131 For tissue regeneration, the abilities of MSC to differentiate and to secrete mediators and interact with cells of the immune system likely contribute to tissue healing (Figure 1). The current review will not address the specific use of MSC for orthopedic applications and tissue regeneration, although the topic is covered widely in current literature for both human and veterinary medicine.57,62,90

Table 1.

Tissues from which MSC have been isolated
Tissue source (reference no.)
SpeciesFatBone marrowCord bloodCord tissueOther
Cat1348356
Chicken63
Cow13812108
Dog973, 5978, 119139Periodontal ligament65
Goat66964
Horse26, 13037, 40, 12367130Periodontal ligament and gingiva88
Nonhuman primate28, 545
Pig1351147014, 20, 91
Rabbit1288032Fetal liver93
Sheep849542, 55
Open in a separate windowOpen in a separate windowFigure 1.The dual roles of MSC: differentiation and modulation of inflammation.Long-term studies in veterinary species have shown no adverse effects with the administration of MSC in a large number of animals.9,10,53 Smaller, controlled studies on veterinary species have shown few adverse effects, such as minor localized inflammation after MSC administration in vivo.7,15,17,45,86,92,98 Private companies, educational institutions, and private veterinary clinics (including Tufts University, Cummins School of Veterinary Medicine, University of California Davis School of Veterinary Medicine, VetStem, Celavet, Alamo Pintado Equine Medical Center, and Rood and Riddle Equine Hospital) offer MSC as a clinical treatment for veterinary species. Clinical uses include tendon and cartilage injuries, tendonitis, and osteoarthritis and, to a lesser extent, bone regeneration, spinal cord injuries, and liver disease in both large and small animals.38,41,113 Even with this broad clinical use, there have been no reports of severe adverse effects secondary to MSC administration in veterinary patients.  相似文献   

3.
Carbohydrate-active enzyme glycosyltransferase family 8 (GT8) includes the plant galacturonosyltransferase1-related gene family of proven and putative α-galacturonosyltransferase (GAUT) and GAUT-like (GATL) genes. We computationally identified and investigated this family in 15 fully sequenced plant and green algal genomes and in the National Center for Biotechnology Information nonredundant protein database to determine the phylogenetic relatedness of the GAUTs and GATLs to other GT8 family members. The GT8 proteins fall into three well-delineated major classes. In addition to GAUTs and GATLs, known or predicted to be involved in plant cell wall biosynthesis, class I also includes a lower plant-specific GAUT and GATL-related (GATR) subfamily, two metazoan subfamilies, and proteins from other eukaryotes and cyanobacteria. Class II includes galactinol synthases and plant glycogenin-like starch initiation proteins that are not known to be directly involved in cell wall synthesis, as well as proteins from fungi, metazoans, viruses, and bacteria. Class III consists almost entirely of bacterial proteins that are lipooligo/polysaccharide α-galactosyltransferases and α-glucosyltransferases. Sequence motifs conserved across all GT8 subfamilies and those specific to plant cell wall-related GT8 subfamilies were identified and mapped onto a predicted GAUT1 protein structure. The tertiary structure prediction identified sequence motifs likely to represent key amino acids involved in catalysis, substrate binding, protein-protein interactions, and structural elements required for GAUT1 function. The results show that the GAUTs, GATLs, and GATRs have a different evolutionary origin than other plant GT8 genes, were likely acquired from an ancient cyanobacterium (Synechococcus) progenitor, and separate into unique subclades that may indicate functional specialization.Plant cell walls are composed of three principal types of polysaccharides: cellulose, hemicellulose, and pectin. Studying the biosynthesis and degradation of these biopolymers is important because cell walls have multiple roles in plants, including providing structural support to cells and defense against pathogens, serving as cell-specific developmental and differentiation markers, and mediating or facilitating cell-cell communication. In addition to their important roles within plants, cell walls also have many economic uses in human and animal nutrition and as sources of natural textile fibers, paper and wood products, and components of fine chemicals and medicinal products. The study of the biosynthesis and biodegradation of plant cell walls has become even more significant because cell walls are the major components of biomass (Mohnen et al., 2008), which is the most promising renewable source for the production of biofuels and biomaterials (Ragauskas et al., 2006; Pauly and Keegstra, 2008). Analyses of fully sequenced plant genomes have revealed that they encode hundreds or even thousands of carbohydrate-active enzymes (CAZy; Henrissat et al., 2001; Yokoyama and Nishitani, 2004; Geisler-Lee et al., 2006). Most of these CAZy enzymes (Cantarel et al., 2009) are glycosyltransferases (GTs) or glycoside hydrolases, which are key players in plant cell wall biosynthesis and modification (Cosgrove, 2005).The CAZy database is classified into 290 protein families (www.cazy.org; release of September 2008), of which 92 are GT families (Cantarel et al., 2009). A number of the GT families have been previously characterized to be involved in plant cell wall biosynthesis. For example, the GT2 family is known to include cellulose synthases and some hemicellulose backbone synthases (Lerouxel et al., 2006), such as mannan synthases (Dhugga et al., 2004; Liepman et al., 2005), putative xyloglucan synthases (Cocuron et al., 2007), and mixed linkage glucan synthases (Burton et al., 2006). With respect to the synthesis of xylan, a type of hemicellulose, four Arabidopsis (Arabidopsis thaliana) proteins from the GT43 family, irregular xylem 9 (IRX9), IRX14, IRX9-L, and IRX14-L, and two proteins from the GT47 family, IRX10 and IRX10-L, are candidates (York and O''Neill, 2008) for glucuronoxylan backbone synthases (Brown et al., 2007, 2009; Lee et al., 2007a; Peña et al., 2007; Wu et al., 2009). In addition, three proteins have been implicated in the synthesis of an oligosaccharide thought to act either as a primer or terminator in xylan synthesis (Peña et al., 2007): two from the GT8 family (IRX8/GAUT12 [Persson et al., 2007] and PARVUS/GATL1 [Brown et al., 2007; Lee et al., 2007b]) and one from the GT47 family (FRA8/IRX7 [Zhong et al., 2005]).The GT families involved in the biosynthesis of pectins have been relatively less studied until recently. In 2006, a gene in CAZy family GT8 was shown to encode a functional homogalacturonan α-galacturonosyltransferase, GAUT1 (Sterling et al., 2006). GAUT1 belongs to a 25-member gene family in Arabidopsis, the GAUT1-related gene family, that includes two distinct but closely related families, the galacturonosyltransferase (GAUT) genes and the galacturonosyltransferase-like (GATL) genes (Sterling et al., 2006). Another GAUT gene, GAUT8/QUA1, has been suggested to be involved in pectin and/or xylan synthesis, based on the phenotypes of plant lines carrying mutations in this gene (Bouton et al., 2002; Orfila et al., 2005). It has further been suggested that multiple members of the GT8 family are galacturonosyltransferases involved in pectin and/or xylan biosynthesis (Mohnen, 2008; Caffall and Mohnen, 2009; Caffall et al., 2009).Aside from the 25 GAUT and GATL genes, Arabidopsis has 16 other family GT8 genes, according to the CAZy database, which do not seem to have the conserved sequence motifs found in GAUTs and GATLs: HxxGxxKPW and GLG (Sterling et al., 2006). Eight of these 16 genes are annotated as galactinol synthase (GolS) by The Arabidopsis Information Resource (TAIR; www.arabidopsis.org), and three of these AtGolS enzymes have been implicated in the synthesis of raffinose family oligosaccharides that are associated with stress tolerance (Taji et al., 2002). The other eight Arabidopsis GT8 genes are annotated as plant glycogenin-like starch initiation proteins (PGSIPs) in TAIR. PGSIPs have been proposed to be involved in the synthesis of primers necessary for starch biosynthesis (Chatterjee et al., 2005). Hence, the GT8 family is a protein family consisting of enzymes with very distinct proven and proposed functions. Indeed, a suggestion has been made to split the GT8 family into two groups (Sterling et al., 2006), namely, the cell wall biosynthesis-related genes (GAUTs and GATLs) and the non-cell wall synthesis-related genes (GolSs and PGSIPs).We are interested in further defining the functions of the GAUT and GATL proteins in plants, in particular their role(s) in plant cell wall synthesis. The apparent disparate functions of the GT8 family (i.e. the GAUTs and GATLs as proven and putative plant cell wall polysaccharide biosynthetic α-galacturonosyltransferases, the eukaryotic GolSs as α-galactosyltransferases that synthesize the first step in the synthesis of the oligosaccharides stachyose and raffinose, the putative PGSIPs, and the large bacterial GT8 family of diverse α-glucosyltransferases and α-galactosyltransferases involved in lipopolysaccharide and lipooligosaccharide synthesis) indicate that the GT8 family members are involved in several unique types of glycoconjugate and glycan biosynthetic processes (Yin et al., 2010). This observation led us to ask whether any of the GT8 family members are sufficiently closely related to GAUT and GATL genes to be informative regarding GAUT or GATL biosynthetic function(s) and/or mechanism(s).To investigate the relatedness of the members of the GT8 gene family, we carried out a detailed phylogenetic analysis of the entire GT8 family in 15 completely sequenced plant and green algal genomes (
AbbreviationCladeSpeciesGenome PublishedDownloaded from
mpcGreen algaeMicromonas pusilla CCMP1545Worden et al. (2009)JGI version 2.0
mprGreen algaeMicromonas strain RCC299Worden et al. (2009)JGI version 2.0
olGreen algaeOstreococcus lucimarinusPalenik et al. (2007)JGI version 1.0
otGreen algaeOstreococcus tauriDerelle et al. (2006)JGI version 1.0
crGreen algaeChlamydomonas reinhardtiiMerchant et al. (2007)JGI version 3.0
vcGreen algaeVolvox carteri f. nagariensisNoJGI version 1.0
ppMossPhyscomitrella patens ssp. patensRensing et al. (2008)JGI version 1.1
smSpike mossSelaginella moellendorffiiNoJGI version 1.0
ptDicotPopulus trichocarpaTuskan et al. (2006)JGI version 1.1
atDicotArabidopsis thalianaArabidopsis Genome Initiative (2000)TAIR version 9.0
vvDicotVitis viniferaJaillon et al. (2007)http://www.genoscope.cns.fr/
gmDicotGlycine maxSchmutz et al. (2010)JGI version 1.0
osMonocotOryza sativaGoff et al. (2002); Yu et al. (2002)TIGR version 6.1
sbMonocotSorghum bicolorPaterson et al. (2009)JGI version 1.0
bdMonocotBrachypodium distachyonVogel et al. (2010)JGI version 1.0
Open in a separate window  相似文献   

4.
Beyond Specific Pathogen-Free: Biology and Effect of Common Viruses in Macaques     
Nicholas W Lerche  Joe H Simmons 《Comparative medicine》2008,58(1):8-10
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5.
Mouse Models of Osteoarthritis: A Summary of Models and Outcomes Assessment     
Sabine Drevet  Bertrand Favier  Emmanuel Brun  Gaëtan Gavazzi  Bernard Lardy 《Comparative medicine》2022,72(1):3
Osteoarthritis (OA) is a multidimensional health problem and a common chronic disease. It has a substantial impact on patient quality of life and is a common cause of pain and mobility issues in older adults. The functional limitations, lack of curative treatments, and cost to society all demonstrate the need for translational and clinical research. The use of OA models in mice is important for achieving a better understanding of the disease. Models with clinical relevance are needed to achieve 2 main goals: to assess the impact of the OA disease (pain and function) and to study the efficacy of potential treatments. However, few OA models include practical strategies for functional assessment of the mice. OA signs in mice incorporate complex interrelations between pain and dysfunction. The current review provides a comprehensive compilation of mouse models of OA and animal evaluations that include static and dynamic clinical assessment of the mice, merging evaluation of pain and function by using automatic and noninvasive techniques. These new techniques allow simultaneous recording of spontaneous activity from thousands of home cages and also monitor environment conditions. Technologies such as videography and computational approaches can also be used to improve pain assessment in rodents but these new tools must first be validated experimentally. An example of a new tool is the digital ventilated cage, which is an automated home-cage monitor that records spontaneous activity in the cages.

Osteoarthritis (OA) is a multidimensional health problem and a common chronic disease.36 Functional limitations, the absence of curative treatments, and the considerable cost to society result in a substantial impact on quality of life.76 Historically, OA has been described as whole joint and whole peri-articular diseases and as a systemic comorbidity.9,111 OA consists of a disruption of articular joint cartilage homeostasis leading to a catabolic pathway characterized by chondrocyte degeneration and destruction of the extracellular matrix (ECM). Low-grade chronic systemic inflammation is also actively involved in the process.42,92 In clinical practice, mechanical pain, often accompanied by a functional decline, is the main reason for consultations. Recommendations to patients provide guidance for OA management.22, 33,49,86 Evidence-based consensus has led to a variety of pharmacologic and nonpharmacologic modalities that are intended to guide health care providers in managing symptomatic patients. Animal-based research is of tremendous importance for the study of early diagnosis and treatment, which are crucial to prevent the disease progression and provide better care to patients.The purpose of animal-based OA research is 2-fold: to assess the impact of the OA disease (pain and function) and to study the efficacy of a potential treatment.18,67 OA model species include large animals such as the horse, goat, sheep, and dog, whose size and anatomy are expected to better reflect human joint conditions. However, small animals such as guinea pig, rabbit, mouse, and rat represent 77% of the species used.1,87 In recent years, mice have become the most commonly used model for studying OA. Mice have several advantageous characteristics: a short development and life span, easy and low-cost breeding and maintenance, easy handling, small joints that allow histologic analysis of the whole joint,32 and the availability of genetically modified lines.108 Standardized housing, genetically defined strains and SPF animals reduce the genetic and interindividual acquired variability. Mice are considered the best vertebrate model in terms of monitoring and controlling environmental conditions.7,14,15,87 Mouse skeletal maturation is reached at 10 wk, which theoretically constitutes the minimal age at which mice should be entered into an OA study.64,87,102 However, many studies violate this limit by testing mice at 8 wk of age.Available models for OA include the following (32,111 physical activity and exercise induced OA; noninvasive mechanical loading (repetitive mild loading and single-impact injury); and surgically induced (meniscectomy models or anterior cruciate ligament transection). The specific model used would be based on the goal of the study.7 For example, OA pathophysiology, OA progression, and OA therapies studies could use spontaneous, genetic, surgical, or noninvasive models. In addition, pain studies could use chemical models. Lastly, post-traumatic studies would use surgical or noninvasive models; the most frequently used method is currently destabilization of the medial meniscus,32 which involves transection of the medial meniscotibial ligament, thereby destabilizing the joint and causing instability-driven OA. An important caveat for mouse models is that the mouse and human knee differ in terms of joint size, joint biomechanics, and histologic characteristics (layers, cellularity),32,64 and joint differences could confound clinical translation.10 Table 1. Mouse models of osteoarthritis.
ModelsProsCons
SpontaneousWild type mice7,9,59,67,68,70,72,74,80,85,87,115,118,119,120- Model of aging phenotype
- The less invasive model
- Physiological relevance: mimics human pathogenesis
- No need for technical expertise
- No need for specific equipment
- Variability in incidence
- Large number of animals at baseline
- Long-term study: Time consuming (time of onset: 4 -15 mo)
- Expensive (husbandry)
Genetically modified mice2,7,25,40,50,52,67,72,79,80, 89,120- High incidence
- Earlier time of onset: 18 wk
- No need for specific equipment
- Combination with other models
- Time consuming for the strain development
- Expensive
Chemical- inducedMono-iodoacetate injection7,11,46,47,60,66,90,91,101,128- Model of pain-like phenotype
- To study mechanism of pain and antalgic drugs
- Short-term study: Rapid progression (2-7 wk)
- Reproducible
- Low cost
- Need for technical expertise
- Need for specific equipment
- Systemic injection is lethal
- Destructive effect: does not allow to study the early phase of pathogenesis
Papain injection66,67,120- Short-term study: rapid progression
- Low cost
- Need for technical expertise
- Need for specific equipment
- Does not mimic natural pathogenesis
Collagenase injection7,65,67,98- Short-term study: rapid progression (3 wk)
- Low cost
- Need for technical expertise
- Need for specific equipment
- Does not mimic natural pathogenesis
Non-invasiveHigh-fat diet (Alimentary induced obesity model)5,8,43,45,57,96,124Model of metabolic phenotype
No need for technical expertise
No need for specific equipment
Reproducible
Long-term study: Time consuming (8 wk–9 mo delay)
Expensive
Physical activity and exercise model45,73Model of post traumatic phenotype
No need for technical expertise
Long-term study: time consuming (18 mo delay)
Expensive
Disparity of results
Mechanical loading models Repetitive mild loading models Single-impact injury model7,16,23,24, 32,35,104,105,106Model of post traumatic phenotype
Allow to study OA development
Time of onset: 8-10 wk post injury
Noninvasive
Need for technical expertise
Need for specific equipment
Heterogeneity in protocol practices
Repetitive anesthesia required or ethical issues
SurgicalOvariectomy114Contested.
Meniscectomy model7,32,63,67,87 Model of post traumatic phenotype
High incidence
Short-term study: early time of onset (4 wk from surgery)
To study therapies
Need for technical expertise
Need for specific equipment
Surgical risks
Rapid progression compared to human
Anterior cruciate ligament transection (ACLT)7,39,40,61,48,67,70,87,126Model of posttraumatic phenotype
High incidence
Short-term study: early time of onset (3-10 wk from surgery)
Reproducible
To study therapies
Need for technical expertise
Need for specific equipment
Surgical risks
Rapid progression compared to human
Destabilization of medial meniscus (DMM)7,32,39,40Model of post traumatic phenotype
High incidence
Short-term study: early time of onset (4 wk from surgery)
To study therapies
The most frequently used method
Need for technical expertise
Need for specific equipment
Surgical risks
Rapid progression compared to human
Open in a separate windowSince all animal models have strengths and weaknesses, it is often best to plan using a number of models and techniques together to combine the results.In humans, the lack of correlation between OA imaging assessment and clinical signs highlights the need to consider the functional data and the quality of life to personalize OA management. Clinical outcomes are needed to achieve 2 main goals: to assess the impact of the OA in terms of pain and function and to study the efficacy of treatments.65 Recent reviews offer few practical approaches to mouse functional assessment and novel approaches to OA models in mice.7,32,67,75,79,83,87, 100,120 This review will focus on static and dynamic clinical assessment of OA using automatic and noninvasive emerging techniques (Test nameTechniquesKind of assessmentOutputSpecific equipment requiredStatic measurementVon Frey filament testingCalibrated nylon filaments of various thickness (and applied force) are pressed against the skin of the plantar surface of the paw in ascending order of forceStimulus- evoked pain-like behavior
Mechanical stimuli - Tactile allodynia
The most commonly used testLatency to paw withdrawal
and
Force exerted are recordedYesKnee extension testApply a knee extension on both the intact and affected knee
or
Passive extension range of the operated knee joint under anesthesiaStimulus-evoked pain-like behaviorNumber of vocalizations evoked in 5 extensionsNoneHotplateMouse placed on hotplate. A cutoff latency has been determined to avoid lesionsStimulus-evoked pain-like behavior
Heat stimuli- thermal sensitivityLatency of paw withdrawalYesRighting abilityMouse placed on its backNeuromuscular screeningLatency to regain its footingNoneCotton swab testBringing a cotton swab into contact with eyelashes, pinna, and whiskersStimulus-evoked pain-like behavior
Neuromuscular screeningWithdrawal or twitching responseNoneSpontaneous activitySpontaneous cage activityOne by one the cages must be laid out in a specific platformSpontaneous pain behavior
Nonstimulus evoked pain
ActivityVibrations evoked by animal movementsYesOpen field analysisExperiment is performed in a clear chamber and mice can freely exploreSpontaneous pain behavior
Nonstimulus evoked pain
Locomotor analysisPaw print assessment
Distance traveled, average walking speed, rest time, rearingYesGait analysisMouse is placed in a specific cage equipped with a fluorescent tube and a glass plate allowing an automated quantitative gait analysisNonstimulus evoked pain
Gait analysis
Indirect nociceptionIntensity of the paw contact area, velocity, stride frequency, length, symmetry, step widthYesDynamic weight bearing systemMouse placed is a specific cage. This method is a computerized capacitance meter (similar to gait analysis)Nonstimulus evoked pain
Weight-bearing deficits
Indirect nociceptionBody weight redistribution to a portion of the paw surfaceYesVoluntary wheel runningMouse placed is a specific cage with free access to stainless steel activity wheels. The wheel is connected to a computer that automatically record dataNonstimulus evoked pain
ActivityDistance traveled in the wheelYesBurrowing analysisMouse placed is a specific cage equipped with steel tubes (32 cm in length and 10 cm in diameter) and quartz sand in Plexiglas cages (600 · 340x200 mm)Nonstimulus evoked pain
ActivityAmount of sand burrowedYesDigital video recordingsMouse placed is a specific cage according to the toolNonstimulus evoked pain
Or
Evoked painScale of pain or specific outcomeYesDigital ventilated cage systemNondisrupting capacitive-based technique: records spontaneous activity 24/7, during both light and dark phases directly from the home cage rackSpontaneous pain behavior
Nonstimulus evoked pain
Activity-behaviorDistance walked, average speed, occupation front, occupation rear, activation density.
Animal locomotion index, animal tracking distance, animal tracking speed, animal running wheel distance and speed or rotationYesChallenged activityRotarod testGradual and continued acceleration of a rotating rod onto which mice are placedMotor coordination
Indirect nociceptionRotarod latency: riding time and speed with a maximum cut off.YesHind limb and fore grip strengthMouse placed over a base plate in front of a connected grasping toolMuscle strength of limbsPeak force, time resistanceYesWire hang analysisSuspension of the mouse on the wire and start the timeMuscle strength of limbs: muscle function and coordinationLatency to fall grippingNone
(self -constructed)
Open in a separate windowPain cannot be directly measured in rodents, so methods have been developed to quantify “pain-like” behaviors. The clinical assessment of mice should be tested both before and after the intervention (induced-OA ± administration of treatment) to take into account the habituation and establish a baseline to compare against.  相似文献   

6.
The cell biology of disease: The cellular and molecular basis for malaria parasite invasion of the human red blood cell     
Alan F. Cowman  Drew Berry  Jake Baum 《The Journal of cell biology》2012,198(6):961-971
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7.
Monkey B Virus (Cercopithecine herpesvirus 1)     
David Elmore  Richard Eberle 《Comparative medicine》2008,58(1):11-21
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8.
Variation in Adult Plant Phenotypes and Partitioning among Seed and Stem-Borne Roots across Brachypodium distachyon Accessions to Exploit in Breeding Cereals for Well-Watered and Drought Environments     
Vincent Chochois  John P. Vogel  Gregory J. Rebetzke  Michelle Watt 《Plant physiology》2015,168(3):953-967
Seedling roots enable plant establishment. Their small phenotypes are measured routinely. Adult root systems are relevant to yield and efficiency, but phenotyping is challenging. Root length exceeds the volume of most pots. Field studies measure partial adult root systems through coring or use seedling roots as adult surrogates. Here, we phenotyped 79 diverse lines of the small grass model Brachypodium distachyon to adults in 50-cm-long tubes of soil with irrigation; a subset of 16 lines was droughted. Variation was large (total biomass, ×8; total root length [TRL], ×10; and root mass ratio, ×6), repeatable, and attributable to genetic factors (heritabilities ranged from approximately 50% for root growth to 82% for partitioning phenotypes). Lines were dissected into seed-borne tissues (stem and primary seminal axile roots) and stem-borne tissues (tillers and coleoptile and leaf node axile roots) plus branch roots. All lines developed one seminal root that varied, with branch roots, from 31% to 90% of TRL in the well-watered condition. With drought, 100% of TRL was seminal, regardless of line because nodal roots were almost always inhibited in drying topsoil. Irrigation stimulated nodal roots depending on genotype. Shoot size and tillers correlated positively with roots with irrigation, but partitioning depended on genotype and was plastic with drought. Adult root systems of B. distachyon have genetic variation to exploit to increase cereal yields through genes associated with partitioning among roots and their responsiveness to irrigation. Whole-plant phenotypes could enhance gain for droughted environments because root and shoot traits are coselected.Adult plant root systems are relevant to the size and efficiency of seed yield. They supply water and nutrients for the plant to acquire biomass, which is positively correlated to the harvest index (allocation to seed grain), and the stages of flowering and grain development. Modeling in wheat (Triticum aestivum) suggested that an extra 10 mm of water absorbed by such adult root systems during grain filling resulted in an increase of approximately 500 kg grain ha−1 (Manschadi et al., 2006). This was 25% above the average annual yield of wheat in rain-fed environments of Australia. This number was remarkably close to experimental data obtained in the field in Australia (Kirkegaard et al., 2007). Together, these modeling and field experiments have shown that adult root systems are critical for water absorption and grain yield in cereals, such as wheat, emphasizing the importance of characterizing adult root systems to identify phenotypes for productivity improvements.Most root phenotypes, however, have been described for seedling roots. Seedling roots are essential for plant establishment, and hence, the plant’s potential to set seed. For technical reasons, seedlings are more often screened than adult plants because of the ease of handling smaller plants and the high throughput. Seedling-stage phenotyping may also improve overall reproducibility of results because often, growth media are soil free. Seedling soil-free root phenotyping conditions are well suited to dissecting fine and sensitive mechanisms, such as lateral root initiation (Casimiro et al., 2003; Péret et al., 2009a, 2009b). A number of genes underlying root processes have been identified or characterized using seedlings, notably with the dicotyledonous models Arabidopsis (Arabidopsis thaliana; Mouchel et al., 2004; Fitz Gerald et al., 2006; Yokawa et al., 2013) and Medicago truncatula (Laffont et al., 2010) and the cereals maize (Zea mays; Hochholdinger et al., 2001) and rice (Oryza sativa; Inukai et al., 2005; Kitomi et al., 2008).Extrapolation from seedling to adult root systems presents major questions (Hochholdinger and Zimmermann, 2008; Chochois et al., 2012; Rich and Watt, 2013). Are phenotypes in seedling roots present in adult roots given developmental events associated with aging? Is expression of phenotypes correlated in seedling and adult roots if time compounds effects of growth rates and growth conditions on roots? Watt et al. (2013) showed in wheat seedlings that root traits in the laboratory and field correlated positively but that neither correlated with adult root traits in the field. Factors between seedling and adult roots seemed to be differences in developmental stage and the time that growing roots experience the environment.Seedling and adult root differences may be larger in grasses than dicotyledons. Grass root systems have two developmental components: seed-borne (seminal) roots, of which a number emerge at germination and continue to grow and branch throughout the plant life, and stem-borne (nodal or adventitious) roots, which emerge from around the three-leaf stage and continue to emerge, grow, and branch throughout the plant life. Phenotypes and traits of adult root systems of grasses, which include the major cereal crops wheat, rice, and maize, are difficult to predict in seedling screens and ideally identified from adult root systems first (Gamuyao et al., 2012).Phenotyping of adult roots is possible in the field using trenches (Maeght et al., 2013) or coring (Wasson et al., 2014). A portion of the root system is captured with these methods. Alternatively, entire adult root systems can be contained within pots dug into the ground before sowing. These need to be large; field wheat roots, for example, can reach depths greater than 1.5 m depending on genotype and environment. This method prevents root-root interactions that occur under normal field sowing of a plant canopy and is also a compromise.A solution to the problem of phenotyping adult cereal root systems is a model for monocotyledon grasses: Brachypodium distachyon. B. distachyon is a small-stature grass with a small genome that is fully sequenced (Vogel et al., 2010). It has molecular tools equivalent to those available in Arabidopsis (Draper et al., 2001; Brkljacic et al., 2011; Mur et al., 2011). The root system of B. distachyon reference line Bd21 is more similar to wheat than other model and crop grasses (Watt et al., 2009). It has a seed-borne primary seminal root (PSR) that emerges from the embryo at seed germination and multiple stem-borne coleoptile node axile roots (CNRs) and leaf node axile roots (LNRs), also known as crown roots or adventitious roots, that emerge at about three leaves through to grain development. Branch roots emerge from all root types. There are no known anatomical differences between root types of wheat and B. distachyon (Watt et al., 2009). In a recent study, we report postflowering root growth in B. distachyon line Bd21-3, showing that this model can be used to answer questions relevant to the adult root systems of grasses (Chochois et al., 2012).In this study, we used B. distachyon to identify adult plant phenotypes related to the partitioning among seed-borne and stem-borne shoots and roots for the genetic improvement of well-watered and droughted cereals (Fig. 1; Krassovsky, 1926; Navara et al., 1994), nitrogen, phosphorus (Tennant, 1976; Brady et al., 1995), oxygen (Wiengweera and Greenway, 2004), soil hardness (Acuna et al., 2007), and microorganisms (Sivasithamparam et al., 1978). Of note is the study by Krassovsky (1926), which was the first, to our knowledge, to show differences in function related to water. Krassovsky (1926) showed that seminal roots of wheat absorbed almost 2 times the water as nodal roots per unit dry weight but that nodal roots absorbed a more diluted nutrient solution than seminal roots. Krassovsky (1926) also showed by removing seminal or nodal roots as they emerged that “seminal roots serve the main stem, while nodal roots serve the tillers” (Krassovsky, 1926). Volkmar (1997) showed, more recently, in wheat that nodal and seminal roots may sense and respond to drought differently. In millet (Pennisetum glaucum) and sorghum (Sorghum bicolor), Rostamza et al. (2013) found that millet was able to grow nodal roots in a dryer soil than sorghum, possibly because of shoot and root vigor.Open in a separate windowFigure 1.B. distachyon plant scanned at the fourth leaf stage, with the root and shoot phenotypes studied indicated. Supplemental Table S1.
PhenotypeAbbreviationUnitRange of Variation
All Experiments (79 Lines and 582 Plants)Experiment 6 (36 Lines)
Whole plant
TDWTDWMilligrams88.6–773.8 (×8.7)285.6–438 (×1.5)
Shoot
SDWSDWMilligrams56.4–442.5 (×7.8)78.2–442.5 (×5.7)
 No. of tillersTillerNCount2.8–20.3 (×7.4)10–20.3 (×2)
Total root system
TRLTRLCentimeters1,050–10,770 (×10.3)2,090–5,140 (×2.5)
RDWRDWMilligrams28.9–312.17 (×10.8)62.2–179.1 (×2.9)
RootpcRootpcPercentage (of TDW)20.5–60.6 (×3)20.5–44.3 (×2.2)
R/SR/SUnitless ratio0.26–1.54 (×6)0.26–0.80 (×3.1)
PSRs
 Length (including branch roots)PSRLCentimeters549.1–4,024.6 (×7.3)716–2,984 (×4.2)
PSRpcPSRpcPercentage (of TRL)14.9–94.1 (×6.3)31.3–72.3 (×2.3)
 No. of axile rootsPSRcountCount11
 Length of axile rootPSRsumCentimeters17.45–52 (×3)17.45–30.3 (×1.7)
 Branch rootsPSRbranchCentimeters · (centimeters of axile root)−119.9–109.3 (×5.5)29.3–104.3 (×3.6)
CNRs
 Length (including branch roots)CNRLCentimeters0–3,856.70–2,266.5
CNRpcCNRpcPercentage (of TRL)0–57.10–49.8
 No. of axile rootsCNRcountCount0–20–2
 Cumulated length of axile rootsCNRsumCentimeters0–113.90–47.87
 Branch rootsCNRbranchCentimeters · (centimeters of axile root)−10–77.80–77.8
LNRs
 Length (including branch roots)LNRLCentimeters99.5–5,806.5 (×58.5)216.1–2,532.4 (×11.7)
LNRpcLNRpcPercentage (of TRL)4.2–72.7 (×17.5)6–64.8 (×10.9)
LNRcountLNRcountCount2–22.2 (×11.1)3.3–15.3 (×4.6)
LNRsumLNRsumCentimeters25.9–485.548–232 (×4.8)
 Branch rootsLNRbranchCentimeters · (centimeters of axile root)−12.1–25.4 (×12.1)3.2–15.9 (×5)
Open in a separate windowThe third reason for dissecting the different root types in this study was that they seem to have independent genetic regulation through major genes. Genes affecting specifically nodal root growth have been identified in maize (Hetz et al., 1996; Hochholdinger and Feix, 1998) and rice (Inukai et al., 2001, 2005; Liu et al., 2005, 2009; Zhao et al., 2009; Coudert et al., 2010; Gamuyao et al., 2012). Here, we also dissect branch (lateral) development on the seminal or nodal roots. Genes specific to branch roots have been identified in Arabidopsis (Casimiro et al., 2003; Péret et al., 2009a), rice (Hao and Ichii, 1999; Wang et al., 2006; Zheng et al., 2013), and maize (Hochholdinger and Feix, 1998; Hochholdinger et al., 2001; Woll et al., 2005).This study explored the hypothesis that adult root systems of B. distachyon contain genotypic variation that can be exploited through phenotyping and genotyping to increase cereal yields. A selection of 79 wild lines of B. distachyon from various parts of the Middle East (Fig. 2 shows the geographic origins of the lines) was phenotyped. They were selected for maximum genotypic diversity from 187 diploid lines analyzed with 43 simple sequence repeat markers (Vogel et al., 2009). We phenotyped shoots and mature root systems concurrently because B. distachyon is small enough to complete its life cycle in relatively small pots of soil with minimal influence of pot size compared with crops, such as wheat. We further phenotyped a subset of this population under irrigation (well watered) and drought to assess genotype response to water supply. By conducting whole-plant studies, we aimed to identify phenotypes that described partitioning among shoot and root components and within seed-borne and stem-borne roots. Phenotypes that have the potential to be beneficial to shoot and root components may speed up genetic gain in future.Open in a separate windowFigure 2.B. distachyon lines phenotyped in this study and their geographical origin. Capital letters in parentheses indicate the country of origin: Turkey (T), Spain (S), and Iraq (I; Vogel et al., 2009). a, Adi3, Adi7, Adi10, Adi12, Adi13, and Adi15; b, Bd21 and Bd21-3 are the reference lines of this study. Bd21 was the first sequenced line (Vogel et al., 2010) and root system (described in detail in Watt et al., 2009), and Bd21-3 is the most easily transformed line (Vogel and Hill, 2008) and parent of a T-DNA mutant population (Bragg et al., 2012); c, Gaz1, Gaz4, and Gaz7; d, Kah1, Kah2, and Kah3. e, Koz1, Koz3, and Koz5; f, Tek1 and Tek6; g, exact GPS coordinates are unknown for lines Men2 (S), Mur2 (S), Bd2.3 (I), Bd3-1 (I), and Abr1 (T).  相似文献   

9.
Ion channel regulation by protein S-acylation     
Michael J. Shipston 《The Journal of general physiology》2014,143(6):659-678
Protein S-acylation, the reversible covalent fatty-acid modification of cysteine residues, has emerged as a dynamic posttranslational modification (PTM) that controls the diversity, life cycle, and physiological function of numerous ligand- and voltage-gated ion channels. S-acylation is enzymatically mediated by a diverse family of acyltransferases (zDHHCs) and is reversed by acylthioesterases. However, for most ion channels, the dynamics and subcellular localization at which S-acylation and deacylation cycles occur are not known. S-acylation can control the two fundamental determinants of ion channel function: (1) the number of channels resident in a membrane and (2) the activity of the channel at the membrane. It controls the former by regulating channel trafficking and the latter by controlling channel kinetics and modulation by other PTMs. Ion channel function may be modulated by S-acylation of both pore-forming and regulatory subunits as well as through control of adapter, signaling, and scaffolding proteins in ion channel complexes. Importantly, cross-talk of S-acylation with other PTMs of both cysteine residues by themselves and neighboring sites of phosphorylation is an emerging concept in the control of ion channel physiology. In this review, I discuss the fundamentals of protein S-acylation and the tools available to investigate ion channel S-acylation. The mechanisms and role of S-acylation in controlling diverse stages of the ion channel life cycle and its effect on ion channel function are highlighted. Finally, I discuss future goals and challenges for the field to understand both the mechanistic basis for S-acylation control of ion channels and the functional consequence and implications for understanding the physiological function of ion channel S-acylation in health and disease.Ion channels are modified by the attachment to the channel protein of a wide array of small signaling molecules. These include phosphate groups (phosphorylation), ubiquitin (ubiquitination), small ubiquitin-like modifier (SUMO) proteins (SUMOylation), and various lipids (lipidation). Such PTMs are critical for controlling the physiological function of ion channels through regulation of the number of ion channels resident in the (plasma) membrane; their activity, kinetics, and modulation by other PTMs; or their interaction with other proteins. S-acylation is one of a group of covalent lipid modifications (Resh, 2013). However, unlike N-myristoylation and prenylation (which includes farnesylation and geranylgeranylation), S-acylation is reversible (Fig. 1). Because of the labile thioester bond, S-acylation thus represents a dynamic lipid modification to spatiotemporally control protein function. The most common form of S-acylation, the attachment of the C16 lipid palmitate to proteins (referred to as S-palmitoylation), was first described more than 30 years ago in the transmembrane glycoprotein of the vesicular stomatitis virus and various mammalian membrane proteins (Schmidt and Schlesinger, 1979; Schlesinger et al., 1980). A decade later, S-acylated ion channels—rodent voltage-gated sodium channels (Schmidt and Catterall, 1987) and the M2 ion channel from the influenza virus (Sugrue et al., 1990)—were first characterized. Since then, more than 50 distinct ion channel subunits have been experimentally demonstrated to be S-acylated (El-Husseini and Bredt, 2002; Linder and Deschenes, 2007; Fukata and Fukata, 2010; Greaves and Chamberlain, 2011; Resh, 2012). In the last few years, with the cloning of enzymes controlling S-acylation and development of various proteomic tools, we have begun to gain substantial mechanistic and physiological insight into how S-acylation may control multiple facets of the life cycle of ion channels: from their assembly, through their trafficking and regulation at the plasma membrane, to their final degradation (Fig. 2).Open in a separate windowFigure 1.Protein S-acylation: a reversible lipid posttranslational modification of proteins. (A) Major lipid modifications of proteins. S-acylation is reversible due to the labile thioester bond between the lipid (typically, but not exclusively, palmitate) and the cysteine amino acid of is target protein. Other lipid modifications result from stable bond formation between either the N-terminal amino acid (amide) or the amino acid side chain in the protein (thioether and oxyester). The zDHHC family of palmitoyl acyltransferases mediates S-acylation with other enzyme families controlling other lipid modifications: N-methyltransferase (NMT) controls myristoylation of many proteins such as the src family kinase, Fyn kinase; and amide-linked palmitoylation of the secreted sonic hedgehog protein is mediated by Hedgehog acyltransferase (Hhat), a membrane-bound O-acyl transferase (MBOAT) family. Prenyl transferases catalyze farnesyl (farnesyltransferase, FTase) or geranylgeranyl (geranylgeranyl transferase I [GGTase I] and geranylgeranyl transferase II [GGTase II]) in small GTPase proteins such as RAS and the Rab proteins, respectively. Porcupine (Porcn) is a member of the MBOAT family acylates secreted proteins such as Wnt. (B) zDHHC enzymes typically use coenzyme A (CoA)-palmitate; however, other long chain fatty acids (either saturated or desaturated) can also be used. Deacylation is mediated by several acylthioesterases of the serine hydrolase family. (C) zDHHC acyltransferases (23 in humans) are predicted transmembrane proteins (typically with 4 or 6 transmembrane domains) with the catalytic DHHC domain located in a cytosolic loop.

Table 1.

Pore-forming subunits of ion channels experimentally determined to be S-acylated
ChannelSubunitGeneCandidate S-acylation sitesUniProt IDReferences
Ligand-gated
AMPAGluA1Gria1593FSLGAFMQQGCDISPRSLSGRIP23818Hayashi et al., 2005
819LAMLVALIEFCYKSRSESKRMKP23818Hayashi et al., 2005
GluA2Gria2600FSLGAFMRQGCDISPRSLSGRIP23819Hayashi et al., 2005
826LAMLVALIEFCYKSRAEAKRMKP23819Hayashi et al., 2005
GluA3Gria3605FSLGAFMQQGCDISPRSLSGRIQ9Z2W9Hayashi et al., 2005
831LAMMVALIEFCYKSRAESKRMKQ9Z2W9Hayashi et al., 2005
GluA4Gria4601FSLGAFMQQGCDISPRSLSGRIQ9Z2W8Hayashi et al., 2005
827LAMLVALIEFCYKSRAEAKRMKQ9Z2W8Hayashi et al., 2005
GABAAγ2Gabrg2405QERDEEYGYECLDGKDCASFFCCFEDCRTGAWRHGRIP22723Rathenberg et al., 2004; Fang et al., 2006
KainateGluK2Grik2848KNAQLEKRSFCSAMVEELRMSLKCQRRLKHKPQAPVP39087Pickering et al., 1995
nAChRα4Chrna4263TVLVFYLPSECGEKVTLCISVO70174Alexander et al., 2010; Amici et al., 2012
α7Chrna7NDAlexander et al., 2010; Drisdel et al., 2004
β2Chrnb2NDAlexander et al., 2010
NMDAGluN2AGrin2a838EHLFYWKLRFCFTGVCSDRPGLLFSISRGIYSCIHGVHIEEKKP35436Hayashi et al., 2009
1204SDRYRQNSTHCRSCLSNLPTYSGHFTMRSPFKCDACLRMGNLYDIDP35436Hayashi et al., 2009
GluN2BGrin2b839EHLFYWQFRHCFMGVCSGKPGMVFSISRGIYSCIHGVAIEERQQ01097Hayashi et al., 2009
1205DWEDRSGGNFCRSCPSKLHNYSSTVAGQNSGRQACIRCEACKKAGNLYDISQ01097Hayashi et al., 2009
P2X7P2X7P2rx7361AFCRSGVYPYCKCCEPCTVNEYYYRKKQ9Z1M0Gonnord et al., 2009
469APKSGDSPSWCQCGNCLPSRLPEQRRQ9Z1M0Gonnord et al., 2009
488PEQRRALEELCCRRKPGRCITTQ9Z1M0Gonnord et al., 2009
562DMADFAILPSCCRWRIRKEFPKQ9Z1M0Gonnord et al., 2009
Voltage gated
Potassium
BK, maxiKKCa1.1Kcnma143WRTLKYLWTVCCHCGGKTKEAQKIQ08460Jeffries et al., 2010
635MSIYKRMRRACCFDCGRSERDCSCMQ08460Tian et al., 2008; 2010
Kv1.1Kcna1233SFELVVRFFACPSKTDFFKNIP16388Gubitosi-Klug et al., 2005
Kv1.5Kcna516LRGGGEAGASCVQSPRGECGCQ61762Jindal et al., 2008
583VDLRRSLYALCLDTSRETDL-stopQ61762Zhang et al., 2007; Jindal et al., 2008
SodiumNaV1.2Scn2a1NDSchmidt and Catterall, 1987
640MNGKMHSAVDCNGVVSLVGGPP04775Bosmans et al., 2011
1042LEDLNNKKDSCISNHTTIEIGP04775Bosmans et al., 2011
1172TEDCVRKFKCCQISIEEGKGKP04775Bosmans et al., 2011
Other channels
AquaporinAQP4Aqp43DRAAARRWGKCGHSCSRESIMVAFKP55088Crane and Verkman, 2009; Suzuki et al., 2008
CFTRCFTRCFTR514EYRYRSVIKACQLEEDISKFAEKDP13569McClure et al., 2012
1385RRTLKQAFADCTVILCEHRIEAP13569McClure et al., 2012
ConnexinCx32Gjb1270GAGLAEKSDRCSAC-stopP28230Locke et al., 2006
ENaCENaC βScnn1b33TNTHGPKRIICEGPKKKAMWFLQ9WU38Mueller et al., 2010
547WITIIKLVASCKGLRRRRPQAPYQ9WU38Mueller et al., 2010
ENaC γScnn1g23PTIKDLMHWYCLNTNTHGCRRIVVSRGRLQ9WU39Mukherjee et al., 2014
Influenza M2M240LWILDRLFFKCIYRFFEHGLKQ20MD5Sugrue et al., 1990; Holsinger et al., 1995; Veit et al., 1991
RyR1RYR1Ryr114LRTDDEVVLQCSATVLKEQLKLCLAAEGFGNRLP11716Chaube et al., 2014
110RHAHSRMYLSCLTTSRSMTDKP11716Chaube et al., 2014
243RLVYYEGGAVCTHARSLWRLEP11716Chaube et al., 2014
295EDQGLVVVDACKAHTKATSFCP11716Chaube et al., 2014
527ASLIRGNRANCALFSTNLDWVP11716Chaube et al., 2014
1030ATKRSNRDSLCQAVRTLLGYGP11716Chaube et al., 2014
1664SHTLRLYRAVCALGNNRVAHAP11716Chaube et al., 2014
2011HFKDEADEEDCPLPEDIRQDLP11716Chaube et al., 2014
2227KMVTSCCRFLCYFCRISRQNQP11716Chaube et al., 2014
2316KGYPDIGWNPCGGERYLDFLRP11716Chaube et al., 2014
2353VVRLLIRKPECFGPALRGEGGP11716Chaube et al., 2014
2545EMALALNRYLCLAVLPLITKCAPLFAGTEHRP11716Chaube et al., 2014
3160DVQVSCYRTLCSIYSLGTTKNTYVEKLRPALGECLARLAAAMPVP11716Chaube et al., 2014
3392LLVRDEFSVLCRDLYALYPLLP11716Chaube et al., 2014
3625SKQRRRAVVACFRMTPLYNLPP11716Chaube et al., 2014
Open in a separate windowCommon channel abbreviation and subunit as well as gene names are given. Candidate S-acylation sites: experimentally determined cysteine residues (bold) with flanking 10 amino acids. Underlines indicate predicted transmembrane domains. Amino acid numbering corresponds to the UniProt ID. References: selected original supporting citations.Open in a separate windowFigure 2.Protein S-acylation and regulation of the ion channel lifecycle zDHHCs are found in multiple membrane compartments and regulate multiple steps in the ion channel lifecycle including: (1) assembly and (2) ER exit; (3) maturation and Golgi exit; (4) sorting and trafficking; (5) trafficking and insertion into target membrane; (6) clustering and localization in membrane microdomains; control of properties, activity (7), and regulation by other signaling pathways; and (8) internalization, recycling, and final degradation.

Table 3.

Other channels identified in mammalian palmitoylome screens
ChannelGene
Anion
Chloride channel 6Clcn6
Chloride intracellular channel 1Clic1
Chloride intracellular channel 4Clic4
Tweety homologue 1Ttyh1
Tweety homologue 3Ttyh3
Voltage-dependent anion channel 1Vdac1
Voltage-dependent anion channel 2Vdac2
Voltage-dependent anion channel 3Vdac3
Calcium
Voltage-dependent, L-type subunit α 1SCacna1s
Voltage-dependent, gamma subunit 8Cacng8
Cation
Amiloride-sensitive cation channel 2Accn2
Glutamate
Ionotropic, Δ1Grid1
Perforin
Perforin 1Prf1
Potassium
Voltage-gated channel, subfamily Q, member 2Kcnq2
Sodium
Voltage-gated, type I, αScn1a
Voltage-gated, type III, αScn3a
Voltage-gated, type IX, αScn9a
Transient receptor potential
Cation channel, subfamily V, member 2Trpv2
Cation channel, subfamily M, member 7Trpm7
Open in a separate windowChannels identified in global S-acylation screens (Wan et al., 2007, 2013; Kang et al., 2008; Martin and Cravatt, 2009; Yang et al., 2010; Yount et al., 2010; Merrick et al., 2011; Wilson et al., 2011; Jones et al., 2012; Ren et al., 2013; Chaube et al., 2014) and not independently characterized as in and2.2. Common channel abbreviation and gene names are given.Here, I provide a primer on the fundamentals of S-acylation, in the context of ion channel regulation, along with a brief overview of tools available to interrogate ion channel S-acylation. I will discuss key examples of how S-acylation controls distinct stages of the ion channel life cycle before highlighting some of the key challenges for the field in the future.

Fundamentals of S-acylation: The what, when, where, and how

S-acylation: A fatty modification that controls multiple aspects of protein function.

Protein S-acylation results from the attachment of a fatty acid to intracellular cysteine residues of proteins via a labile, thioester linkage (Fig. 1, A and B). Because the thioester bond is subject to nucleophilic attack, S-acylation, unlike other lipid modifications such as N-myristoylation and prenylation, is reversible. However, for most ion channels, as for other S-acylated proteins, the dynamics of S-acylation are poorly understood. Distinct classes of proteins can undergo cycles of acylation and deacylation that are very rapid (e.g., on the timescale of seconds, as exemplified by rat sarcoma [RAS] proteins), much longer (hours), or essentially irreversible during the lifespan of the protein (El-Husseini and Bredt, 2002; Linder and Deschenes, 2007; Zeidman et al., 2009; Fukata and Fukata, 2010; Greaves and Chamberlain, 2011; Resh, 2012). For most ion channels, in fact most S-acylated proteins, the identity of the native lipid species attached to specific cysteine residues is also largely unknown. However, the saturated C16:0 lipid palmitate is commonly thought to be the major lipid species in many S-acylated proteins (Fig. 1). Indeed, much of the earliest work on S-acylation involved the metabolic labeling of proteins in cells with tritiated [3H]palmitate, an approach that still remains useful and important. However, lipids with different chain lengths and degrees of unsaturation (such as oleic and stearic acids) can also be added to cysteines via a thioester linkage, potentially allowing differential control of protein properties through the attachment of distinct fatty acids (El-Husseini and Bredt, 2002; Linder and Deschenes, 2007; Zeidman et al., 2009; Fukata and Fukata, 2010; Greaves and Chamberlain, 2011; Resh, 2012).S-acylation increases protein hydrophobicity and has thus been implicated in controlling protein function in many different ways. Most commonly, as with membrane-associated proteins like RAS and postsynaptic density protein 95 (PSD-95), S-acylation controls membrane attachment and intracellular trafficking. However, S-acylation can also control protein–protein interactions, protein targeting to membrane subdomains, protein stability, and regulation by other PTMs such as phosphorylation (El-Husseini and Bredt, 2002; Fukata and Fukata, 2010; Linder and Deschenes, 2007; Greaves and Chamberlain, 2011; Shipston, 2011; Resh, 2012). Evidence for all these mechanisms in controlling ion channel function is beginning to emerge.

Enzymatic control of S-acylation by zinc finger–containing acyltransferase (zDHHC) transmembrane acyltransferases.

Although autoacylation of some proteins has been reported in the presence of acyl coenzyme A (acyl-CoA; Linder and Deschenes, 2007), most cellular S-acylation, in organisms from yeast to humans, is thought to be enzymatically driven by a family of protein acyltransferases (gene family: zDHHC, with ∼23 members in mammals). These acyltransferases are predicted to be transmembrane zinc finger containing proteins (Fig. 1 C) that include a conserved Asp-His-His-Cys (DHHC) signature sequence within a cysteine-rich stretch of ∼50 amino acids critical for catalytic activity (Fukata et al., 2004). Although the enzymatic activity and lipid specificity of all of the zDHHC family proteins has not been elucidated, S-acylation is thought to proceed through a common, two step “ping pong” process (Mitchell et al., 2010; Jennings and Linder, 2012). However, different zDHHC enzymes may show different acyl-CoA substrate specificities. For example, zDHHC3 activity is reduced by acyl chains of >16 carbons (e.g., stearoyl CoA), whereas zDHHC2 efficiently transfers acyl chains of 14 carbons or longer (Jennings and Linder, 2012). The local availability of different acyl-CoA species may thus play an important role in differentially controlling protein S-acylation.We know very little about how zDHHC activity and function are regulated. Dimerization of zDHHCs 2 and 3 reduces their zDHHC activity compared with the monomeric form (Lai and Linder, 2013). Moreover, zDHHCs undergo autoacylation and contain predicted sites for other posttranslational modifications. Almost half of all mammalian zDHHCs contain a C-terminal PSD-95, Discs large, and ZO-1 (PDZ) domain binding motif, allowing them to assemble with various PDZ domain proteins that regulate ion channels (such as GRIP1b and PSD-95; Thomas and Hayashi, 2013). Other protein interaction domains are also observed in zDHHCs, such as ankyrin repeats in zDHHC17 and zDHHC13 (Greaves and Chamberlain, 2011). Indeed, increasing evidence suggests that various ion channels—including the ligand-gated γ-aminobutyric (GABAA), α-amino-3-hydroxyl-5-methyl-4-isoxazole-propionate (AMPA), and NMDA receptors and the large conductance calcium- and voltage-activated (BK) potassium channels—can assemble in complexes with their cognate zDHHCs.The expansion of the number of zDHHCs in mammals (23 vs. 7 in yeast), together with increased prevalence of PDZ interaction motifs, likely represents evolutionary gain-of-function mechanisms to diversify zDHHC function (Thomas and Hayashi, 2013). Evolutionary gain of function is also seen in ion channel subunit orthologues through acquisition of S-acylated cysteine residues absent in orthologues lower in the phylogenetic tree (such as the transmembrane domain 4 [TM4] sites in GluA1–4 subunits of AMPA receptors [Thomas and Hayashi, 2013] and the sites in the alternatively spliced stress-regulated exon [STREX] insert in the C terminus of the BK channel [Tian et al., 2008]). Importantly, some zDHHCs may have additional roles beyond their acyltransferase function. For example, the Drosophila melanogaster zDHHC23 orthologue lacks the catalytic DHHC sequence, and thus protein acyltransferase activity, and is a chaperone involved in protein trafficking (Johswich et al., 2009), whereas mammalian zDHHC 23 has a functional zDHHC motif and, in addition to S-acylating BK channels (Tian et al., 2012), can bind and regulate, but does not S-acylate, neuronal nitric oxide synthase (nNOS; Saitoh et al., 2004).However, as with most S-acylated proteins, the identity of the zDHHCs that modify specific cysteine residues on individual ion channels is not known. Indeed, relatively few studies have tried to systematically identify the zDHHCs controlling ion channel function (Tian et al., 2010, 2012). Thus we are largely ignorant of the extent to which different zDHHCs may have specific ion channel targets or may display specificity. Some details are beginning to emerge: for example, zDHHC3 appears to be a rather promiscuous acyltransferase reported to S-acylate several ion channels (Keller et al., 2004; Hayashi et al., 2005, 2009; Tian et al., 2010), whereas distinct sites on the same ion channel subunit can be modified by distinct subsets of zDHHCs (Tian et al., 2010, 2012). Although we are still in the foothills of understanding the substrates and physiological roles of different zDHHCs, mutation or loss of function in zDHHCs is associated with an increasing number of human disorders, including cancers, various neurological disorders (such as Huntington’s disease and X-linked mental retardations), and disruption of endocrine function in diabetes (Linder and Deschenes, 2007; Fukata and Fukata, 2010; Greaves and Chamberlain, 2011; Resh, 2012).

Deacylation is controlled by acylthioesterases.

Protein deacylation is enzymatically driven by a family of acylthioesterases that belong to the serine hydrolase superfamily (Zeidman et al., 2009; Bachovchin et al., 2010). Indeed, using a broad spectrum serine lipase inhibitor, global proteomic S-acylation profiling identified a subset of serine hydrolases responsible for depalmitoylation (Martin et al., 2012). This study identified both the previously known acylthioesterases as well as potential novel candidate acylthioesterases. The acylthioesterases responsible for deacylating ion channels, as for most other acylated membrane proteins, have not been clearly defined. Furthermore, the extent to which different members of the serine hydrolase superfamily display acylthioesterase activity toward ion channels is not known. Moreover, whether additional mechanisms of nucleophilic attack of the labile thioester bond may also mediate deacylation is not known.Homeostatic control of deacylation of many signaling proteins is likely affected by a family of cytosolic acyl protein thioesterases including lysophospholipase 1 (LYPLA1; Yeh et al., 1999; Devedjiev et al., 2000) and lysophospholipase 2 (LYPLA2; Tomatis et al., 2010). These enzymes show some selectivity for different S-acylated peptides (Tomatis et al., 2010). Indeed, LYPLA1, but not LYPLA2, deacylates the S0-S1 loop of BK channels, leading to Golgi retention of the channel (Tian et al., 2012). A splice variant of the related LYPLAL1 acylthioesterases can also deacylate the BK channel S0-S1 loop, although the crystal structure of LYPLAL1 suggests it is likely to have a preference for lipids with shorter chains than palmitate (Bürger et al., 2012). Thus, whether lipid preference depends on protein interactions or if BK channels have multiple lipid species at the multicysteine S0-S1 site remain unknown. Relatively little is known about the regulation of these acylthioesterases; however, both LYPLA1 and LYPLA2 are themselves S-acylated. This controls their trafficking and association with membranes (Kong et al., 2013; Vartak et al., 2014) and may be important for accessing the thioesterase bond at the membrane interface. Additional mechanisms may promote accessibility of thioesterases to target cysteines. For example, the prolyl isomerase protein FKBP12 binds to palmitoylated RAS, and promotes RAS deacylation via a proline residue near the S-acylated cysteine (Ahearn et al., 2011).Upon lysosomal degradation, many proteins are deacylated by the lysosomal palmitoyl protein thioesterase (PPT1; Verkruyse and Hofmann, 1996), and mutations in PPT1 lead to the devastating condition of infantile neuronal ceroid lipofuscinosis (Vesa et al., 1995; Sarkar et al., 2013). However, PPT1 can also be found in synaptic and other transport vesicles, and genetic deletion of PPT1 in mice may have different effects on similar proteins, which suggests roles beyond just lysosomal mediated degradation. For example, in PPT1 knockout mice the total expression and surface membrane abundance of the GluA4 AMPA receptor subunit was decreased, whereas PPT1 knockout had no effect on GluA1 or GluA2 AMPA subunits nor on NMDA receptor subunit expression or surface abundance (Finn et al., 2012).However, for most ion channels, the questions of which enzymes control deacylation, where this occurs in cells, and how the time course of acylation–deacylation cycles are regulated are largely unknown. Thus, whether deacylation plays an active role in channel regulation remains poorly understood.

S-acylation occurs at membrane interfaces.

Because the zDHHCs are transmembrane proteins and the catalytic DHHC domain is located at the cytosolic interface with membranes (Fig. 1 C), S-acylation of ion channels occurs at membrane interfaces. Although overexpression studies of recombinant mammalian zDHHCs in heterologous expression systems have indicated that most zDHHCs are localized to either the endoplasmic reticular or Golgi apparatus membranes (or both; Ohno et al., 2006), some zDHHCs are also found in other compartments, including the plasma membrane and trafficking endosomes (Thomas et al., 2012; Fukata et al., 2013). We know very little about the regulation and subcellular localization of most native zDHHC enzymes in different cell types, in large part because of the lack of high-quality antibodies that recognize native zDHHCs. However, some enzymes, including zDHHC2, can dynamically shuttle between different membrane compartments. Activity-dependent redistribution of zDHHC2 in neurons (Noritake et al., 2009) controls S-acylation of the postsynaptic scaffolding protein PSD-95, thereby regulating NMDA receptor function. Intriguingly, as ion channels themselves determine cellular excitability, this may provide a local feedback mechanism to regulate S-acylation status. Thus, although different zDHHCs may reside in multiple membrane compartments through which ion channels traffic, the subcellular location at which most ion channels are S-acylated, as well as the temporal dynamics, is largely unknown. As discussed below (see the “Tools to analyze ion channel S-acylation” section), we are starting to unravel some of the details, with ER exit, Golgi retention, recycling endosomes, and local plasma membrane compartments being key sites in the control of ion channel S-acylation (Fig. 2).

Local membrane and protein environment determines cysteine S-acylation.

The efficiency of S-acylation of cysteine residues is likely enhanced by its localization at membranes because the local concentration of fatty acyl CoA is increased near hydrophobic environments (Bélanger et al., 2001). Furthermore, S-acylation of polytopic transmembrane proteins such as ion channels would be facilitated when S-acylated cysteines are bought into close proximity of membranes by membrane targeting mechanisms such as transmembrane helices (Figs. 3 and and4).4). However, the S-acylated cysteine is located within 10 amino acids of a transmembrane domain in only ∼20% of identified S-acylated ion channel subunits, such as the TM4 site of GluA1–4 (and2).2). Most S-acylated cysteines are located either within intracellular loops (∼40%: Fig. 3, A and B) or the N- or C-terminal cytosolic domains (∼5% and 35%, respectively; Fig. 3, A and B). Furthermore, the majority of S-acylated cysteines located in intracellular loops or intracellular N- or C-terminal domains of ion channel subunits are within predicted regions of protein disorder (Fig. 3 B). This suggests that S-acylation may provide a signal to promote conformational restraints on such domains, in particular by providing a membrane anchor. For these sites, additional initiating membrane association signals are likely required adjacent to the site of S-acylation. Likely candidates include other hydrophobic domains (as for the TM2 site in GluA1–4 subunits; Fig. 4 A) and other lipid anchors (e.g., myristoylation in src family kinases, such as Fyn kinase). However, in >30% of S-acylated ion channels, the S-acylated cysteine is juxtaposed to a (poly) basic region of amino acids that likely allows electrostatic interaction with negative membrane phospholipids. The BK channel pore-forming α subunit, encoded by the KCNMA1 gene, provides a clear example of this latter mechanism. This channel is S-acylated within an alternatively spliced domain (STREX) in its large intracellular C terminus (Fig. 4 C). Immediately upstream of the S-acylated dicysteine motif is a polybasic region enriched with arginine and lysine. Site-directed mutation of these basic amino acids disrupts S-acylation of the downstream cysteine residues (Jeffries et al., 2012). Furthermore, phosphorylation of a consensus PKA site (i.e., introduction of negatively charged phosphate) into the polybasic domain prevents STREX S-acylation. Thus, at the STREX domain, an electrostatic switch, controlled by phosphorylation, is an important determinant of BK channel S-acylation. In other proteins, cysteine reactivity is also enhanced by proximity to basic (or hydrophobic) residues (Bélanger et al., 2001; Britto et al., 2002; Kümmel et al., 2010). Furthermore, cysteine residues are subject to a range of modifications including nitrosylation, sulphydration, reduction-oxidation (REDOX) modification, and formation of disulphide bonds (Sen and Snyder, 2010). Evidence is beginning to emerge that these reversible modifications are mutually competitive for S-acylation of target cysteines (see the “S-acylation and posttranslational cross-talk controls channel trafficking and activity” section; Ho et al., 2011; Burgoyne et al., 2012).Open in a separate windowFigure 3.S-acylation sites in ion channel pore-forming subunits. (A) Schematic illustrating different locations of cysteine S-acylation in transmembrane ion channels subunits. (B) Relative proportion of identified S-acylated cysteine residues: in each location indicated in A (top); in -C-, -CC-, or -Cx(2–3)C- motifs (middle); or in cytosolic regions of predicted protein disorder (bottom; determined using multiple algorithms on the DisProt server, http://www.disprot.org/metapredictor.php; Sickmeier et al., 2007) for transmembrane ion channel pore-forming subunits.Open in a separate windowFigure 4.Multisite S-acylation in ion channels controls distinct functions. (A–C) Schematic illustrating location of multiple S-acylated domains in AMPA receptor GluA1–4 subunits (A), NMDA receptor GluN2A subunits (B), and BK channel pore-forming α subunits (C), encoded by the Kcnma1 gene. Each domain confers distinct functions/properties on the respective ion channel and is regulated by distinct zDHHCs (see the “Control of ion channel cell surface expression and spatial organization in membranes” section for further details).

Table 2.

Accessory subunits and selected ion channel adapter proteins
ChannelSubunitGeneCandidate S-acylation sitesUniProt IDReferences
Voltage gated
CalciumCaVβ2aCacnb21MQCCGLVHRRRVRVQ8CC27Chien et al., 1996; Stephens et al., 2000; Heneghan et al., 2009; Mitra-Ganguli et al., 2009
PotassiumKChip2Kcnip234LKQRFLKLLPCCGPQALPSVSEQ9JJ69Takimoto et al., 2002
KChip3Kcnip335PRFTRQALMRCCLIKWILSSAAQ9QXT8Takimoto et al., 2002
BK β4Kcnmb4193VGVLIVVLTICAKSLAVKAEAQ9JIN6Chen et al., 2013
Adapter proteins that interact with ion channelsPICK1Pick1404TGPTDKGGSWCDS-stopQ62083Thomas et al., 2013
Grip1bGrip11MPGWKKNIPICLQAEEQEREQ925T6-2Thomas et al., 2012; Yamazaki et al., 2001
psd-95Dlg41MDCLCIVTTKKYRQ62108Topinka and Bredt, 1998
S-delphilinGrid2ip1MSCLGIFIPKKHQ0QWG9-2Matsuda et al., 2006
Ankyrin-GAnk360YIKNGVDVNICNQNGLNALHLF1LNM3He et al., 2012
Open in a separate windowCommon channel abbreviation and subunit as well as gene names are given. Candidate S-acylation sites: experimentally determined cysteine residues (bold) with flanking 10 amino acids. Underlines indicate predicted transmembrane domains. Amino acid numbering corresponds to the UniProt ID. References: selected original supporting citations.Although these linear amino acid sequence features are likely to be important for efficient S-acylation, there is no canonical “consensus” S-acylation motif analogous to the linear amino acid sequences that predict sites of phosphorylation. Of the experimentally validated ion channel subunits shown to be S-acylated, ∼70% of candidate S-acylated cysteines are predominantly characterized as single cysteine (-C-) motifs, whereas dicysteine motifs (-CC-) and (CX(1–3)C-) motifs comprise ∼10% and 20% of all sites, respectively (Fig. 3 B). However, several freely available online predictive tools have proved successful in characterizing potential new palmitoylation targets. In particular, the latest iteration of the multiplatform CSS-palm 4.0 tool (Ren et al., 2008) exploits a Group-based prediction algorithm by comparing the surrounding amino acid sequence similarity to that of a set of 583 experimentally determined S-acylation sites from 277 distinct proteins. CSS-palm 4.0 predicts >80% of the experimentally identified ion channel S-acylation sites (Location of S-acylated cysteine is important for differential control of channel function.Many proteins are S-acylated at multiple sites. A remarkable example of this, in the ion channel field, is the recent identification of 18 S-acylated cysteine residues in the skeletal muscle ryanodine receptor/Ca2+-release channel (RyR1). The S-acylated cysteine residues are distributed throughout the cytosolic N terminus, including domains important for protein–protein interactions (Chaube et al., 2014). Although deacylation of skeletal muscle RyR1 reduces RyR1 activity, the question of which of these cysteine residues in RyR1 are important for this effect and whether distinct S-acylated cysteines in RyR1 control different functions and/or properties remains to be determined.However, both ligand-gated (NMDA and AMPA) and voltage-gated (BK) channels provide remarkable insights into how S-acylation of different domains within the same polytopic protein can exert fundamentally distinct effects (Fig. 4). For example, S-acylation of the hydrophobic cytosolic TM2 domain located at the membrane interface of the AMPA GluA1 subunit (Fig. 4 A) decreases AMPA receptor surface expression by retaining the subunit at the Golgi apparatus (Hayashi et al., 2005). In contrast, depalmitoylation of the C-terminal cysteine in GluA1 results in enhanced PKC-dependent phosphorylation of neighboring serine residues, which results in increased interaction with the actin-binding protein 4.1N in neurons, leading to enhanced AMPA plasma membrane insertion (Lin et al., 2009). S-acylation of the C-terminal cluster of cysteine residues (Fig. 4 B, Cys II site) in GluN2A and GluN2B controls Golgi retention, whereas palmitoylation of the cysteine cluster (Cys I site) proximal to the M4 transmembrane domain controls channel internalization (Hayashi et al., 2009). Distinct roles of S-acylation on channel trafficking and regulation are also observed in BK channels (Figs. 4 C and and5).5). S-acylation of the N-terminal intracellular S0-S1 linker controls surface expression, in part by controlling ER and Golgi exit of the channel (Jeffries et al., 2010; Tian et al., 2012), whereas S-acylation of the large intracellular C terminus, within the alternatively spliced STREX domain, controls BK channel regulation by AGC family protein kinases (Tian et al., 2008; Zhou et al., 2012).Open in a separate windowFigure 5.S-acylation controls BK channel trafficking and regulation by AGC family protein kinases via distinct sites. The BK channel STREX splice variant pore-forming α subunit is S-acylated at two sites: the S0-S1 loop and the STREX domain in the large intracellular C terminus. S-acylation of the S0-S1 loop promotes high surface membrane expression of the channel; thus, deacylation of this site decreases the number of channels at the cell surface (see the “Control of ion channel cell surface expression and spatial organization in membranes” section for further details). In contrast, S-acylation of the STREX domain allows inhibition of channel activity by PKA-mediated phosphorylation of a PKA serine motif (closed hexagon) immediately upstream of the palmitoylated cysteine residues in STREX. In the S-acylated state, PKC has no effect on channel activity even though a PKC phosphorylation site serine motif is located immediately downstream of the STREX domain (open triangle). Deacylation of STREX dissociates the STREX domain from the plasma membrane, and exposes the PKC serine motif so that it can now be phosphorylated by PKC (closed triangle), resulting in channel inhibition. In the deacylated state, PKA has no effect on channel activity (open hexagon). Thus, deacylation of the STREX domain switches channel regulation from a PKA-inhibited to a PKC-inhibited phenotype (see the “S-acylation and posttranslational cross-talk controls channel trafficking and activity” section for further details).How does S-acylation of distinct domains control such behavior, and are distinct sites on the same protein acylated by distinct zDHHCs? A systematic small interfering RNA (siRNA) screen of zDHHC enzymes mediating BK channel S-acylation indicated that distinct subsets of zDHHCs modify discrete sites. The S0-S1 loop is S-acylated by zDHHCs 22 and 23, whereas the STREX domain is S-acylated by several zDHHCs including 3, 9, and 17 (Tian et al., 2008, 2012). In both cases, each domain has two distinct S-acylated cysteines; however, whether these cysteines are differentially S-acylated by specific zDHHCs is unknown, Furthermore, whether multiple zDHHCs are required because the domains undergo repeated cycles of S-acylation and deacylation, and thus different zDHHCs function at different stages of the protein lifecycle, remains to be determined. Although systematic siRNA screens have, to date, not been performed on other ion channels, data from other multiply S-acylated channels, such as NMDA, AMPA, and BK channel subunits, supports the hypothesis that zDHHCs can show substrate specificity (Hayashi et al., 2005, 2009; Tian et al., 2010).It is generally assumed that S-acylation facilitates the membrane association of protein domains. This is clearly the case for peripheral membrane proteins, such as RAS or PSD-95, but direct experimental evidence for S-acylation controlling membrane association of the cytosolic domains of transmembrane proteins is largely elusive. One of the best examples involves the large C-terminal domain of the BK channel, which comprises more than two-thirds of the pore-forming subunit (Fig. 5). In the absence of S-acylation of the STREX domain, or exclusion of the 59–amino acid STREX insert, the BK channel C terminus is cytosolic (Tian et al., 2008). However, if the STREX domain is S-acylated, the entire C terminus associates with the plasma membrane, a process that can be dynamically regulated by phosphorylation of a serine immediately upstream of the S-acylated cysteines in the STREX domain (Tian et al., 2008). This S-acylation–dependent membrane association markedly affects the properties and regulation of the channel (Jeffries et al., 2012) and has been proposed to confer significant structural rearrangements. In support of such structural rearrangement, S-acylated STREX channels are not inhibited by PKC-dependent phosphorylation even though a PKC phosphorylation site serine motif, conserved in other BK channel variants, is present downstream of the STREX domain. In other BK channel variants lacking the STREX insert, this PKC site is required for channel inhibition by PKC-dependent phosphorylation. However, after deacylation of the STREX domain, PKC can now phosphorylate this PKC phosphorylation serine motif, which suggests that the site has become accessible, consequently resulting in channel inhibition (Fig. 5; Zhou et al., 2012).How might S-acylation of a cysteine residue juxtaposed to another membrane anchoring domain control protein function? The simplest mechanism would involve acting as an additional anchor (Fig. 3 A). In some systems, juxta-transmembrane palmitoylation allows tilting of transmembrane domains, effectively shortening the transmembrane domain to reduce hydrophobic mismatch (Nyholm et al., 2007), particularly at the thinner ER membrane (Abrami et al., 2008; Charollais and Van Der Goot, 2009; Baekkeskov and Kanaani, 2009), and confer conformational restraints on the peptide (Fig. 3 A). Such a mechanism has been proposed to control ER exit of the regulatory β4 subunits of BK channels. In this case, depalmitoylation of a cysteine residue juxtaposed to the second transmembrane domain of the β4 subunits may result in hydrophobic mismatch at the ER, reducing ER exit, and yield a conformation that is unfavorable for interaction with BK channel α subunits, thereby decreasing surface expression of BK channel α subunits (Chen et al., 2013).

Tools to analyze ion channel S-acylation

Before the seminal discovery of the mammalian enzymes that control S-acylation (Fukata et al., 2004) and current advances in proteomic techniques to assay S-acylation, progress in the field was relatively slow, largely because of the lack of pharmacological, proteomic, and genetic tools to investigate the functional role of S-acylation. It is perhaps instructive to consider that protein tyrosine phosphorylation was discovered the same year as S-acylation (Hunter, 2009). However, the subsequent rapid identification and cloning of tyrosine kinases provided a very extensive toolkit to investigate this pathway. Although the S-acylation toolkit remains limited, the last few years have seen rapid progress in our ability to interrogate S-acylation function and its control of ion channel physiology. Furthermore, S-acylation prediction algorithms, such as CSS-palm 4.0 (Ren et al., 2008), provide an in silico platform to inform experimental approaches for candidate targets.

Pharmacological tools.

The S-acylation pharmacological toolkit remains, unfortunately, empty, with limited specific agents with which to explore S-acylation function in vitro or in vivo. Although the palmitate analogue 2-bromopalmitate (2-BP) is widely used for cellular assays and to analyze ion channel regulation by S-acylation, caution must be taken in using this agent, even though it remains our best pharmacological inhibitor of zDHHCs (Resh, 2006; Davda et al., 2013; Zheng et al., 2013). Unfortunately, 2-BP is a nonselective inhibitor of lipid metabolism and many membrane-associated enzymes, and displays widespread promiscuity (e.g., Davda et al., 2013); does not show selectivity toward specific zDHHC proteins (Jennings et al., 2009); has many pleiotropic effects on cells at high concentrations, including cytotoxicity (Resh, 2006); and also inhibits acylthioesterases (Pedro et al., 2013). Other lipid inhibitors include cerulenin and tunicamycin. However, cerulenin affects many aspects of lipid metabolism, and tunicamycin inhibits N-linked glycosylation (Resh, 2006). Although some nonlipid inhibitors have been developed, these are not widely used (Ducker et al., 2006; Jennings et al., 2009), and there are currently no known activators of zDHHCs or compounds that inhibit specific zDHHCs. In the last few years, several inhibitors for the acylthioesterases LYPLA1 and LYPLA2 have been developed (Bachovchin et al., 2010; Dekker et al., 2010; Adibekian et al., 2012). However, several of these compounds, such as palmostatin B, are active against several members of the larger serine hydrolase family. Clearly, the development of novel S-acylation inhibitors and activators that display both specificity and zDHHC selectivity would represent a substantial advance for investigation of channel S-acylation.

Genetic tools.

To date, most studies have used overexpression of candidate zDHHCs in heterologous expression or native systems and analyzed increases in [3H]palmitate incorporation to define zDHHCs that may S-acylate specific ion channels (e.g. Rathenberg et al., 2004; Hayashi et al., 2005, 2009; Tian et al., 2010; Thomas et al., 2012). Although this is a powerful approach, caution is required to determine whether results obtained with overexpression in fact replicate endogenous regulation. For example, overexpression of some zDHHCs normally expressed in the cell type of interest can result in S-acylation of a cysteine residue that is not endogenously palmitoylated in BK channels (Tian et al., 2010). Point mutation of the cysteine of the catalytic DHHC domain abolishes the acyltransferase activity of zDHHCs and is thus an invaluable approach to confirming that the acyltransferase function of overexpressed zDHHC is required by itself. Increasingly, knockdown of endogenous zDHHCs using siRNA, and related approaches, is beginning to reveal the identity of zDHHCs that S-acylate native ion channel subunits. For example, knockdown of zDHHCs 5 or 8 reduces S-acylation of the accessory subunits PICK1 and Grip1, which control AMPA receptor trafficking (Thomas et al., 2012, 2013); and knockdown of zDHHC2 disrupts local nanoclusters of the PDZ domain protein PSD-95 in neuronal dendrites to control AMPA receptor membrane localization (Fukata et al., 2013). However, relatively few studies have taken a systematic knockdown approach to identify zDHHCs important for ion channel S-acylation. One such approach has, however, revealed that multiple, distinct zDHHCs mediate palmitoylation of the BK channel C terminus (zDHHCs 3, 5, 7, 9, and 17) and that a different subset of zDHHCs (22 and 23) mediate S-acylation of the intracellular S0-S1 loop in the same channel (Tian et al., 2010, 2012). Because some zDHHCs are themselves palmitoylated, the functional effect of overexpressing or knocking down individual zDHHCs on the localization and activity of other zDHHCs must also be carefully determined. For example, siRNA-mediated knockdown of zDHHC 5, 7, or 17 in HEK293 cells paradoxically results in an up-regulation of zDHHC23 mRNA expression (Tian et al., 2012). Furthermore, because many signaling and cytoskeletal elements are also controlled by S-acylation, direct effects on channel S-acylation by themselves must be evaluated in parallel (for example using site-directed cysteine mutants of the channel subunit). Fewer studies have used these approaches to examine the role of acylthioesterases, although overexpression of LYPLA1 and a splice variant of LYPLAL1, but not LYPLA2, deacylates the S0-S1 loop of the BK channel, promoting Golgi retention of the channels (Tian et al., 2012). Gene-trap and knockout mouse models for some zDHHCs (such as 5 and 17) are becoming available, although full phenotypic analysis and analysis of ion channel function in these models are largely lacking.

Proteomic and imaging tools. Lipid-centric (metabolic) labeling assays.

Metabolic labeling approaches are most suited to analysis of isolated cells, rather than tissues, but provide information on dynamic palmitoylation of proteins during the relatively short (∼4 h) labeling period as well as insight into the species of lipid bound to cysteine residues. The classical approach using radioactive palmitate (e.g., [3H]palmitate) remains a “gold standard” for validation, in particular for identification that palmitate is the bound lipid. However, metabolic labeling with [3H]palmitate generally requires immunoprecipitation and days to weeks of autoradiography or fluorography, particularly when analyzing low abundance membrane proteins such as ion channels. To overcome some of these issues, and also to provide a platform to allow cellular imaging of S-acylation, a variety of biorthogonal lipid probes have recently been developed (Hannoush and Arenas-Ramirez, 2009; Hannoush, 2012; Martin et al., 2012; for reviews see Charron et al., 2009a; Hannoush and Sun, 2010). These probes are modified fatty acids with reactive groups, such as an azide or alkyne group, allowing labeled proteins to be conjugated to biotin or fluorophores via the reactive group using Staudinger ligation or “click” chemistry. In particular, development of a family of ω-alkynyl fatty acid probes of different chain lengths (such as Alk-C16 and Alk-C18) have been exploited for proteomic profiling as well as single cell imaging (Gao and Hannoush, 2014) and have been used to identify candidate S-acylated channels in several mammalian cell lines (Charron et al., 2009b; Hannoush and Arenas-Ramirez, 2009; Martin and Cravatt, 2009; Yap et al., 2010; Yount et al., 2010; Martin et al., 2012). It is important to note that palmitic acid can also be incorporated into free N-terminal cysteines of proteins via an amide linkage (N-palmitoylation), addition of the monounsaturated palmitoleic acid via an oxyester linkage to a serine residue (O-palmitoylation), and oleic acid (oleoylation) as well as myristate via amide linkages on lysine residues (Stevenson et al., 1992; Linder and Deschenes, 2007; Hannoush and Sun, 2010; Schey et al., 2010). These modifications can be discriminated from S-acylation by their insensitivity to hydroxylamine cleavage (at neutral pH) compared with the S-acylation thioester linkage. Whether N- or O-linked palmitoylation or oleoylation controls ion channel function remains to be determined.

Cysteine centric (cysteine accessibility) assays: Acyl-biotin exchange (ABE) and resin-assisted capture (Acyl-RAC).

The metabolic labeling approach requires treating isolated cells with lipid conjugates and thus largely precludes analysis of native S-acylation in tissues. However, several related approaches have been developed that exploit the exposure of a reactive cysteine after hydroxylamine cleavage (at neutral pH) of the cysteine-acyl thioester linkage. The newly exposed cysteine thiol can then react with cysteine-reactive groups (such as biotin-BMCC or biotin-HPDP used in the ABE approach; Drisdel and Green, 2004; Drisdel et al., 2006; Draper and Smith, 2009; Wan et al., 2007) or thiopropyl sepharose (used in Acyl-RAC; Forrester et al., 2011) to allow purification of S-acylated proteins that can be identified by Western blot analysis or mass spectrometry. Acyl-RAC has been reported to improve detection of higher molecular weight S-acylated proteins and thus may prove valuable for ion channel analysis. These approaches have been exploited to determine the “palmitoylome” in several species and tissues (e.g., Wan et al., 2007, 2013; Kang et al., 2008; Martin and Cravatt, 2009; Yang et al., 2010; Yount et al., 2010; Merrick et al., 2011; Wilson et al., 2011; Jones et al., 2012; Ren et al., 2013). For example, analysis of rat brain homogenates identified both previously characterized as well as novel S-acylated ion channels (Wan et al., 2013), although it must be remembered that these approaches detect S-acylation and do not define S-palmitoylation per se. Cysteine accessibility approaches determine the net amount of preexisting S-acylated proteins; however, caution is required to eliminate false positives. In particular it is necessary to fully block all reactive cysteines before hydroxylamine cleavage; moreover, the identity of the endogenously bound lipid is of course not known.The lipid- and cysteine-centric approaches are thus complementary. In conjunction with site-directed mutagenesis of candidate S-acylated cysteine residues in ion channel subunits, these approaches have provided substantial insight into the role and regulation of ion channel S-acylation (Fukata et al., 2013). However, this approach does not directly confirm that the protein is S-acylated per se. Furthermore, in most ion channels, and in fact most S-acylated proteins, the identity of the native lipid bound to a specific S-acylated cysteine is not known. Although palmitate is considered to be the major lipid species involved in S-acylation, this has not been directly demonstrated in most cases, and other fatty acids, including arachidonic acid, oleate acid, and stearic acid, have also been reported to bind to cysteine via a thioester S-linkage (Linder and Deschenes, 2007; Hannoush and Sun, 2010). A major reason for this discrepancy is that mass spectrometry–based approaches to identify the native lipid specifically bound to S-acylated cysteines remain a significant challenge. This is particularly true for low abundance proteins such as mammalian ion channels, in contrast to the widespread application of mass spectrometry to directly identify native amino acids that are phosphorylated (Kordyukova et al., 2008, 2010; Sorek and Yalovsky, 2010; McClure et al., 2012; Ji et al., 2013). As such, direct biochemical demonstration of native cysteine S-acylation is lacking in most ion channels.

S-acylation and control of the ion channel lifecycle

Ion channel physiology is determined by both the number of channel proteins at the cognate membrane and by their activity and/or kinetics at the membrane. Evidence has begun to emerge that S-acylation of either pore-forming or regulatory subunits of ion channels controls all of these aspects of ion channel function. Although the focus of this review is S-acylation–dependent regulation of ion channel subunits itself, S-acylation also regulates the localization or activity of many adaptor, scaffolding, and cellular signaling proteins (e.g., G protein–coupled receptors [GPCRs], AKAP18, AKAP79/150, G proteins, etc.), as well as other aspects of cell biology that affect ion channel trafficking and the activity and regulation of macromolecular ion channel complexes (El-Husseini and Bredt, 2002; Linder and Deschenes, 2007; Fukata and Fukata, 2010; Greaves and Chamberlain, 2011; Shipston, 2011; Resh, 2012).

Control of ion channel cell surface expression and spatial organization in membranes.

The control of ion channel trafficking, from synthesis in the ER through modification in the Golgi apparatus to subsequent delivery to the appropriate cellular membrane compartment, is a major mechanism whereby S-acylation modulates ion channel physiology. S-acylation may influence the number of ion channels resident in a membrane through regulation of distinct steps in the ion channel lifecycle (Fig. 2). Indeed S-acylation has been implicated in ion channel synthesis, as well as in channel trafficking to the membrane and subsequent internalization, recycling, and degradation. S-acylation controls the maturation and correct assembly of ion channels early in the biosynthetic pathway. For example, S-acylation regulates assembly of the ligand gated nicotinic acetylcholine receptor (nAChR) to ensure a functional binding site for acetylcholine (Alexander et al., 2010) as well as controlling its surface expression (Amici et al., 2012). S-acylation is also an important determinant of the maturation of both voltage-gated sodium (Nav1.2) and voltage-gated potassium channels (Kv1.5; Schmidt and Catterall, 1987; Zhang et al., 2007). S-acylation also contributes to the efficient trafficking of channels from the ER to Golgi and to post-Golgi transport. Three examples illustrate the importance and potential complexity of S-acylation in controlling ion channel trafficking:(1) S-acylation of a cysteine residue adjacent to a hydrophobic region (TM2) in a cytosolic loop of the GluA1 pore-forming subunit of AMPA receptors (Fig. 4 A) promotes retention of the channel in the Golgi (Hayashi et al., 2005). However, S-acylated Grip1b, a PDZ protein that binds to AMPA receptors, is targeted to mobile trafficking vesicles in neuronal dendrites and accelerates local recycling of AMPA receptors to the plasma membrane (Thomas et al., 2012). In contrast, S-acylation of another AMPA receptor interacting protein, PICK1, is proposed to stabilize AMPA receptor internalization (Thomas et al., 2013).(2) S-acylation of a cluster of cysteine residues juxtaposed to the transmembrane 4 domain (Cys I site) of the NMDA receptor subunit GluN2A (Fig. 4 B) increases surface expression of NMDA receptors by decreasing their constitutive internalization. In contrast S-acylation at C-terminal cysteine residues (Cys II site) decreases their surface expression by introducing a Golgi retention signal that decreases forward trafficking (Hayashi et al., 2009). Even though both sites affect surface expression, only S-acylation of the TM4 juxtaposed cysteine residues influences synaptic incorporation of NMDA receptors, which suggests that this site is an important determinant of the synaptic versus extrasynaptic localization of these ion channels (Mattison et al., 2012). Together, these data highlight the importance of S-acylation of two distinct sites within the same ion channel as well as that of components of the ion channel multimolecular complex as determinants of channel trafficking.(3) S-acylation of a cluster of cysteine residues in the intracellular S0-S1 loop of the pore-forming subunit (Figs. 4 C and and5)5) is required for efficient exit of BK channels from the ER and the trans-Golgi network. Deacylation at the Golgi apparatus appears to be an important regulatory step (Tian et al., 2012). BK channel surface abundance may also be controlled by S-acylation of regulatory β4 subunits. β4 subunit S-acylation on a cysteine residue juxtaposed to the second transmembrane domain is important for the ability of the β4 subunit itself to exit the ER. Importantly, assembly of β4 subunits with specific splice variants of pore-forming α subunits of the BK channel enhances surface expression of the channel, a mechanism that depends on S-acylation of the β4 subunit (Chen et al., 2013). Thus, in BK channels, S-acylation of the S0-S1 loop of the pore-forming subunit controls global BK channel surface expression, and β4 subunit S-acylation controls surface expression of specific pore-forming subunit splice variants. S-acylation of the Kchip 2 and Kchip 3 accessory subunits also controls surface expression of voltage-gated Kv4.3 channels (Takimoto et al., 2002).Moreover, S-acylation modulates the spatial organization of ion channels within membranes. Perhaps the most striking example involves aquaporin 4 (AQP4), where S-acylation of two N-terminal cysteine residues in an N-terminal splice variant (AQP4M1) inhibits assembly of AQP4 into large orthogonal arrays (Suzuki et al., 2008; Crane and Verkman, 2009), perhaps by disrupting interactions within the AQP4 tetramer. S-acylation can affect the distribution of the many membrane-associated proteins between cholesterol-rich microdomains (lipid rafts) and the rest of the membrane. Such clustering has also been reported for various transmembrane proteins, including the P2x purinoceptor 7 (P2X7) receptor, in which S-acylation of the C terminus promotes clustering into lipid rafts (Gonnord et al., 2009). A similar mechanism may underlie synaptic clustering of GABAA receptors mediated by S-acylation of an intracellular loop of the y2 subunit (Rathenberg et al., 2004). In these examples, S-acylation of the channel itself affects membrane partitioning and organization. However, recent evidence in neurons suggests that establishment of “nano” domains of ion channel complexes in postsynaptic membranes may also be established by local clustering of the cognate acyltransferase itself. For example, clustering of zDHHC2 in the postsynaptic membranes of individual dendritic spines provides a mechanism for local control of S-acylation cycles of the PDZ protein adapter, PSD-95, and thereby for controlling its association with the plasma membrane. PSD-95, in turn, can assemble with various ion channels, including NMDA receptors, and can thus dynamically regulate the localization and clustering of ion channel complexes (Fukata et al., 2013). Indeed, an increasing number of other ion channel scaffolding proteins such as Grip1 (Thomas et al., 2012), PICK1 (Thomas et al., 2013), S-delphilin (Matsuda et al., 2006), and Ankyrin G (He et al., 2012) that influence ion channel trafficking, clustering, and localization are now known to be S-acylated.Relatively few studies have identified effects of S-acylation on the intrinsic gating kinetics or pharmacology of ion channels at the plasma membrane. However, a glycine-to-cysteine mutant (G1079C) in the intracellular loop between domains II and III enhances the sensitivity of the voltage-gated Na channel Nav1.2a to the toxins PaurTx3 and ProTx-II, an effect blocked by inhibition of S-acylation. These toxins control channel activation through the voltage sensor in domain III. In addition, deacylation of another (wild-type) cysteine residue (C1182) in the II–III loop produces a hyperpolarizing shift in both activation and steady-state inactivation as well as slowing the recovery from fast inactivation and increasing sensitivity to PaurTx3 (Bosmans et al., 2011). Effects of S-acylation on gating kinetics have also been reported in other channels. For example, in the voltage-sensitive potassium channel Kv1.1, S-acylation of the intracellular linker between transmembrane domains 2 and 3 increases the intrinsic voltage sensitivity of the channel (Gubitosi-Klug et al., 2005). S-acylation of the β and γ subunits of epithelial sodium channels (ENaC) also affects channel gating (Mueller et al., 2010; Mukherjee et al., 2014), and the S-acylated regulatory β2a subunit of N-type calcium channels controls voltage-dependent inactivation (Qin et al., 1998; Hurley et al., 2000).S-acylation is also an important determinant of retrieving ion channels from the plasma membrane for recycling or degradation. S-acylation of a single cysteine residue juxtaposed to the transmembrane TM4 domain of GluA1 and GluA2 subunits of AMPA receptors controls agonist-induced ion channel internalization. These residues are distinct from those controlling Golgi retention of AMPA receptors (Fig. 4 A), which emphasizes the finding that the location and context of the S-acylated cysteines, even in the same protein, is central for their effects on physiological function (Hayashi et al., 2005; Lin et al., 2009; Yang et al., 2009). The stability of many proteins is also regulated by S-acylation; S-acylation of a single cysteine residue in Kv1.5 promotes both its internalization and its degradation (Zhang et al., 2007; Jindal et al., 2008). Thus, in different ion channels, S-acylation can have opposite effects on insertion, membrane stability, and retrieval.

S-acylation and posttranslational cross-talk control channel trafficking and activity.

An emerging concept is that S-acylation is an important determinant of ion channel regulation by other PTMs. Indeed, nearly 20 years ago it was reported that PKC-dependent phosphorylation of the GluK2 (GluR6) subunit of Kainate receptors was attenuated in channels S-acylated at cysteine residues near the PKC consensus site (Pickering et al., 1995). S-acylation of GluA1 subunits of AMPA receptors also blocks PKC phosphorylation of GluA1 and subsequently prevents its binding to the cytoskeletal adapter protein 4.1N, ultimately disrupting AMPA receptor insertion into the plasma membrane (Lin et al., 2009). Intriguingly, PKC phosphorylation and S-acylation have the opposite effect on 4.1N-mediated regulation of Kainate receptor (GluK2 subunit) membrane insertion: in this, case S-acylation promotes 4.1N interaction with Kainate receptors and thereby receptor insertion, whereas PKC phosphorylation disrupts 4.1N interaction, promoting receptor internalization (Copits and Swanson, 2013). Disruption of phosphorylation by S-acylation of residues near consensus phosphorylation sites likely results from steric hindrance, as proposed for S-acylation–dependent regulation of β2 adrenergic receptor phosphorylation (Mouillac et al., 1992; Moffett et al., 1993).S-acylation has also been reported to promote ion channel phosphorylation. For example, site-directed mutation of a cluster of palmitoylated cysteine residues in the GluN2A subunit of NMDA receptors abrogates Fyn-dependent tyrosine phosphorylation at a site between TM4 and the palmitoylated cysteines (Hayashi et al., 2009). Therefore, S-acylation of GluN2A promotes tyrosine phosphorylation, resulting in reduced internalization of the NMDA receptor (Hayashi et al., 2009). Furthermore, S-acylation of BK channels can act as a gate to switch channel regulation to different AGC family kinase signaling pathways, emphasizing the complex interactions that can occur between signaling pathways (Tian et al., 2008; Zhou et al., 2012; Fig. 5). S-acylation of an alternatively spliced insert (STREX) in the large cytosolic domain of the pore-forming subunit of BK channels promotes association of the STREX domain with the plasma membrane. S-acylation of the STREX insert is essential for the functional inhibition of STREX BK channels by PKA-mediated phosphorylation of a serine residue immediately upstream of the S-acylated cysteines. PKA phosphorylation dissociates the STREX domain from the plasma membrane (Tian et al., 2008), preventing STREX domain S-acylation (Jeffries et al., 2012) and leading to channel inhibition. However, deacylation of the STREX domain exposes a PKC consensus phosphorylation site downstream of the STREX domain, allowing PKC to inhibit STREX BK channels (Zhou et al., 2012). Thus, S-acylation acts as a reversible switch to specify regulation by AGC family kinases through control of the membrane association of a cytosolic domain of the channel: S-acylated STREX BK channels are inhibited by PKA but insensitive to PKC, whereas deacylated channels are inhibited by PKC but not PKA (Fig. 5). The reciprocal control of membrane association of a protein domain by S-acylation and protein phosphorylation likely represents a common mechanism in other signaling proteins as revealed for phosphodiesterase 10A (Charych et al., 2010).Cysteine residues are targets for several other modifications that regulate various ion channels, including nitrosylation, sulphydration, REDOX regulation, and formation of disulphide bonds (Sen and Snyder, 2010). Evidence is beginning to emerge that S-acylation may mutually compete with these mechanisms, providing a dynamic network to control cysteine reactivity. For example, the ion channel scaffolding PDZ domain protein PSD-95 is S-acylated at two N-terminal cysteine residues (C3 and C5) that are required for membrane targeting and clustering of PSD-95 (El-Husseini et al., 2002). nNOS also interacts with PSD-95, and stimulation of nitric oxide production results in nitrosylation of these cysteines, preventing their S-acylation and thereby decreasing PSD-95 clusters at postsynaptic sites (Ho et al., 2011). A recent remarkable example of the potential for such cross-talk in ion channel subunits is the identification of the S-acylation of 18 different cysteine residues in the large cytosolic N terminus of RyR1 in skeletal muscle. Of these 18 S-acylated cysteines, six have previously been identified as targets for S-oxidation, and a further cysteine residue was also subject to S-nitrosylation (Chaube et al., 2014) Although the functional relevance of this potential cross-talk in RyR1 has yet to be defined, interaction between oxidation and S-acylation of the same cysteine residue is physiologically relevant in other proteins. For example, oxidation of the signaling protein HRas at two cysteine residues C181/184 prevents S-acylation of these residues, resulting in a loss of plasma membrane localization of this peripheral membrane signaling protein (Burgoyne et al., 2012). Intriguingly, a conserved cysteine residue in nAChR α3 subunits, which has been shown to be S-acylated (C273) in the nAChR α4 subunit, has been implicated in use-dependent inactivation of nAChRs by reactive oxygen species (Amici et al., 2012). Determining whether these mutually competitive cysteine modifications represent an important mechanism for regulation of a range of ion channels is an exciting challenge for the future.S-acylation is also an important determinant of ion channel regulation by heterotrimeric G proteins. This can involve S-acylation of either G protein targets or of regulators of G proteins. In an example of the former, the palmitoylated N terminus of the regulatory β2a subunit splice variant acts as a steric inhibitor of an arachidonic acid binding domain to stimulate N-type calcium channels (Chien et al., 1996; Heneghan et al., 2009; Mitra-Ganguli et al., 2009). When the regulatory β subunits are not S-acylated, however, Gq-mediated signaling, via arachidonic acid, inhibits calcium channel activity. Closure of G protein regulated inward rectifying potassium (GIRK) channels in neurons after Gi/o deactivation provides an example of the latter (Jia et al., 2014). Signaling by members of the Gi/o family of the Gα subunit of heterotrimeric G proteins is terminated by members of the regulator of G protein signaling 7 (R7 RGS) family of GTPase-activating proteins, which accelerate GTP hydrolysis to speed Gi/o deactivation. Membrane localization of regulator of G protein signaling 7 (R7-RGS) is required for its regulation of Gi/o, and this is determined by interaction with an S-acylated R7 binding protein (R7-BP) that acts as an allosteric activator. Thus, the R7-RGS complex, recruited to the plasma membrane by S-acylated R7-BP, promotes Gi/o deactivation to facilitate GIRK channel closure. Conversely, deacylation of R7-BP removes the R7-GS complex from the plasma membrane, slowing Gi/o deactivation and consequent channel closure (Jia et al., 2014). Clearly, as S-acylation can also control an array of GPCRs, enzymes, and signaling and adapter proteins that indirectly control ion channel function (El-Husseini and Bredt, 2002; Linder and Deschenes, 2007; Fukata and Fukata, 2010; Greaves and Chamberlain, 2011; Shipston, 2011; Resh, 2012), understanding how S-acylation dynamically controls other components of ion channel multimolecular signaling complexes will be an essential future goal.

Summary and perspectives

With an ever-expanding “catalog” of S-acylated ion channel pore-forming and regulatory subunits (∼50 to date), together with an array of S-acylated scaffolding and signaling proteins, the importance and ubiquity of this reversible covalent lipid modification in controlling the lifecycle and physiological function and regulation of ion channels is unquestionable. This has been paralleled by a major resurgence in the wider S-acylation field, a consequence in large part of the discovery of S-acylating and deacylating enzymes together with a growing arsenal of genetic, proteomic, imaging, and pharmacological tools to assay and interrogate S-acylation function.As for most other posttranslational modifications of ion channels, including phosphorylation, major future goals for the field include:(1) Understanding mechanistically how covalent addition of a fatty acid can control such a diverse array of ion channel protein properties and functions, and how this is spatiotemporally regulated.(2) Elucidating the physiological relevance of this posttranslational modification from the level of single ion channels to the functional role of the channel in the whole organism in health and disease.Elucidation of these issues has fundamental implications far beyond ion channel physiology.To address these goals several major challenges and questions must be addressed, including:(1) It is largely assumed that S-acylation of transmembrane proteins results in an additional “membrane anchor” to target domains to the membrane interface. However, understanding the mechanisms, forces, and impact of S-acylation on the orientation of transmembrane helices and the architecture and structure of disordered domains in cytosolic loops and linkers, while remaining a considerable technical challenge, should provide major insight into mechanisms controlling channel trafficking, activity, and regulation.(2) Although S-acylation is widely accepted to be reversible, its spatiotemporal regulation of most ion channels is unknown. Mechanistic insight into zDHHC and acylthioesterase substrate specificity, native subcellular localization, and assembly with ion channel signaling complexes will allow us to dissect and understand how S-acylation of ion channels is controlled. Importantly, this should allow us to take both “channel-centric” (e.g., site-directed mutagenesis of S-acylated cysteines) as well as “S-acylation centric” (e.g., knockout of specific zDHHC activity) approaches to understand how multisite S-acylation on the same ion channel subunit can control distinct functions as well as physiological regulation of trafficking and function at the plasma membrane.(3) The functional role of S-acylation cannot be viewed in isolation from other posttranslational modifications. The cross-talk between S-acylation and adjacent phosphorylation sites as well as other cysteine modifications highlights the importance of understanding the interactions between signaling pathways. Insight into the rules, mechanisms, and cross-talk of S-acylation with these modifications has broad implications for cellular signaling.(4) Although it is clear that disruption of S-acylation homeostasis itself has substantial effects on normal physiology, and we are beginning to understand some of the cellular functions of ion channel S-acylation, we know very little about the functional impact of disrupted ion channel S-acylation at the systems and organismal level. Understanding how this may be dynamically regulated during a lifespan is critical to understanding the role of S-acylation in health and disease.To address these issues, development of improved tools to assay and investigate S-acylation from the single protein to organism is required. For example, tools to allow the real-time analysis of S-acylation status of ion channels in cells and tissues will provide fundamental insights into its dynamics and role in ion channel trafficking and membrane localization. Improved proteomic tools will allow direct assay of fatty acids bound to cysteine residues via thioester linkages. Development of new tools and models are essential if we are to understand the physiological relevance of ionic channel S-acylation at the systems level. These include: specific inhibitors of zDHHCs and thioesterases, conditional knockouts to spatiotemporally control zDHHC expression, and transgenics expressing catalytically inactive zDHHCs and models expressing S-acylation–null ion channel subunits. Furthermore, our understanding of how S-acylation may be dynamically controlled during normal ageing in response to homeostatic challenge and disruption in disease states remains rudimentary. Whether we will start to uncover channel “S-acylationopathies” resulting from dysregulation of ion channel S-acylation, analogous to channel phosphorylopathies, remains to be explored. Addressing these issues, together with development of new tools, will provide a paradigm shift in our understanding of both ion channel and S-acylation physiology, and promises to reveal novel therapeutic strategies for a diverse array of disorders.  相似文献   

10.
Root System Markup Language: Toward a Unified Root Architecture Description Language   总被引:1,自引:0,他引:1  
Guillaume Lobet  Michael P. Pound  Julien Diener  Christophe Pradal  Xavier Draye  Christophe Godin  Mathieu Javaux  Daniel Leitner  Félicien Meunier  Philippe Nacry  Tony P. Pridmore  Andrea Schnepf 《Plant physiology》2015,167(3):617-627
  相似文献   

11.
Kv5, Kv6, Kv8, and Kv9 subunits: No simple silent bystanders     
Elke Bocksteins 《The Journal of general physiology》2016,147(2):105-125
  相似文献   

12.
Functional and structural differences between skinned and intact muscle preparations     
Alex Lewalle  Kenneth S. Campbell  Stuart G. Campbell  Gregory N. Milburn  Steven A. Niederer 《The Journal of general physiology》2022,154(2)
Myofilaments and their associated proteins, which together constitute the sarcomeres, provide the molecular-level basis for contractile function in all muscle types. In intact muscle, sarcomere-level contraction is strongly coupled to other cellular subsystems, in particular the sarcolemmal membrane. Skinned muscle preparations (where the sarcolemma has been removed or permeabilized) are an experimental system designed to probe contractile mechanisms independently of the sarcolemma. Over the last few decades, experiments performed using permeabilized preparations have been invaluable for clarifying the understanding of contractile mechanisms in both skeletal and cardiac muscle. Today, the technique is increasingly harnessed for preclinical and/or pharmacological studies that seek to understand how interventions will impact intact muscle contraction. In this context, intrinsic functional and structural differences between skinned and intact muscle pose a major interpretational challenge. This review first surveys measurements that highlight these differences in terms of the sarcomere structure, passive and active tension generation, and calcium dependence. We then highlight the main practical challenges and caveats faced by experimentalists seeking to emulate the physiological conditions of intact muscle. Gaining an awareness of these complexities is essential for putting experiments in due perspective.

IntroductionIn striated muscle, force is generated by sarcomeres located within myocytes (Bers, 2001, 2002). The sarcomere is located within the selectively permeable cell membrane, which supports intracellular ionic homeostasis. Within this highly regulated space, sarcomere force generation is activated by dynamic changes in cytosolic Ca2+. The sarcomeric protein troponin C (TnC) binds to Ca2+, which prompts the formation of myosin cross-bridges between the sarcomere thick (myosin) and thin (actin) filaments. These myofilaments are arranged in a regular lattice oriented along the muscle fiber direction and form the main structural basis of myocyte contraction. The contraction process is regulated by many other intracellular molecules and ions, in particular Mg2+ and H+, as well as by cellular and sarcomeric morphologies.To identify the ionic and molecular mechanisms that regulate the sarcomere, it is necessary to control the chemical environment it is exposed to. The biochemistry of the sarcomere proteins can be studied using in vitro biochemistry assays. However, these fail to account for the regular structure of the sarcomere, which is important for both biochemistry and function. Alternatively, the sarcomeres can be accessed by skinning the muscle, i.e., removing the sarcolemma membrane (or making it permeable to compounds and ions), while preserving sarcomere functionality (Curtin et al., 2015). Exposing the sarcomeres to tailored ionic conditions provides a means to observe and control molecular behavior in a setting that more closely resembles native structures. After skinning, the sarcomere system is effectively isolated from the other cellular subsystems (except in some skeletal muscle experiments that remove the sarcolemma while preserving intracellular organelles and structures; Donaldson, 1985; Fill and Best, 1988; Posterino et al., 2000). This facilitates the study of contraction and its regulation separately from the sarcolemma. The central assumption of skinned muscle experiments is that the response of the sarcomeres to changes in the natural cytosol can be reproduced artificially and controllably through analogous changes in the bathing solution.In skinning protocols (typically used with skeletal muscle) where the SR is preserved, applying caffeine liberates the intracellular Ca2+ reserves to stimulate contraction (Donaldson, 1985). In cases where the T tubules are preserved in the skinning process, ionic substitution in the bathing solution may induce T-tubule membrane depolarization and hence Ca2+ release from the SR (Fill and Best, 1988). An alternative approach to releasing SR calcium is by electric-field stimulation, with the electric field applied transversely relative to the fiber direction (Posterino et al., 2000).The principal readouts of skinned-muscle experiments are contraction kinetics, adenosine triphosphatase (ATPase) activity, and generated force. Their value therefore rests on the premise that the structural integrity of the sarcomeres is preserved. Under this condition, skinned muscle may be viewed as an intermediary experimental system, straddling intact muscle and in vitro molecular experiments.Skinned preparations allow the probing of muscle behavior beyond the current reach of experiments on intact systems. In experiments where contraction is elicited by controlling the bath [Ca2+], the influence of “cytosolic” conditions on Ca2+ sensitivity, in the steady-state, is typically presented in terms of Hill-type force-[Ca2+] relationships, or “F-pCa,” where pCa ≡ − log10[Ca2+]/(mol/liter). Other intracellular molecular structures that fulfill structural and mechanical roles (e.g., titin [Cazorla et al., 2001; Fukuda and Granzier, 2005; Fukuda et al., 2005; Li et al., 2016; Tonino et al., 2017] or the cytoskeleton [Roos and Brady, 1989]) can also be investigated. The controlled progression of the system from one equilibrium state to another has helped to reveal, for example, hysteresis in F-pCa, which may potentially fulfill a physiological role but would be difficult to identify in the dynamic natural system (Bers, 2001; Harrison et al., 1988). Dynamic mechanical experiments also yield insight into myofilament kinetics (Breithaupt et al., 2019; Palmer et al., 2020; Stelzer et al., 2006; Terui et al., 2010). In some (mechanical) skinning methods that preserve the T tubules, further details of the excitation–contraction coupling become experimentally accessible (Fill and Best, 1988; Posterino et al., 2000). The ability to perform protein-exchange manipulations (e.g., cardiac versus skeletal TnC; Babu et al., 1988; Gulati and Babu, 1989), to include fluorescent proteins (e.g., troponin; Brenner et al., 1999), and to perform time-resolved dynamics measurements through the flash photolysis of caged compounds (ATP [Goldman et al., 1982, 1984], inorganic phosphate [Araujo and Walker, 1996; Dantzig et al., 1992; Millar and Homsher, 1990; Tesi et al., 2000], and Ca2+ chelators [Luo et al., 2002; Wahr et al., 1998]) provide additional handles for probing molecular mechanisms. Overall, much of our understanding of striated muscle generally and cytosolic conditions (temperature, pH, etc.) is derived from skinned-muscle experiments (Bers, 2001).Historically, skinning has been performed in a wide array of animal species and striated muscle systems, ranging from single cells to multicellular fibers of cardiac, skeletal, and smooth muscle. Various skinning techniques have been proposed. In “mechanical” skinning, the sarcolemma is effectively peeled off (entirely or partially; Cassens et al., 1986; Endo, 1977; Trube, 1978) by microdissection (Azimi et al., 2020; Donaldson, 1985; Fabiato, 1985b; Fabiato and Fabiato, 1975, 1977, 1978a, 1978b; Fill and Best, 1988; Godt, 1974; Godt and Maughan, 1977; Jewell, 1977; Lamb and Stephenson, 2018; Matsubara and Elliott, 1972; Moisescu, 1976; Rebbeck et al., 2020), while preserving the structural integrity and function of the T tubules and the SR (Lamb and Stephenson, 1990; Posterino et al., 2000; Stephenson, 1981). However, the technique is difficult and no longer used routinely. In contrast, “chemical” skinning involves dissolving or permeabilizing the membrane by applying a chemical agent. The most common agent is Triton X-100 (Solaro et al., 1971), but alternatives include Brij (Hibberd and Jewell, 1982), lubrol (Scheld et al., 1989), glycerol, and saponin (Edes et al., 1995; Endo and Iino, 1980; Gwathmey and Hajjar, 1990; Launikonis and Stephenson, 1997; Patel et al., 2001). Chemical skinning is particularly appropriate for multicellular tissue preparations. Controlling the precise protocol and chemical agent reportedly allows the selective dissolution of the sarcolemma membrane while leaving intracellular organelles (mitochondria and SR) intact. Nonetheless, treatment with (typically 1%) Triton X-100 frees the myofibrils of contamination by mitochondrial, sarcolemmal, and SR membranes while preserving ATPase activity and sensitivity to Ca2+ (Solaro et al., 1971). This straightforwardness makes Triton X-100 demembranation the predominantly used technique today. Other reported skinning approaches use propionate (Reuben et al., 1971) or the Ca2+ chelators EGTA or EDTA (Thomas, 1960; Winegard, 1971; Miller, 1979), but the uncertainty in the underlying mechanisms has undermined the reliability of these methods (Miller, 1979). For completeness, we also mention a less used “freeze drying” approach that arguably preserves the protein content of the fibers better than chemical skinning (De Beer et al., 1992; Schiereck et al., 1993; Stienen et al., 1983).Although, for many years, skinned muscle experiments have served as an invaluable method for investigating fundamental physiology, they are increasingly inspiring more ambitious practical applications. At a practical level, live human cells are inevitably a highly scarce resource, with facilities for collecting, storing, and measuring samples often being displaced both geographically and temporally. These issues are more realistically resolved with skinned cells, which can be preserved frozen for several months (Mosqueira et al., 2019). The development of new sarcomere drugs, including omecamtiv mecarbil and mavacamten, demonstrate that the sarcomere is a viable drug target (Tsukamoto, 2019). Similarly, Ca2+-sensitizing drugs (which act by increasing either the sensitivity to [Ca2+] or the magnitude of the generated force) such as levosimendan (Edes et al., 1995), pimobendan (Fitton and Brogden, 1994; Scheld et al., 1989), sulmazole (Solaro and Rüegg, 1982), isomazole (Lues et al., 1988), and EMD-57033 (Gross et al., 1993; Lee and Allen, 1997) have all been assessed using measurements on skinned fibers. Identifying further novel sarcomere modulator compounds requires large high-throughput screening, which is unrealistic using intact muscle.There is also a growing appetite for exploiting the quantitative value of skinned muscle experiments for more direct clinical applications, such as guiding patient-specific therapies. Much of this ambition relies on the integrative power of computational models to simulate human heart mechanics based on individual patients’ data, linking sub-cellular mechanisms with systemic behavior (Niederer et al., 2019a, 2019b). Building upon basic understanding of muscle behavior, recent developments in biomedical engineering extrapolate physiological processes at the cellular and tissue levels to predict global whole-heart function. As this field continues to grow in maturity, and as model predictions allow more meaningful comparisons with clinical data, efforts are increasingly focusing on quantitatively elucidating the interdependence between cellular behavior, tissue properties, and the anatomy. The quantitative accuracy of the subsystems at all these levels therefore becomes paramount.In both of these evolving applications, the relevance and value of skinned-muscle experiments hinges on their ability to reliably emulate the intact system (Land et al., 2017; Margara et al., 2021; Mijailovich et al., 2021). Skinned-muscle experiments conducted over the past decades confirm the fidelity, in many respects, of these preparations as valid experimental models. However, they also highlight caveats and significant interpretational challenges. Gaining an awareness of these issues is becoming all the more essential to avoid misinterpretations that may have practical consequences. This review therefore aims to highlight these challenges, to help users of skinned-based measurements put them in an appropriate perspective.The present review is structured as follows. We first compare measurements of the principal physiological properties of skinned and intact muscle, highlighting similarities and discrepancies. We focus primarily on chemical skinning, and in particular Triton X-100 (the predominantly used chemical agent). We then describe practical challenges involved in conducting experiments, insofar as they impact on measurement outcomes. We conclude with a summary of recommendations and main caveats.Comparing skinned and intact muscleSkinned muscle experiments aim to reveal and controllably reproduce features of the physiological function of sarcomeres. However, notable discrepancies arise between skinned- and intact-muscle measurements of basic muscle properties that govern overall muscle function. To establish these differences rigorously at the single-cell level encounters significant methodological challenges. Although it might seem obvious that this would require doing measurements systematically on both preparation types in tandem, many early experiments were done predominantly on skinned rather than on intact cells (King et al., 2011). This stems largely from the specific challenges of noninjurious cell attachment and performing small-force measurement on intact single cells (Brady, 1991). More recently, technical developments (e.g., involving the use of flexible carbon fibers to hold the cells at opposite ends; Iribe et al., 2007; Le Guennec et al., 1990; Yasuda et al., 2001) have made these measurements more practicable. Despite these advances, however, only a fraction of studies in the literature have systematically made direct comparisons between skinned and intact systems taken from the same species under optimally similar conditions (see the selection listed in ReferenceSystemIntactSkinning method[Mg2+] (mM)Ionic strength (mM)pH Reuben et al. (1971) CrayfishEGTA-3007.0 Winegard (1971) Frog cardiacEDTA1-6.5–7.0 Matsubara and Elliott (1972) Frog skeletalXDissection1-7.0 Godt (1974) Frog skeletalDissection51507.3 Wood et al. (1975) Human skeletalEGTA2–4-7.0 Moisescu (1976) Frog skeletalDissection11507.1 Godt and Maughan (1977) Frog skeletalXDissection31507.0 Best et al. (1977) Rat cardiacHomogenization0.05, 11507.0 Trube (1978) Mouse cardiacDissection (partial)41327.0 Gordon (1978) Rabbit smoothTriton X-1001.0–6.91307.0 Stienen et al. (1983) Frog skeletalFreeze drying1.11607.0Fabiato and Fabiato (1975, 1978a, 1978b)Rat cardiacDissection0.321607.0 Fabiato and Fabiato (1978a) Frog skeletalDissection0.321607.0 Fabiato (1981) Rat cardiacXEGTA11607.1 Fabiato (1981) Rabbit cardiacXEGTA11607.1 Fabiato (1985b) Canine cardiacDissection31707.1 Hibberd and Jewell (1982) Rat cardiacBrij-580.32007.0Solaro et al. (1971, 1976); Solaro and Rüegg (1982)Canine cardiacTriton X-100Var1007.0 Donaldson (1985) Rabbit skeletalDissection11507.0 Kentish et al. (1986) Rat cardiacXTriton X-10032007.0 Fill and Best (1988) Frog skeletalDissection11507.0 Lues et al. (1988) Various cardiacTriton X-100-1406.7 Roos and Brady (1989) Rat cardiacXTriton X-100-1607.1 Scheld et al. (1989) Human cardiacLubrol PX-1406.7 Harrison and Bers (1989) Rabbit cardiacTriton X-1002.2-7.0 Lamb and Stephenson (1990) Toad skeletalDissection1-7.10 Gwathmey and Hajjar (1990) Human cardiacXSaponin31607.1 Sweitzer and Moss (1990) Rat cardia, rabbit skeletalTriton X-10011807.0 Millar and Homsher (1990) Rabbit skeletalEGTA12007.1 De Beer et al. (1992) Rabbit skeletalFreeze drying--- Gross et al. (1993) Guinea pig cardiacTriton X-100--7.4 Gao et al. (1994) Rat cardiacXTriton X-1001.2-7.0 Wolff et al. (1995a) Canine cardiacTriton X-10011807.0 Edes et al. (1995) Guinea pig cardiacSaponin-1607.4 Araujo and Walker (1996) Rat cardiacTriton X-1001180- Allen et al. (2000) Rat cardiacTriton X-1001–81507.0 Posterino et al. (2000) Rat skeletalDissection1-7.1 Irving et al. (2000) Rat trabeculaeXTriton X-100-2007.35 Patel et al. (2001) Mouse cardiacSaponin + Triton X-100-1807.0 Konhilas et al. (2002) Rat trabeculaeTriton X-1001180- Luo et al. (2002) Rabbit skeletalTriton X-10011807.0 Fukuda et al. (2003) Bovine cardiacTriton X-10011807.0 Prado et al. (2005) Rabbit skeletalXTriton X-100-1807.0 Fukuda et al. (2005) Bovine and rat cardiacTriton X-10011807.0 Stelzer et al. (2006) Mouse cardiacSaponin + Triton X-10011807.0 Terui et al. (2010) Pig cardiacTriton X-10011807.0 Gillis and Klaiman (2011) Fish cardiacTriton X-10011707.0 Curtin et al. (2015) Rabbit skeletalXTriton X-10022007.1 Li et al. (2016) Rabbit skeletalTriton X-100-1807.0 Land et al. (2017) Human cardiacTriton X-10012007.1 Stehle (2017) Guinea pig cardiacTriton X-100-1707.0 Breithaupt et al. (2019) Rat cardiacGlycerol + Triton X-10012007.0 Giles et al. (2019) Mouse cardiacSaponin + Triton X-10011807.0 Azimi et al. (2020) Rat skeletalDissection1-7.1 Rebbeck et al. (2020) Human and rat skeletalDissection1-7.4 Palmer et al. (2020) Mouse cardiacTriton X-10012007.0Open in a separate windowA mark (X) in the Intact column indicates studies that directly compared measurements on both intact and skinned muscle (either performed within the same study or by considering previously published results). Var, variable.Sarcomere structureThe geometrical configuration and separation of the myofilaments regulate their interaction in the native system and hence their ability to generate tension. Under normal physiological conditions, the filament lattice structure is influenced by a complex balance of opposing forces, which include (Millman, 1998) electrostatic interactions between both thick and thin filaments (with charge being affected by pH and screened by the surrounding ionic strength), van der Waals forces, and entropic thermal forces, as well as Donnan osmotic force (whereby water enters the filament lattice to dilute counterions surrounding the charged filaments; Ilani, 2015). It is therefore unsurprising that this balance becomes disrupted upon removal of the sarcolemma.Muscle skinning broadly conserves the sarcomere assembly, but, as illustrated below, detailed quantitative features are altered at different scales. Microscopy and synchrotron x-ray measurements on skinned muscle report a modest increase in sarcomere length (∼3%), accompanied by a greater lateral expansion (up to twofold, depending on conditions), compared with intact cells. This is apparent in both skeletal (Matsubara and Elliott, 1972) and cardiac muscle (Irving et al., 2000; Roos and Brady, 1989). In both skinned and intact preparations, longitudinal stretching decreases the myofilament lattice spacing monotonically. This occurs more slowly in the skinned system, especially at large sarcomere lengths (Fig. 1; Irving et al., 2000). Despite their similar overall behavior, different physical effects are likely to operate in the two systems. The volume of intact cells is approximately conserved (Yagi et al., 2004), and therefore, stretching the cell decreases its cross-sectional area. As the sarcomere number remains constant, this increases the sarcomere density and hence stress generation (force per unit cross-sectional area). The constant-volume constraint is removed in skinned systems (Godt and Maughan, 1977; Irving et al., 2000; Matsubara and Elliott, 1972), which allows the structure to respond more visibly to other forces.Open in a separate windowFigure 1.Average myofilament spacing as a function of the sarcomere length in intact and relaxed skinned rat trabeculae, measured by x-ray diffraction. Adapted from Irving et al. (2000).The expansion of the myofilament spacing in skinned preparations can be reversed by increasing the osmotic pressure of the solution using dextran (Cazorla et al., 2001; Konhilas et al., 2002). However, this compressive effect does not by itself return the myofilaments fully to their intact physiological state (Konhilas et al., 2002). Recent x-ray diffraction experiments have identified an alteration of the detailed molecular structure of the thick filaments below physiological temperatures (Caremani et al., 2019, 2021). Although this effect is overlooked in many experiments, it may significantly affect cross-bridge kinetics.Skinning may also impact sarcomere morphology on larger scales. While measuring the effect of skinning on the sarcomere length in rat heart trabeculae using laser diffraction, Kentish et al. (1986) observed an increase in the diffraction intensity and a decrease in the dispersion of the first-order diffraction. Although this effect might result from the loss of intracellular scatterers (mitochondria, cytosolic proteins, etc.) upon skinning, the authors hypothesize that the skinning process might effectively enhance the homogenization of the sarcomere environment of the skinned tissue, relative to the intact one, where individual cells may display spontaneous and uncoordinated contractions. Nonetheless, the relative homogeneity of the skinned tissue degrades rapidly after successive contractions, possibly due to a loss of integrity of the cellular structure and content, in both cardiac (Kentish et al., 1986) and skeletal muscle (Fabiato and Fabiato, 1978b). This reflects a degree of irreproducibility inherent to skinned systems.Sarcomere structure strongly regulates contractile properties. Changes in both sarcomere length and interfilament spacing affect cross-bridge cycling and influence the regulation and amount of tension generated by skinned sarcomeres. Recent evidence also suggests that skinning may perturb myofilament interactions via steric effects due to myosin head orientations (Caremani et al., 2019, 2021; Konhilas et al., 2002). These effects, discussed further below, highlight the complexity in the disruption of the sarcomere function caused by skinning, relative to intact muscle, and the challenge in rationalizing their discrepancies based on fundamental physics principles. Ultimately, the extent to which skinning modifies sarcomere functionality bears critically on the interpretation of skinned muscle experiments.Passive mechanical compliancePassive mechanical properties of cardiac muscle strongly govern diastolic behavior. In intact tissue, these may have contributions originating in the cells themselves and the extracellular matrix (mostly comprising collagen). Passive tension and sarcomere length vary nonlinearly in both intact and skinned rat ventricular trabeculae preparations (Fig. 2; Kentish et al., 1986). However, in the skinned case, this length dependence is weaker, and the extension range is greater, indicating the presence of additional parallel elastic elements in the intact tissue, potentially associated with the sarcolemma or extracellular structures.Open in a separate windowFigure 2.Passive stress increasing with sarcomere length in skinned and intact rat ventricular trabeculae. The skinned results indicate enhanced mechanical compliance. Adapted from Kentish et al. (1986). Fig. 2 is reprinted with permission from Circulation Research.The qualitative similarity in the passive force-length relations in intact and skinned muscle makes the attribution of their quantitative differences challenging. The direct contribution of the sarcolemma itself, although plausible in principle, is expected to be weak, given its high compliance. However, it is more likely to contribute indirectly, given that the cell volume remains approximately constant upon stretching (Yagi et al., 2004). This effect may also be exacerbated by the Coulombic repulsion of the negatively charged myofilaments that, when confined within a fixed volume, would enhance resistance to lateral cellular compression (Kentish et al., 1986). Skinning may also cause the loss of intracellular components that contribute to the passive mechanics, e.g., a nonfilamentous stroma, comprising vesicular elements that dissolve in the skinning process (Kentish et al., 1986). Similarly, the loss of tubulin dimers from the cytoplasm may interfere with the viscoelastic behavior and resistance to cell shortening of the microtubule cytoskeleton (White, 2011).Structural differences can also explain discrepancies between skinned and intact muscle properties. Variations in the ionic strength acting on skinned myocytes have identified a mechanical contribution from the intracellular cytoskeleton (Roos and Brady, 1989). Similarly, titin contributes to the passive stiffness in isolated myofibrils and skinned single fibers, separately from the extracellular (mostly collagen) contribution (Cazorla et al., 2001; Fukuda and Granzier, 2005; Fukuda et al., 2005; Herzog, 2018; Powers et al., 2017). Within the isolated sarcomeric system, the stiffness varies inversely with the titin molecular size (Mijailovich et al., 2019; Prado et al., 2005), but this correlation disappears in intact fiber bundles, where extracellular contributions (e.g., from collagen) may dominate (Brower et al., 2006; Chung and Granzier, 2011; Fomovsky et al., 2010).Although the above observations highlight the limitations of using skinned preparations as a model for investigating passive mechanics in intact tissue, there may be indirect implications for contractile function. The distribution of force between passive and active mechanisms affects contraction, e.g., via force-dependent Ca2+ sensitivity (Cazorla et al., 2001; Fukuda and Granzier, 2005; Fukuda et al., 2005; Martyn and Gordon, 2001; Mijailovich et al., 2019; Sweitzer and Moss, 1990). In particular, passively elastic titin influences active contraction via the release of troponin I (TnI) from actin, as a result of the redistribution of mechanical load and strain on both the thick and thin filaments (Mijailovich et al., 2019). It may also determine the sarcomere length for a given afterload or the shortest sarcomere length in isotonic contractions.Calcium dependence of tension generationSkinned preparations are often used to measure the Ca2+ dependence of force development under equilibrium conditions. Measured F-pCa relations (e.g., Fig. 3) are conventionally characterized by their maximum saturating value, the location of the half-maximum point (the “sensitivity,” pCa50), and the Hill coefficient n (quantifying the rate of rise and taken as a measure of cooperativity). To assess their validity, analogous F-pCa relations may also be generated in intact muscle by controlling the intracellular [Ca2+] homeostasis via tetanization, i.e., high-frequency activation (Fig. 3). Reported F-pCa relationships vary significantly according to the muscle type and preparations (Fabiato, 1981; Fukuda et al., 2003; Hibberd and Jewell, 1982; Kentish et al., 1986). This is problematic insofar as measurements in skinned systems aim to reproduce the “authentic” behavior in the intact system. The most intuitive mechanism involves an increased Ca2+-troponin binding affinity (Allen and Kentish, 1985; Kentish et al., 1986; Stephenson and Wendt, 1984), but more complex contributions also originate in the thick-filament structure upon stretching (Zhang et al., 2017).Open in a separate windowFigure 3.Comparing the force-calcium relationship in intact and skinned muscle. (a) Intact (ferret, 30°C; Yue et al., 1986) versus skinned (rabbit, 29°C; Harrison and Bers, 1989) muscle. (b) Pooled measurements derived from intact (solid symbols, pCa50 ≈ 6.21, n ≈ 4.9) and skinned (open symbols, 6.04, 3.8) preparations of the same rat ventricular myocytes. max, maximum. From Gao et al. (1994). Fig. 3 is reprinted with permission from Circulation Research.Both pCa50 and n are significantly enhanced in the intact case (in ferret) relative to skinned tissue (rabbit), substantially exceeding typical species-dependent variability observed in skinned muscle (Fig. 3 a; Bers, 2001). A similar qualitative conclusion was drawn from comparisons of intact and skinned preparations of the same rat ventricular myocytes (Fig. 3 b; Gao et al., 1994). These discrepancies are particularly significant when comparing the measured sensitivity values (pCa50 = 5.52; Land et al., 2017) with physiological systolic [Ca2+] levels in the heart (0.6 µM ≃ pCa 6.22; Coppini et al., 2013; Land et al., 2017). Thus, the skinned muscle measurements are clearly incompatible with observed physiological behavior in intact myocytes and hence at the organ scale. Although the dominant underlying biophysical reason for these differences is uncertain, the detailed experimental conditions are fundamentally important (Bers, 2001). A rigorous quantitative comparison is therefore challenging.Skinning may affect the F-pCa relation via the sarcomere structure. An increase in the myofilament spacing plausibly reduces the rate of myosin cross-bridge formation and hence the amount of force generated for a given [Ca2+]. This would translate into a reduction in pCa50, induced by muscle shortening, as observed in both skinned and (more weakly) intact preparations (Komukai and Kurihara, 1997). This mechanism may arguably contribute to the Frank–Starling mechanism in muscle, whereby the strength of contraction increases with stretch. However, this intuitive explanation has been shown to be insufficient in accounting for the complete effect on calcium sensitivity (Irving and Craig, 2019; de Tombe et al., 2010). It is also contradicted by experiments in which comparable myofilament spacings were achieved either via dextran-based osmotic compression or by sarcomere stretching (Konhilas et al., 2002). These discrepancies suggest that the filament spacing may not be the dominant contributor to pCa50. However, this conclusion assumes the functional equivalence of the two scenarios. This may not be the case, as skinning may perturb other intracellular structures (e.g., titin or thin-filament regulatory proteins; Komukai and Kurihara, 1997). Experiments on mouse skinned cardiomyocytes have suggested that titin regulates filament spacing (Cazorla et al., 2001). Osmotic pressure may also impact the cross-bridge structural configuration on smaller molecular scales (Caremani et al., 2021; Konhilas et al., 2002).The sensitivity of the myofilaments to their chemical environment adds a further layer of complexity to skinned experiments. As discussed further below, F-pCa curves depend on the ionic strength, [Mg2+], and pH, all of which are routinely specified in skinned-experiment protocols. Skeletal muscle measurements have shown that increasing the temperature of the bathing solution increases the [Ca2+] required to activate skinned muscle as well as the maximal generated force (Godt and Lindley, 1982). Similarly, decreasing [Mg2+] lowers the activation [Ca2+] (Godt and Lindley, 1982). However, the native cell features other regulators that are lost during skinning and are not typically included in experiments. Sensitizers like taurine, carnosine-like compounds, and myosin light-chain kinase modestly increase the Ca2+ sensitivity (Gao et al., 1994). β-Adrenergic stimulation of intact muscle activates PKA, which in turn affects sarcomere dynamics by phosphorylating TnI and myosin-binding protein C (Gillis and Klaiman, 2011; Kentish et al., 2001; Patel et al., 2001). TnI phosphorylation decreases its binding affinity for Ca2+ (de Tombe and Stienen, 1995; Patel et al., 2001; Zhang et al., 1995), while that of myosin-binding protein C induces a movement of the myosin heads that accelerates force development.Despite their appealing relative simplicity, inconsistencies between skinned and intact muscle suggest fundamental alterations to muscle function by the skinning process. Following the rapid length release and restretch of skinned rat trabeculae, force redevelopment is Ca2+-dependent (Wolff et al., 1995b), unlike the rate of force redevelopment after a rapid-length release of intact ferret trabeculae (Hancock et al., 1993). This discrepancy is arguably explained by the relative dominance of thin- or thick-filament kinetics, respectively (Hunter et al., 1998).Taken together, these results illustrate the challenge of objectively determining the physiological Ca2+ dependence of muscle tension, in large part owing to the considerable technical challenge of replicating the native conditions of the myofilament system in vitro.Force-length relationThe sarcomere length dependence of force generation that underlies the Frank–Starling mechanism is a fundamental property of muscle behavior. Contributing mechanisms include the variation in myofilament overlap as the sarcomere is stretched, the apparent increase in the binding of Ca2+ to TnC with increasing length (Hibberd and Jewell, 1982; Kobirumaki-Shimozawa et al., 2014), and the modulation of the thick- (Fukuda et al., 2001; Zhang et al., 2017) and thin-filament structures (Zhang et al., 2017). The passive mechanical properties of titin (which vary according to the isoform) affect the variation in the lattice spacing under tension, and hence the length dependence of the actomyosin interaction (Fukuda et al., 2003). Recent evidence shows that the strain on titin, effectively acting as a force sensor, contributes to the Frank–Starling effect by influencing the structure of both the thin and thick filaments that are different from Ca2+-induced changes (Ait-Mou et al., 2016).Length-dependent tension, manifested in the F-pCa relationship, is qualitatively similar in intact and skinned preparations (Fig. 4). In the intact case, active tension was measured as the difference between the maximum tension in transiently stimulated muscle and the resting (unstimulated) tension at the same sarcomere lengths. The process was repeated at different [Ca2+] values in the bathing solution, so as to modulate the intracellular calcium. Comparing Fig. 4, a and b, for sufficiently low [Ca2+] below the level for full activation, the skinned- and unskinned-tissue measurements show a qualitatively similar transition from a concave to a convex dependence as [Ca2+] is increased. The results suggest that, whereas the unskinned system sustains no active tension for sarcomere lengths below ∼1.6 µm, the skinned preparation allows tension generation in this regimen, albeit at unphysiologically large [Ca2+]. However, the ability to measure (potentially heterogeneous) sarcomere lengths accurately in this regimen is questionable.Open in a separate windowFigure 4.Active force generation in intact and skinned rat ventricular trabeculae as a function of sarcomere length, for different bath [Ca2+]. From Kentish et al. (1986). Fig. 4 reprinted with permission from Circulation Research.For sufficiently low [Ca2+], the basic contraction mechanisms are thus preserved after skinning, at least qualitatively, suggesting that the general features of the force-length relationship are inherent myofibril properties. However, this conclusion assumes that (1) the chemical environments of the myofilaments are largely similar (any experimentally defined environment can only approximate the real cytosol), and (2) myofilament properties are not appreciably modified by the skinning process. The latter condition may be affected by the reported swelling of the myofilament lattice (Godt and Maughan, 1977; Irving et al., 2000; Konhilas et al., 2002; Matsubara and Elliott, 1972) or by any damage to the filaments occurring during the skinning process. Both of these effects should reduce the gradient of the tension relative to stretch.Significant variations in measurements may originate from structural causes at different levels. The above results, derived from trabeculae, show a steeper length dependence for short sarcomere lengths, compared with those of Fabiato and Fabiato (1975) on (mechanically) skinned maximally activated single ventricular myocytes (Kentish et al., 1986). This discrepancy might be ascribed either to the conservation of intercellular connections and extracellular connective tissue that might be lost in the skinned single myocytes, or to differences in the myofilament spacing in the multicellular tissue preparation. Some more subtle effects, such as the temperature-dependent alteration of the internal thick-filament structure in demembrenated muscle, observed recently (Caremani et al., 2019, 2021), seldom receive due consideration.Length-dependent F-pCa measurements show the sensitivity of muscle activation by calcium increasing with length, as marked by an increase in pCa50 (Fig. 5). The maximum generated force at saturating [Ca2+] also increases. However, the Hill coefficient (n ≈ 7) does not vary significantly. A small but statistically significant increase in n was previously reported (Kentish et al., 1986), albeit based on sparser data, and was explained by invoking several mechanisms, e.g., interactions between adjacent tropomyosin molecules or alterations to the number of possible cross-bridges. Nonetheless, significant discrepancies even in the absolute values of n reported in other studies are also highlighted, potentially related to experimental conditions and the choice of skinning protocol.Open in a separate windowFigure 5.Dependence of the calcium sensitivity on sarcomere length. (a) Hill-type F-pCa for sarcomere lengths (SLs) = 1.85, 1.95, 2.05, 2.15, and 2.25 µm. Forces are normalized to the maximum force measured at SL = 2.05 µm. The data do not show a change in the Hill coefficient. (b) Increase in the Ca2+ sensitivity (decreasing [Ca2+] at half-maximum) with increasing SL, measured from the position of the inflection point in the fitted Hill curves from panel a. Adapted from Dobesh et al. (2002).The force-length relation in striated muscle underpins its central physiological role. Whereas the appeal of skinned muscle experiments for characterizing force generation is highlighted by numerous experiments, rationalizing quantitative differences remains notoriously challenging. In large part, this stems from the highly multifarious influence of the skinning process on the intracellular system and on details of the preparation protocol.Practical challenges: performing skinned muscle experimentsThe previous section illustrated the ability of skinned muscle preparations to reproduce intact muscle behavior while highlighting significant quantitative differences between the two systems. Clarifying the sources of these differences is crucial when developing practical applications that seek to exploit skinned muscle as a reductionist model for native-state muscle. One important hurdle is to correctly replicate the chemical and physiological intracellular environment, in particular with regard to [Mg2+], [ATP], pH, and the ionic strength. By tuning the experimental parameters to match the physiological conditions, the consistency between skinned and intact systems can be significantly improved (Gao et al., 1994; Mijailovich et al., 2021). Over decades, systematic efforts have sought to achieve this through detailed computations of the chemical equilibria of the bathing solutions (Fabiato, 1985a; Fabiato and Fabiato, 1975, 1977; Godt and Maughan, 1977; Moisescu, 1976). In practice, experimental protocols vary, sometimes idiosyncratically, between laboratories.This section outlines some of the elements of experimental protocols for skinned muscle that pose particular challenges insofar as they may significantly impact measurement outcomes.Bathing solution composition

ATP

After skinning, mitochondrial function is compromised, and hence, myocytes can no longer produce ATP (Rüegg, 2012). In multicellular tissue experiments, even a plentiful supply of ATP in the bathing solution may diffuse too slowly to maintain a homogeneous concentration throughout the fiber network (Godt, 1974). However, the inherent ATPase activity of muscle contraction implies a consumption of ATP supplies over the time of experiments. ATP-regenerating systems include creatine phosphate (typically 10–15 mM; Godt, 1974; Lamb and Stephenson, 2018). Nonetheless, in multicellular tissue, the rapid hydrolysis of ATP within the contractile system may yet produce an ATP concentration gradient between the interior and exterior of the network that inaccurately reflects the native state. This problem is arguably less serious in cardiac than skeletal myocytes (typical cardiac cell diameters are ∼13−20 µm, and lengths are ∼60−120 µm [Campbell et al., 1987, 1989; Liu et al., 1991], whereas skeletal muscle fiber diameters range from several microns to thousands of microns [Jimenez et al., 2013], with lengths sometimes reaching centimeters). However, the problem may yet arise in trabeculae.The physiological role of ATP in a given experiment, in addition to its participation in cross-bridge cycling, depends on the muscle preparation. In skeletal muscle experiments that preserve intracellular membrane structures (Endo and Iino, 1980; Launikonis and Stephenson, 1997), ATP governs calcium pumping into the SR (Godt, 1974; Lamb and Stephenson, 2018). This function is of course nonexistent in preparations where the SR has been dissolved. Alongside its role as energetic fuel, ATP also maintains the extensibility of the muscle by allowing myosin to dissociate from actin (Best et al., 1977; Weber and Murray, 1973).The decrease in maximum force with increasing [ATP] (in its physiological form MgATP; Fig. 6 b) is intuitively explained by the reduction in the number of formed cross-bridges (since ATP binding is associated with the release of rigor myosin; Best et al., 1977). An accompanying decrease in pCa50 and an increase in the Hill coefficient (Fig. 6 a; Best et al., 1977) are both complicated by their Mg2+ dependence. These observations have been explained in terms of the effective cooperativity between neighboring cross-bridges in altering the inhibitory properties of troponin, which would arguably increase cross-bridge activation at a given [Ca2+] (Best, 1983; Best et al., 1977; Weber and Murray, 1973). However, this scenario is difficult to reconcile with analogous studies in skeletal muscle that report a qualitatively similar behavior for pCa50 but with little [MgATP] dependence on maximum tension (Godt, 1974).Open in a separate windowFigure 6.Dependence of the force–calcium relationship on MgATP in the rat heart. (a) Decrease in Ca2+ sensitivity (increase in [Ca2+] at half-maximum) as [MgATP] increases from 30 to 100 µM ([Mg2+] = 50 µM). (b) Decrease in the maximum tension with increasing [MgATP]. Adapted from Best et al. (1977).

Mg2+

Mg2+, the second most abundant cation in muscle cells after K+, regulates the Ca2+ sensitivity of myofilament activity via its binding affinity to troponin (Alpert et al., 1979; Bers, 2001; Best, 1983; Best et al., 1977; Rayani et al., 2018; Tikunova and Davis, 2004). The Ca2+-specific low-affinity binding site (site II) at the N-terminal end of cardiac TnC serves as the principal initiator of contraction in the presence of Ca2+ (Bers, 2001). However, the structure of TnC is also controlled by binding sites III and IV, located at the C-terminal end, which competitively bind either Ca2+ (with high affinity) or Mg2+ (low affinity; Rayani et al., 2018; Tikunova and Davis, 2004). According to some cardiac muscle experiments, more Ca2+ is required to achieve a given degree of activation as [Mg2+] increases in the millimolar range (Best, 1983; Tikunova and Davis, 2004), consistent with competitive binding of these ions on TnC. However, this interpretation is contested by other cardiac experiments claiming negligible impact to the Ca2+ sensitivity under even an order-of-magnitude change in Mg2+ (Allen et al., 2000). The precise effect of Mg2+, while being potentially artifactual in some cases, may also vary with the dominant mechanism of action in the specific muscle system considered.Historically, setting the physiologically correct [Mg2+] has been challenging. Its determination requires the consideration of multiple binding equilibria and is naturally prone to uncertainty (Lamb and Stephenson, 2018). Given its relative abundance, cytosolic Mg2+ was initially assumed to merely ensure the balance for anionic charge, but its regulatory role was recognized subsequently. Various techniques have measured [Mg2+] (using spectrophotometry, Mg2+-sensitive electrodes, dye-based measurements, etc.). However, these measurements carry significant uncertainties, particularly given the difficulty of discerning free cytosolic Mg2+ from the total cellular magnesium (up to 20 times greater, contained in MgATP or cellular compartments) or interference from other ions (Romani and Scarpa, 1992). Many measurements report [Mg2+] as being consistently 0.4–0.8 mM but reaching up to 3.5 mM in some cases (Romani and Scarpa, 1992). In the intact rat heart specifically, values of 0.72 mM (from epifluorescence; Gao et al., 1994) or 0.85 mM (19F-NMR; Murphy et al., 1989) have been measured. [Mg2+] in excess of several millimolars are used in some studies but are known to be above the physiological level (Bers, 2001; Hunter et al., 1998).

pH

Intracellular pH in intact muscle regulates all the stages of tension generation, including the handling of Ca2+ by sarcolemmal electrophysiology, its delivery to the myofilaments, and the response of the filaments to the Ca2+ signal (Orchard and Kentish, 1990). This versatility makes it difficult to establish the relative significance of pH on sarcomere function specifically.In skinned muscle, a decrease in pH decreases pCa50. The results in Fig. 7 show a 0.1% drop in pH producing a 0.1% drop in pCa50 (Bers, 2001; Orchard and Kentish, 1990). The precise mechanism for this effect remains uncertain but may involve competition of H+ with Ca2+ for binding to TnC, interactions within the troponin complex, or the shielding of the net effective negative charge of the TnC binding site (Orchard and Kentish, 1990). Although a decrease in calcium sensitivity was also confirmed qualitatively in tetanized intact cardiac muscle (Marban and Kusuoka, 1987), the results differ quantitatively.Open in a separate windowFigure 7.Dependence of pH on the force-calcium relationship in guinea pig trabeculae. Adapted from Orchard and Kentish (1990).The observed decrease in maximal force resulting from decreasing pH in skinned muscle may be due to a direct impact on the efficiency of the coupling of ATP hydrolysis to cross-bridge force generation (Fig. 7; Orchard and Kentish, 1990). ATPase activity is affected by pH in intact muscle, albeit more weakly (Blanchard and Solaro, 1984; Kentish and Nayler, 1979; Orchard and Kentish, 1990). However, it is uncertain whether the same dominant mechanisms are relevant in the intact and skinned cases.The suitability of skinned muscle experiments for reliably investigating pH dependence is thus questionable. Bathing solutions for skinned muscle are typically designed with a high pH-buffering capacity (e.g., with 90 mM HEPES) to maintain a stable pH ∼7 (see Lamb and Stephenson, 2018).

Ionic strength

Ionic strength impacts inversely on the maximum force generated by skinned muscle (Fig. 8; Kentish, 1984). In practice, it can be controlled experimentally, in both cardiac and skeletal experiments, for example by varying KCl in the bathing soution (Kentish, 1984; Solaro et al., 1976). Reported ionic strength values range between 150 and 200 mM (Fig. 8). The inhibition of tension appears to be associated with Ca2+ binding, as this ionic strength dependence is [Ca2+] dependent only in the presence of MgATP (in skeletal muscle; Solaro et al., 1976). However, the precise ionic strength in intact muscle is uncertain (Gao et al., 1994), as reflected in the lack of consensus in the literature (see Open in a separate windowFigure 8.Dependence of generated tension on osmolarity. The osmolarity Γ/2 was controlled by varying (a) the Cl salt (filled circles: KCl; open circles: NaCl; diamonds: TMACl; triangles: choline Cl) or (b) K+ salt concentrations (filled circles: KCl, filled squares: K propionate; open square: K Mes), for pCa = 3.8. The consistency between the results suggests that the tension depends predominantly on the ionic strength rather than on the size of specific ions. From Kentish (1984). Fig. 8 reprinted with permission from Journal of Physiology.

Conclusion

The above considerations of ATP, Mg2+, pH, and ionic strength highlight the sensitivity of skinned muscle measurements to the precise solution composition. Establishing the correct recipe is made all the more challenging given that the impact on measured force generation varies between muscle systems and species. As argued above, although differences between measurements often appear to be quantitative, this does not exclude the possibility of qualitative differences in the dominant mechanisms of action. This fundamental ambiguity introduces considerable complication in translating results meaningfully to the intact system.TemperaturePhysiological function emerges from the balance of multiple temperature-dependent processes. Although measurements should thus ideally always be done at physiological temperature, lower temperatures are often used in practice due to the impaired stability of the sarcomere structure in skinned preparations at higher temperatures. This can have significant consequences on contraction, given the highly variable temperature sensitivities of different subcellular mechanisms (Rall and Woledge, 1990).There is widespread agreement that cooling reduces the maximum generated force in a wide range of muscle types and preparations (Fig. 9; Fabiato, 1985b; Godt and Lindley, 1982; Harrison and Bers, 1989; Stephenson and Williams, 1985; Sweitzer and Moss, 1990). This result has been argued to result more from a change in the force exerted by cross-bridges than from the number of cross-bridges formed (Sweitzer and Moss, 1990). In contrast, the temperature dependence of calcium sensitivity is less consistent. Skinned muscle displays either an increase (Brandt and Hibberd, 1976; Harrison and Bers, 1989; Orentlicher et al., 1977; Sweitzer and Moss, 1990) or a decrease in pCa50 (Fabiato, 1985b; Godt and Lindley, 1982; Stephenson and Williams, 1985) with increasing temperature. However, the former result may be an artifact associated with heterogeneous shortening of sarcomeres at higher temperatures (Sweitzer and Moss, 1990).Open in a separate windowFigure 9.Temperature dependence of the F-pCa relationship in skinned trabeculae from the rabbit ventricle, showing an increase in both the maximum tension Cmax and the sensitivity pCa50 (pCa at half-maximum) with increasing temperature. Adapted from Harrison and Bers (1989).More recent work has revealed further complications in the regulatory role of temperature in muscle. In particular, temperature influences structural thick-filament regulation in both cardiac and skeletal muscle (Caremani et al., 2019, 2021; Park-Holohan et al., 2021). Reducing the temperature disrupts the orderly configuration of the myosin lever arms along the thick filaments, making them less available for force generation and causing an almost threefold decrease in total tissue force.The above experimental results highlight the multifaceted complexity of temperature dependence that arises from the interdependence of multiple molecular processes. Skinned preparations constitute only a subsystem within the overall muscle system, and there is therefore no guarantee that the kinetic balance within the reduced system is physiologically accurate.Sarcomere heterogeneityFor conceptual convenience, muscle tissue is often represented as a homogeneous assembly of identical sarcomeres acting in synchrony. This picture is simplistic in reality. Aspects of muscle dynamics, even under isometric conditions, derive specifically from the heterogeneous behavior at the sarcomere level. For example, within a myofibril, tension relaxation proceeds with the onset of rapid lengthening (“give”), initially in a single weak sarcomere, that then propagates to other sarcomeres along the myofibril (Edman and Flitney, 1982; Poggesi et al., 2005; Stehle, 2017). This effect accounts for the [Pi]-dependent asymmetry in the force kinetics that is observed in contraction-relaxation cycles when [Ca2+] is stepped up and down (Poggesi et al., 2005). It also suggests that relaxation kinetics is governed not only by the rate-limiting steps of the cross-bridge cycle of a generic myosin molecule but also by collective effects at a higher structural level.This effect arguably escapes notice in skinned-fiber experiments that exploit the flash photolysis of caged compounds to time-resolve the details of cross-bridge–cycle kinetics (e.g., the photorelease of inorganic phosphate Pi modulates cross-bridge kinetics; Araujo and Walker, 1996; Dantzig et al., 1992; Millar and Homsher, 1990; Tesi et al., 2000). These experiments suffer from important practical limitations. In particular, the relatively modest (unidirectional) changes in [Pi] achievable by photorelease fail to disrupt the chemomechanical equilibrium of the sarcomeres sufficiently to generate heterogeneous give. Under these near-equilibrium conditions, observed changes in force are more likely to reflect rate-limiting single-cross-bridge kinetics than transients in sarcomere heterogeneity. This obstacle was bypassed in experiments done on isolated myofibrils, which, in contrast, allow sufficiently large jumps in [Pi] (in both directions) to be imposed by rapid solution change (Poggesi et al., 2005; Stehle, 2017). By monitoring the progression of tension decay in conjunction with the lengths of individual sarcomeres, these experiments highlight the role of sarcomere dynamics in accounting for tension relaxation. Compared with skinned-tissue experiments, they also provide better consistency with the relaxation kinetics (kTR) observed in mechanically induced force redevelopment (Stehle, 2017).Practical considerationsThe preceding discussion has highlighted the value of skinned muscle in emulating the essential features of intact muscle contraction in vivo. On the other hand, we have also described how discrepancies between intact and skinned muscle properties are sufficiently significant as to mar the prospect of considering skinned preparations as unambiguous surrogates. The underlying causes are complex, and it is often difficult to distinguish between experimental artifacts and manifestations of genuine physiological differences. This complexity is further compounded by species- or system-dependent specificities (e.g., cardiac versus skeletal muscle). Consequently, in practice, experimental protocols often evolve organically within laboratory communities, based on direct observations and acquired practical knowhow. Interestingly, a recent meta-analysis of published measurements of specific force in skinned human skeletal muscle noted a greater consistency in the results obtained within research groups (defined in terms of commonalities in authorship) than between them (Kalakoutis et al., 2021). This observation could be interpreted as revealing a genealogy of sorts in the evolution of protocols that is at odds with rigorous and objective development, thereby possibly mitigating the appeal of the experiments altogether.Tempting as it may be to imagine a universally applicable method, we feel it would be counterproductive to seek to disentangle and confront the rationales of individual protocols, with the risk of dogmatically promoting one valid method among several. The very idea of a unique universal recipe, valid for all experiments, is indeed highly questionable. As a more fruitful approach, we instead present the following themes as set of general guiding principles for encouraging good experimental practice.Monitoring sarcomeric dynamicsGiven the importance of sarcomere length and interfilament dynamics in force generation, we recommend that mechanical force measurements be accompanied by the simultaneous measurement of striation patterns. This would include the mean sarcomere length and, ideally, an index of heterogeneity and/or stability. We recognize that these measurements may be particularly challenging in cardiac trabeculae.Fixing the pHEnsuring the constancy of pH is paramount for ensuring consistency in measurements. This is achieved by applying a suitable buffer, in many cases imidazole.Saturation with ATPA useful simplification of the experimental system is to ensure that the cross-bridge cycling kinetics is not rate-limited by ATP. In most cases, this can be achieved by using solutions with at least 4 mM free ATP.Careful control of [Ca2+]The importance of correctly determining the concentration of free Ca2+ cannot be sufficiently emphasized. Some laboratories use pCa solutions based on recipes that originate with Fabiato and Fabiato (1979) or Godt and Lindley (1982). Those wishing to make new recipes can consider using the MaxChelator software suite (Bers et al., 2010; Patton et al., 2004), which can provide appropriate stoichiometric concentrations of Ca2+, Mg2+, EGTA, and ATP for use in experimental solutions. A useful recipe for producing buffers with varying [Ca2+] is to prepare “low” and “high” reference buffers (e.g., with pCa = 9.0 and 4.5) and to mix them in appropriate proportions.Choice of temperatureGiven the importance of temperature as a determinant of muscle kinetics, it stands to reason that experiments should be done at physiological temperatures. However, a practical drawback is its destabilization of the sarcomere structure. Skeletal fibers have historically been measured at lower temperatures (sometimes even near above freezing) to ensure that preparations last the experiment duration. Many experiments on both skeletal and cardiac muscle can be done at 15°C. However, it is worth noting that rodent myocardium is more fragile than human (where room temperature or even 37°C is possible), possibly owing to differences in metabolic and ATPase rates. As a general recommendation, we would encourage experimentalists to choose temperatures that are nearest to physiological conditions where the preparation is stable. It is, however, perhaps even more important to only compare experimental results obtained at the same temperature.ConclusionThe aim of this review was to survey the benefits of skinned muscle measurements for characterizing cardiac muscle physiology, while highlighting intrinsic challenges for both the conduct and the interpretation of measurements. These features are summarized in Strengths• Direct access to the sarcomere system• Separation of cellular subsystems (e.g., sarcomeres versus sarcolemma)• Ability to use fluorescent probes and other analytic tools• Convenience of controllably performing different standardized experiments (e.g., isometric/isotonic contractions)• Ability to perform protein exchange experiments that preserve overall functionality (e.g., troponin; Babu et al., 1988; Brenner et al., 1999; Gulati and Babu, 1989); and to probe time-resolve sarcomere dynamics by photolysis of caged compounds (ATP [Goldman et al., 1982, 1984], inorganic phosphate [Araujo and Walker, 1996; Dantzig et al., 1992; Millar and Homsher, 1990; Tesi et al., 2000], and Ca2+ chelators [Luo et al., 2002; Wahr et al., 1998])• Simpler handling and storage logistics (samples can be thawed and analyzed after prior freezing) Weaknesses • Challenge of reproducing the native physiological environment• Variations in results between laboratories• Instability and sensitivity to temperature• Challenges of [Ca2+] calibration• Structural changes caused by skinning (e.g., altered sarcomere morphology, loss of cellular heterogeneity), impacting functional behaviorOpen in a separate windowThe potential pitfalls of mischaracterizing sarcomere behavior, based on skinned muscle measurements, are particularly exposed when considering the broader physiological context, where different cardiac subsystems operate simultaneously (Mosqueira et al., 2019; Niederer et al., 2019b). Pharmacological research increasingly exploits skinned muscle experiments to assess targeted drug action on sarcomeres (Dou et al., 2007; Edes et al., 1995; Fitton and Brogden, 1994; Hara et al., 1999; Kobayashi et al., 1991; Lamont and Miller, 1992; Lee and Allen, 1997; Lues et al., 1988; Scheld et al., 1989; Solaro and Rüegg, 1982; Sudo et al., 2001; Tadano et al., 2010). However, drug impact is notoriously multifaceted, and side effects, unseen in the isolated sarcomeres, may readily and unpredictably overwhelm intended effects (Lee and Allen, 1997; Lues et al., 1993). These side effects notwithstanding, the extrapolation of skinned-muscle measurements to the native cellular state and to systemic cardiac function encounters significant interpretational hurdles, as illustrated above.Skinned muscle measurements carry intrinsic uncertainty, as experiments performed using different animal models, temperatures, and protocols occasionally produce contradictory characterizations. Approximate quantitative accuracy is obviously highly problematic in the perspective of developing customized clinical care. This requirement is particularly important given the modular nature of models and the need to combine interacting subsystems on different length scales (Niederer et al., 2019a, 2019b). In practice, the interfacing of such modules normally requires ad hoc empirical alterations to model parameters, often relying on the modeler’s judgment (Hunter et al., 1998; Land et al., 2017). These choices are naturally often speculative.Despite these difficulties, it would be wrong to misrepresent the true potential of skinned-muscle experiments. Just as animal models are essential for investigating human physiology, skinned muscle provides an experimental setting with unique benefits. Biophysical modeling helps to formalize the conceptual basis for interpreting experimental data in terms of specific mechanisms (for example, an observed variation in pCa50 may result from changes to troponin binding kinetics or cross-bridge formation). Global sensitivity analyses allow a ranking of the relative importance of individual model parameters, thus providing a handle for guiding judgment in how to use measurement-derived parameters (Longobardi et al., 2020). In this perspective, the benefit of models is in providing a framework for formulating and testing hypotheses, rather than delivering fixed and absolute representations of the muscle system.The appeal of skinned muscle preparations is best appreciated by seeing them not as a direct emulation of real muscle, but rather as one further element in the physiologist’s experimental armory. This issue is well illustrated by Irving and Craig (2019) with reference to a loosening of the thick-filament structure induced by cardiac myosin-binding protein C phosphorylation. This effect was manifested as a structural change in skinned cardiac muscle but may be eclipsed in the compact and crowded conditions of intact muscle. In such circumstances, attempting to reconcile the experiments, even qualitatively, may seem futile. Yet the skinned-muscle effect may well be the telltale indicator of a genuine regulatory mechanism that would otherwise remain invisible and unmeasurable in the intact system. Rather than seeking a literal mirroring of these skinned and intact experiments at any cost, additional physiological insight might potentially be gained by further pursuing the experiments, and comparing their quantitative results in parallel, in other cell types or under different experimental conditions. Ultimately, the integration of experimental findings remains a continual process involving a balance of pragmaticism and biophysically guided scientific judgment.  相似文献   

13.
The cell biology of disease: Lysosomal storage disorders: The cellular impact of lysosomal dysfunction     
Frances M. Platt  Barry Boland  Aarnoud C. van der Spoel 《The Journal of cell biology》2012,199(5):723-734
  相似文献   

14.
Demonstrated and inferred metabolism associated with cytosolic lipid droplets     
Joel M. Goodman 《Journal of lipid research》2009,50(11):2148-2156
Cytosolic lipid droplets were considered until recently to be rather inert particles of stored neutral lipid. Largely through proteomics is it now known that droplets are dynamic organelles and that they participate in several important metabolic reactions as well as trafficking and interorganellar communication. In this review, the role of droplets in metabolism in the yeast Saccharomyces cerevisiae, the fly Drosophila melanogaster, and several mammalian sources are discussed, particularly focusing on those reactions shared by these organisms. From proteomics and older work, it is clear that droplets are important for fatty acid and sterol biosynthesis, fatty acid activation, and lipolysis. However, many droplet-associated enzymes are predicted to span a membrane two or more times, which suggests either that droplet structure is more complex than the current model posits, or that there are tightly bound membranes, particularly derived from the endoplasmic reticulum, which account for the association of several of these proteins.Cytosolic lipid droplets, originally thought to be simply coalesced neutral lipids waiting for lipolysis at metabolic demand, are now known to be considerably more complicated both structurally and functionally. There is general agreement that droplets are comprised of a core of neutral lipids, principally triglycerides and steryl esters, surrounded by a leaflet of phospholipids into which are embedded a specific subset of cellular proteins, the most abundant of which are members of the PAT family (see below) in animal cells (1). However, this model is probably too simple; there is evidence from physical probes of droplets isolated from yeast mutants unable to synthesize triglycerides or steryl esters that these two molecular families are partially segregated within the core, with thin shells of steryl esters forming concentric hollow spheres around an inner core composed principally of triglycerides (2).The next layer of complexity is the functional inhomogeneity of droplets. Subsets of droplets within the same cells exist with different populations of PAT proteins, differentiating among different sizes, ages, and levels of metabolic activity (3, 4). Perhaps most surprisingly, droplets may be comprised, at least in some cases, not of the layered core-phospholipid shell architecture at all but a knot of tightly woven endoplasmic reticulum (ER) surrounded by secreted neutral lipid, itself encased with a single leaflet. Such a model is based on electron microscopic thin sections (5), freeze fracture-immunogold evidence (6), immunohistochemical studies of ER luminal proteins within the droplet (7), and the identification of these proteins, notably ER chaperones, in several proteomic studies. Although certainly, such a complex structure must obey physical laws governing aqueous interactions with hydrophobic lipids and artifacts in processing for electron microscopy do occur, it may be best at present to keep an open mind and consider that droplets may not have the same structure among tissues and that they may take multiple physical forms in rapid order as they dynamically perform their functions.What are these functions? The most obvious one is lipid metabolism, namely the biogenesis and breakdown of the neutral lipids contained within the droplet. Although this conclusion predates proteomic studies (8), these recent studies have revealed the breadth and conservation of metabolic reactions that occur at or near the droplet surface, the subject of this review. Moreover, proteomics has demonstrated the surprising fact that droplets are likely to be very active in organellar communication because they are replete in rab proteins and other trafficking molecules. Our knowledge from proteomic studies of droplet trafficking and communication is discussed separately in this thematic review series.A major caveat must be kept in mind when evaluating droplet proteomics data: besides droplet trafficking through transient interactions with vesicles or target organelles such as early endosomes (9), droplets make extensive, tight, and long-lasting synapses with the endoplasmic reticulum, mitochondria, and peroxisomes (10, 11). The fact that ER, mitochondrial, peroxisomal, and a few plasma membrane proteins are found with such high frequency in the droplet proteome probably reflects these tight interorganellar interactions, perhaps similar to the mitochondrially associated membranes (MAMs) that link mitochondria with ER (12). The molecular basis for droplet-mediated synapses are not yet known. Besides the frequent occurrence of specific nondroplet organelle proteins in the droplet proteome, adventitious contamination of droplets is unlikely in view of the unique density of droplets that allow their flotation to the top of aqueous buffers and density gradients after centrifugation while all other cell components sink (which also permits several washes with high recovery), and the nonrandom coisolation of subsets of proteins from other organelles, such as the β-oxidation peroxisomal enzymes (10), which suggests specialized regions for metabolically-productive droplet interactions at the synapses.Droplet-ER interactions are a special case; it is the rule rather than the exception that enzymes of lipid metabolism that are found in the droplet proteome are also found to varying extents in the ER. This has been well documented in yeast through genome-wide green fluorescent protein (GFP)-tagging (13, 14). Erg6p, an enzyme in the latter part of the ergosterol biosynthetic pathway, is the only droplet protein in the pathway with a near-exclusive droplet localization in yeast; Erg1p, Erg7p, and Erg 27p are dually localized, and the pattern changes depending on metabolic state. Whether this general rule is specific for yeast, in which droplets remain on the ER surface (15), is not yet clear. However, several examples already exist in mammalian cells: cytochrome b5 reductase (DT diaphorase) and various sterol dehydrogenases (see 12).

TABLE 1.

Metabolic functions of droplets as revealed by proteomics
ProteinReference(s)Comments
Fatty Acid Synthesis
ATP citrate lyase(e)Generates acetyl-CoA
Acetyl-CoA carboxylase/ACC1(i) (j) (n) (o)(e)Generates malonyl CoA
3-Oxoacyl(ACP) synthase(e)Drosophila; early step in FA synthesis
Fatty acid synthase(e)Drosophila
Diaphorase 1/Cytochrome b5 reductase(g)(h)(j) (l) (n) (o)Redox carrier in FA elongation and many others
Fatty acid desaturase 2(e) (m)Many hydrophobic spans likely
Fatty Acid Activation
Acyl-CoA synthetase/ACSL1(g) (n)Fatty acid-CoA ligase
Acyl-CoA synthetase/ACSL3(g)(h)(i) (j) (l) (n) (o)Fatty acid-CoA ligase
Acyl-CoA synthetase/ACSL4(g)(h) (j) (l) (n)Fatty acid-CoA ligase
Acyl-CoA synthetase/ACSL5(m)LACS2
Acyl-CoA synthetases/FAA1, FAA4, FAT1(a) (d)Yeast enzymes; FAT1 is a FA transporter; may have synthetase activity
Steroid Synthesis
Squalene epoxidase/ERG1(a) (i) (j) (o)(d)
Lanosterol synthase/ERG7(a)(g) (h) (i) (j) (m) (o)(d)
NAD(P) steroid dehydrogenase like (NSDHL)/ERG26(g)(h) (i)(m) (o)Sterol synthesis
3-keto reductase 17 βHSD7/ERG27(b)*(c)*(g) (j)(n) (o)(d)Sterol synthesis
C24-methyltransferase/ERG6(a) (c)* (d)Specific to ergosterol synthesis in fungi
17 β-HSD11 (retinal short chain dehydrogenase)(h) (i) (j) (l) (m) (n) (o) (e)Testosterone biosynthesis; steroid metabolism
17 β-HSD4(l)Bile salt snthesis
17 β-HSD13(m)A short-chain dehydrogenase
17 β-HSD3(m)Steroid metabolism
Triglyceride Synthesis
AcylDHAP reductase/AYR1(d)Determined early biochemically (68)
LysoPA acyltransferase/SLC1(d)Determined earlier biochemically (69)
DAG acyltransferase/DGA1Determined biochemically in yeast (70)
Lipolysis
Hormone-sensitive lipase(f)(g)Diglyceride lipase [first characterized in (71)]
Fat-specific gene 27(g)Lipase activity
ATGL(n) (o)Triglyceride lipase
Monoglyceride lipase(m)
Tgl3, Tgl4, Tgl5(a)Yeast triglyceride lipases [for Tgl4 and 5 see (60)]
Tgl1p, Yeh1p(a)Yeast steryl ester lipases; Yeh1 localized in (62)
PLC α(n)
Phospholipase A1(n)
Lipase Modulators
Perilipin(g)PAT family
ADRP(g)(h) (i) (k) (l) (m) (n) (o)PAT family
TIP47(g)(h) (l) (m) (o)PAT family
S3-12(g)PAT family
LSD2(e)(f)PAT family (Drosophila)
CGI-58(g) (i) (n) (o) (f)Regulator of ATGL; has endogenous acyltransferase activity (72)
Caveolin 1(g) (m) (n)May bridge perilipin with PKA to stimulate lipolysis
Other Redox Enzymes
Cytochrome p450(e)Mostly in ER
Cytochrome b5(e)Mostly in ER
Alcohol dehydrogenase 4(j) (m)(n) (e)Most in cytoplasm. Broad specificity, including retinols, aliphatic alcohols, and steroids
Aldehyde dehydrogenase /ALDH3B1(g)Can oxidize medium and long chain aldehydes
Glyceraldehyde phosphate dehydrogenase(a)(h) (l) (m) (n) (o) (e)Cytosolic glycolytic enzyme, but often found with droplets
Xanthine oxidoreductase(k)Identified in mammary tissue only
Gulonolactone oxidase(m)Drosophila; missing in humans. Role in ascorbic acid synthesis
Short-chain dehydrogenase/reductase member 1(g) (j) (n)(e)Unknown substrate
Other Enzymes
Acyl-CoA:ethanol o-acyltransferase /EHT1(a)(d)Generation of medium-chain ethyl esters
SCCPDH (CGI49)(h)(n) (o)Degradation of lysine
PI4 phosphatase/SAC1(n)
Serine palmitoyltransferase subunit 1 isoform a(n)Sphingolipid synthesis
SAM-dependent methyltransferase(j)Biosynthesis of phosphatidylcholine
Possible Contamination
Sterol carrier protein 2-related form(l) (e)May have thiolase activity. Peroxisomal contamination?
Palmitoyl-protein thioesterase(j) (n)Lysosomal contamination?
ER carboxyesterase(k)Mammary; used to make triglyc for lipooproteins
ATPsynthase2(g)Mitochondrial contamination
Carbamoyl P Synthetase 1(m)Mitochondrial contamination
Pyruvate carboxylase(g)(k)(e)Mitochondrial contamination?
Fatty acid translocase/CD36(g)Plasma membrane contamination?
Lipoprotein lipase (LPL)(g)Plasma membrane contamination
Open in a separate window*Non proteomics screens.(a) (29).*(b) (GFP screen) (13).*(c) (GFP screen) (14).(d) (10).(e) (73).(f) (74).(g) (23).(h) (75).(i) (76).(j) (24).(k) (77).(l) (78).(m) (79).(n) (40).(o) (5).The metabolic functions of droplets, as revealed or confirmed by proteomic studies, can be grouped into fatty acid synthesis and activation, sterol biosynthesis, triglyceride biosynthesis, and fatty acid mobilization from sterol esters and triglycerides. 相似文献   

15.
The H2BK123Rgument     
John A. Latham  Sharon Y.R. Dent 《The Journal of cell biology》2009,186(3):313-315
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16.
Peaks cloaked in the mist: The landscape of mammalian replication origins     
Olivier Hyrien 《The Journal of cell biology》2015,208(2):147-160
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17.
Stable Transcription Activities Dependent on an Orientation of Tam3 Transposon Insertions into Antirrhinum and Yeast Promoters Occur Only within Chromatin     
Takako Uchiyama  Kaien Fujino  Takashi Ogawa  Akihito Wakatsuki  Yuji Kishima  Tetsuo Mikami  Yoshio Sano 《Plant physiology》2009,151(3):1557-1569
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18.
Focus on Chromatin/Epigenetics: Trans-Homolog Interactions Facilitating Paramutation in Maize     
Brian John Giacopelli  Jay Brian Hollick 《Plant physiology》2015,168(4):1226-1236
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19.
Imaging cell biology in live animals: Ready for prime time     
Roberto Weigert  Natalie Porat-Shliom  Panomwat Amornphimoltham 《The Journal of cell biology》2013,201(7):969-979
Time-lapse fluorescence microscopy is one of the main tools used to image subcellular structures in living cells. Yet for decades it has been applied primarily to in vitro model systems. Thanks to the most recent advancements in intravital microscopy, this approach has finally been extended to live rodents. This represents a major breakthrough that will provide unprecedented new opportunities to study mammalian cell biology in vivo and has already provided new insight in the fields of neurobiology, immunology, and cancer biology.The discovery of GFP combined with the ability to engineer its expression in living cells has revolutionized mammalian cell biology (Chalfie et al., 1994). Since its introduction, several light microscopy–based techniques have become invaluable tools to investigate intracellular events (Lippincott-Schwartz, 2011). Among them are: time-lapse confocal microscopy, which has been instrumental in studying the dynamics of cellular and subcellular processes (Hirschberg et al., 1998; Jakobs, 2006; Cardarelli and Gratton, 2010); FRAP, which has enabled determining various biophysical properties of proteins in living cells (Berkovich et al., 2011); and fluorescence resonance energy transfer (FRET), which has been used to probe for protein–protein interactions and the local activation of specific signaling pathways (Balla, 2009). The continuous search for improvements in temporal and spatial resolution has led to the development of more sophisticated technologies, such as spinning disk microscopy, which allows the resolution of fast cellular events that occur on the order of milliseconds (Nakano, 2002); total internal reflection microscopy (TIRF), which enables imaging events in close proximity (100 nm) to the plasma membrane (Cocucci et al., 2012); and super-resolution microscopy (SIM, PALM, and STORM), which captures images with resolution higher than the diffraction limit of light (Lippincott-Schwartz, 2011).Most of these techniques have been primarily applied to in vitro model systems, such as cells grown on solid substrates or in 3D matrices, explanted embryos, and organ cultures. These systems, which are relatively easy to maintain and to manipulate either pharmacologically or genetically, have been instrumental in providing fundamental information about cellular events down to the molecular level. However, they often fail to reconstitute the complex architecture and physiology of multicellular tissues in vivo. Indeed, in a live organism, cells exhibit a 3D organization, interact with different cell types, and are constantly exposed to a multitude of signals originated from the vasculature, the central nervous system, and the extracellular environment. For this reason, scientists have been attracted by the possibility of imaging biological processes in live multicellular organisms (i.e., intravital microscopy [IVM]). The first attempt in this direction was in 1839, when Rudolph Wagner described the interaction of leukocytes with the walls of blood vessels in the webbed feet of a live frog by using bright-field transillumination (Wagner, 1839). Since then, this approach has been used for over a century to study vascular biology in thin areas of surgically exposed organs (Irwin and MacDonald, 1953; Zweifach, 1954) or by implanting optical windows in the skin or the ears (Clark and Clark, 1932). In addition, cell migration has also been investigated using transparent tissues, such as the fin of the teleost (Wood and Thorogood, 1984; Thorogood and Wood, 1987). The introduction of epifluorescence microscopy has enabled following in more detail the dynamics of individual cells in circulation (Nuttall, 1987), in tumors (MacDonald et al., 1992), or in the immune system (von Andrian, 1996), and the spatial resolution has been significantly improved by the use of confocal microscopy, which has made it possible to collect serial optical sections from a given specimen (Villringer et al., 1989; O’Rourke and Fraser, 1990; Jester et al., 1991). However, these techniques can resolve structures only within a few micrometers from the surface of optically opaque tissues (Masedunskas et al., 2012a). It was only in the early nineteen nineties, with the development of multiphoton microscopy, that deep tissue imaging has become possible (Denk et al., 1990; Zipfel et al., 2003b), significantly contributing to several fields, including neurobiology, immunology, and cancer biology (Fig. 1; Svoboda and Yasuda, 2006; Amornphimoltham et al., 2011; Beerling et al., 2011). In the last few years, the development of strategies to minimize the motion artifacts caused by the heartbeat and respiration has made it possible to successfully image subcellular structures with spatial and temporal resolutions comparable to those achieved in in vitro model systems, thus providing the opportunity to study cell biology in live mammalian tissues (Fig. 1; Weigert et al., 2010; Pittet and Weissleder, 2011).Open in a separate windowFigure 1.Spatial resolution and current applications of intravital microscopy. IVM provides the opportunity to image several biological processes in live animals at different levels of resolution. Low-magnification objectives (5–10×) enable visualizing tissues and their components under physiological conditions and measuring their response under pathological conditions. Particularly, the dynamics of the vasculature have been one of topic most extensively studied by IVM. Objectives with higher magnification (20–30×) have enabled imaging the behavior of individual cell over long periods of time. This has led to major breakthroughs in fields such as neurobiology, immunology, cancer biology, and stem cell research. Finally, the recent developments of strategies to minimize the motion artifacts caused by the heartbeat and respiration combined with high power lenses (60–100×) have opened the door to image subcellular structures and to study cell biology in live animals.The aim of this review is to highlight the power of IVM in addressing cell biological questions that cannot be otherwise answered in vitro, due to the intrinsic limitations of reductionist models, or by other more classical approaches. Furthermore, we discuss limitations and areas for improvement of this imaging technique, hoping to provide cell biologists with the basis to assess whether IVM is the appropriate choice to address their scientific questions.

Imaging techniques currently used to perform intravital microscopy

Confocal and two-photon microscopy are the most widely used techniques to perform IVM. Confocal microscopy, which is based on single photon excitation, is a well-established technique (Fig. 2 A) that has been extensively discussed elsewhere (Wilson, 2002); hence we will only briefly describe some of the main features of two-photon microscopy and other nonlinear optical techniques.Open in a separate windowFigure 2.Fluorescent light microscopy imaging techniques used for intravital microscopy. (A) Confocal microscopy. (top) In confocal microscopy, a fluorophore absorbs a single photon with a wavelength in the UV-visible range of the spectrum (blue arrow). After a vibrational relaxation (orange curved arrow), a photon with a wavelength shifted toward the red is emitted (green arrow). (center) In thick tissue, excitation and emission occur in a relative large volume around the focal plane (F.P.). The off-focus emissions are eliminated through a pinhole, and the signal from the focal plane is detected via a photomultiplier (PMT). Confocal microscopy enables imaging at a maximal depth to 80–100 µm. (bottom) Confocal z stack of the tongue of a mouse expressing the membrane marker m-GFP (green) in the K14-positive basal epithelial layer, and the membrane marker mTomato in the endothelium (red). The xy view shows a maximal projection of 40 z slices acquired every 2.5 µm, whereas the xz view shows a lateral view of the stack. In blue are the nuclei labeled by a systemic injection of Hoechst. Excitation wavelengths: 450 nm, 488 nm, and 562 nm. (B) Two- and three-photon microscopy. (top) In this process a fluorophore absorbs almost simultaneously two or three photons that have half (red arrow) or a third (dark red arrow) of the energy required for its excitation with a single photon. Two- or three-photon excitations typically require near-IR or IR light (from 690 to 1,600 nm). (center) Emission and excitation occur only at the focal plane in a restricted volume (1.5 fl), and for this reason a pinhole is not required. Two- and three-photon microscopy enable imaging routinely at a maximal depth of 300–500 µm. (bottom) Two-photon z stack of an area adjacent to that imaged in A. xy view shows a maximal projection of 70 slices acquired every 5 µm. xz view shows a lateral view of the stack. Excitation wavelength: 840 nm. (C) SHG and THG. (top) In SHG and THG, photons interact with the specimen and combine to form new photons that are emitted with twice or three times their initial energy without any energy loss. (center) These processes have similar features to those described for two- and three-photon microscopy and enable imaging at a maximal depth of 200–400 µm. (bottom) z stack of a rat heart excited by two-photon microscopy (740 nm) to reveal the parenchyma (green), and SHG (930 nm) to reveal collagen fibers (red). xy shows a maximal projection of 20 slices acquired every 5 µm. xz view shows a lateral view of the stack. Bars: (xy views) 40 µm; (xz views) 50 µm.The first two-photon microscope (Denk et al., 1990) was based on the principle of two-photon excitation postulated by Maria Göppert-Mayer in her PhD thesis (Göppert-Mayer, 1931). In this process a fluorophore is excited by the simultaneous absorption of two photons with wavelengths in the near-infrared (IR) or IR spectrum (from 690 to 1,600 nm; Fig. 2 B). Two-photon excitation requires high-intensity light that is provided by lasers generating very short pulses (in the femtosecond range) and is focused on the excitation spot by high numerical aperture lenses (Zipfel et al., 2003b). There are three main advantages in using two-photon excitation for IVM. First, IR light has a deeper tissue penetration than UV or visible light (Theer and Denk, 2006). Indeed, two-photon microscopy can resolve structures up to a depth of 300–500 µm in most of the tissues (Fig. 2 B), and up to 1.5 mm in the brain (Theer et al., 2003; Masedunskas et al., 2012a), whereas confocal microscopy is limited to 80–100 µm (Fig. 2 A). Second, the excitation is restricted to a very small volume (1.5 fl; Fig. 2 B). This implies that in two-photon microscopy there is no need to eliminate off-focus signals, and that under the appropriate conditions photobleaching and phototoxicity are negligible (Zipfel et al., 2003b). However, confocal microscopy induces out-of-focus photodamage, and thus is less suited for long-term imaging. Third, selected endogenous molecules can be excited, thus providing the contrast to visualize specific biological structures without the need for exogenous labeling (Zipfel et al., 2003a). Some of these molecules can also be excited by confocal microscopy using UV light, although with the risk of inducing photodamage.More recently, other nonlinear optical techniques have been used for IVM, and among them are three-photon excitation, and second and third harmonic generation (SHG and THG; Campagnola and Loew, 2003; Zipfel et al., 2003b; Oheim et al., 2006). Three-photon excitation follows the same principle as two-photon (Fig. 2 B), and can reveal endogenous molecules such as serotonin and melatonin (Zipfel et al., 2003a; Ritsma et al., 2013). In SHG and THG, photons interact with the specimen and combine to form new photons that are emitted with two or three times their initial energy (Fig. 2 C). SHG reveals collagen (Fig. 2 C) and myosin fibers (Campagnola and Loew, 2003), whereas THG reveals lipid droplets and myelin fibers (Débarre et al., 2006; Weigelin et al., 2012). Recently, two other techniques have been used for IVM: coherent anti-Stokes Raman scattering (CARS) and fluorescence lifetime imaging (FLIM). CARS that is based on two laser beams combined to match the energy gap between two vibrational levels of the molecule of interest, has been used to image lipids and myelin fibers (Müller and Zumbusch, 2007; Fu et al., 2008; Le et al., 2010). FLIM, which measures the lifetime that a molecule spends in the excited state, provides quantitative information on cellular parameters such as pH, oxygen levels, ion concentration, and the metabolic state of various biomolecules (Levitt et al., 2009; Provenzano et al., 2009; Bakker et al., 2012).We want to emphasize that two-photon microscopy and the other nonlinear techniques are the obligatory choice when the imaging area is located deep inside the tissue, endogenous molecules have to be imaged, or long-term imaging with frequent sampling is required. However, confocal microscopy is more suited to resolve structures in the micrometer range, because of the possibility of modulating the optical slice (Masedunskas et al., 2012a).

IVM to investigate biological processes at the tissue and the single cell level

The main strength of IVM is to provide information on the dynamics of biological processes that otherwise cannot be reconstituted in vitro or ex vivo. Indeed, IVM has been instrumental in studying several aspects of tissue physiopathology (Fig. 3, A and B). Although other approaches such as classical immunohistochemistry, electron microscopy, and indirect immunofluorescence may provide detailed structural and quantitative information on blood vessels, IVM enables measuring events such as variations of blood flow at the level of the capillaries or local changes in blood vessel permeability. These data have been instrumental in understanding the mechanisms of ischemic diseases and tumor progression, and in designing effective anticancer treatments.

Table 1.

IVM to study tissue physiopathology
EventOrganProbesReference
Measurements of local blood flow and glial cell functionBrainDextranHelmchen and Kleinfeld, 2008
Ischemia and reperfusionBrainSulphorhodamine 101, DextranZhang and Murphy, 2007; Masamoto et al., 2012;
Glomerular filtration and tubular reabsorptionKidneyDextran, AlbuminKang et al., 2006; Yu et al., 2007; Camirand et al., 2011
Blood flow patternsPancreatic isletsDextranNyman et al., 2008
Capillary response and synaptic activationOlfactory bulbDextranChaigneau et al., 2003
Imaging angiogenesis during wound healingSkullcapDextranHolstein et al., 2011
Pulmonary microvasculature and endothelial activationLungDextranPresson et al., 2011
Morphology of blood vessels and permeability in tumorsXenograftsDextran, RGD quantum dotsTozer et al., 2005; Smith et al., 2008; Vakoc et al., 2009; Fukumura et al., 2010
Hepatic transport into the bile canaliculiLiverCarboxyfluorescein diacetate Rhodamine 123Babbey et al., 2012; Liu et al., 2012
Progression of amyloid plaques in Alzheimer’s diseaseBrainCurcumin and metoxy-04Spires et al., 2005; Garcia-Alloza et al., 2007
Mitochondrial membrane potentialLiverTetramethylrhodamine methyl ester Rhodamine 123Theruvath et al., 2008; Zhong et al., 2008
Oxygen consumptionLiverRu(phen3)2+Paxian et al., 2004
Sarcomere contraction in humansSkeletal muscleEndogenous fluorescenceLlewellyn et al., 2008
Open in a separate windowOpen in a separate windowFigure 3.Imaging tissues and individual cells in live animals. (A) The vasculature of an immunocompromised mouse was highlighted by the systemic injection of 2 MD dextran (red) before (left) and after (right) the implant of breast cancer cells in the back (green). Note the change in shape of the blood vessels and their increased permeability (arrow). Images were acquired by two-photon microscopy (excitation wavelength: 930 nm). (B) The microvasculature in the liver of a mouse expressing the membrane marker mTomato (red) was highlighted by the injection of cascade blue dextran (blue) and imaged by confocal microscopy (excitation wavelengths: 405 nm and 561 nm). Note the red blood cells that do not uptake the dye and appear as dark objects in the blood stream (arrow). (C) Metastatic and nonmetastatic human adenocarcinoma cells were injected in the tongue of an immunocompromised mouse and imaged for four consecutive days by using two-photon microscopy (excitation wavelength: 930 nm). The metastatic cells, which express the fluorescent protein mCherry (red), migrate away from the edge of the tumor (arrows), whereas the nonmetastatic cells, which express the fluorescent protein Venus (green), do not. (D) A granulocyte moving inside a blood vessel in the mammary gland of a mouse expressing GFP-tagged myosin IIb (green) and labeled with the mitochondrial vital dye MitoTracker (red) was imaged in time lapse by using confocal microscopy (excitation wavelengths: 488 nm and 561 nm). Figure corresponds to Video 1. Time is expressed as minutes:seconds. Bars: (A) 100 µm; (B) 10 µm; (C) 30 µm; (D) 10 µm.IVM has also been used successfully to study the dynamics and the morphological changes of individual cells within a tissue (EventOrganProbeReferenceNeuronal morphology of hippocampal neuronsBrainThy1-GFP mice, dextranBarretto et al., 2011Neuronal circuitryBrainBrainbow miceLivet et al., 2007Dendritic spine development in the cortexBrainYFP H-line micePan and Gan, 2008Calcium imaging in the brainBrainGCAMPZariwala et al., 2012Natural killer cell and cytotoxic T cell interactions with tumorsXenograftmCFP , mYFPDeguine et al., 2010Neutrophil recruitment in beating heartHeartDextran, CX3CR1-GFP miceLi et al., 2012Immune cells in the central nervous systemBrainDextran, CX3CR1-GFP, LysM-GFP and CD11c-YFP miceNayak et al., 2012Dendritic cells migrationSkinYFP, VE-caherin RFP mice, dextranNitschké et al., 2012CD8+ T cells interaction with dendritic cells during viral infectionLymph nodesEGFP, Dextran, SHGHickman et al., 2008B cells and dendritic cells interactions outside lymph nodesLymph nodesEGFPQi et al., 2006Change in gene expression during metastasisXenograftPinner et al., 2009Invasion and metastasis in head and neck cancerXenograftYFP, RFP-lifeact, dextranAmornphimoltham et al., 2013Fibrosarcoma cell migration along collagen fibersDorsal skin chamberSHG, EGFP, DsRed, DextranAlexander et al., 2008Long term imaging mammary tumors and photo-switchable probesMammary windowDendra-2Kedrin et al., 2008; Gligorijevic et al., 2009Long term imaging liver metastasis through abdominal windowLiverSHG, Dendra2, EGFPRitsma et al., 2012bMacrophages during intravasation in mammary tumorsXenograftEGFP, SHG, dextransWang et al., 2007; Wyckoff et al., 2007Melanoma collective migrationDorsal skin ChamberSHG, THG, EGFP, DextranWeigelin et al., 2012Hematopoietic stem cells and blood vesselSkullcupDextranLo Celso et al., 2009Epithelial stem cells during hair regenerationSkinH2B-GFP miceRompolas et al., 2012Open in a separate windowIn neurobiology, for example, the development of approaches to perform long-term in vivo imaging has permitted the correlation of changes in neuronal morphology and neuronal circuitry to pathological conditions such as stroke (Zhang and Murphy, 2007), tumors (Barretto et al., 2011), neurodegenerative diseases (Merlini et al., 2012), and infections (McGavern and Kang, 2011). This has been accomplished by the establishment of surgical procedures to expose the brain cortex, and the implantation of chronic ports of observations such as cranial windows and imaging guide tubes for micro-optical probes (Svoboda and Yasuda, 2006; Xu et al., 2007; Barretto et al., 2011). In addition, this field has thrived thanks to the development of several transgenic mouse models harboring specific neuronal populations expressing either one or multiple fluorescent molecules (Svoboda and Yasuda, 2006; Livet et al., 2007).In tumor biology, the ability to visualize the motility of cancer cells within a tumor in vivo has provided tremendous information on the mechanisms regulating invasion and metastasis (Fig. 3 C; Beerling et al., 2011). Tumor cells metastasize to distal sites by using a combination of processes, which include tumor outgrowth, vascular intravasation, lymphatic invasion, or migration along components of the extracellular matrix and nerve fibers. Although classical histological analysis and indirect immunofluorescence have been routinely used to study these processes, the ability to perform long-term IVM through the optimization of optical windows (Alexander et al., 2008; Kedrin et al., 2008; Gligorijevic et al., 2009; Ritsma et al., 2012b) has provided unique insights. For example, a longitudinal study performed by using a combination of two-photon microscopy, SHG, and THG has highlighted the fact that various tissue components associated with melanomas may play either a migration-enhancing or migration-impeding role during collective cell invasion (Weigelin et al., 2012). In mammary tumors, the intravasation of metastatic cells has been shown to require macrophages (Wang et al., 2007; Wyckoff et al., 2007). In head and neck cancer, cells have been shown to migrate from specific sites at the edge of the tumor, and to colonize the cervical lymph nodes by migrating though the lymphatic vessels (Fig. 3 C; Amornphimoltham et al., 2013). In highly invasive melanomas, the migratory ability of cells has been correlated with their differentiation state, as determined by the expression of a reporter for melanin expression (Pinner et al., 2009).Imaging the cells of the immune system in a live animal has revealed novel qualitative and quantitative aspects of the dynamics of cellular immunity (Fig. 2 C and Video 1; Germain et al., 2005; Cahalan and Parker, 2008; Nitschke et al., 2008). Indeed, the very complex nature of the immune response, the involvement of a multitude of tissue components, and its tight spatial and temporal coordination clearly indicate that IVM is the most suited approach to study cellular immunity. This is highlighted in studies either in lymphoid tissues, where the exquisite coordination between cell–cell interactions and cell signaling has been studied during the interactions of B lymphocytes and T cell lymphoid tissues (Qi et al., 2006), T cell activation (Hickman et al., 2008; Friedman et al., 2010), and migration of dendritic cells (Nitschké et al., 2012), or outside lymphoid tissues, such as, for example, brain during pathogen infections (Nayak et al., 2012), heart during inflammation (Li et al., 2012), and solid tumors (Deguine et al., 2010).

Imaging subcellular structures in vivo and its application to cell biology

The examples described so far convey that IVM has contributed to unraveling how the unique properties of the tissue environment in vivo significantly regulate the dynamics of individual cells and ultimately tissue physiology. Is IVM suitable to determine (1) how subcellular events occur in vivo, (2) whether they differ in in vitro settings, and (3), finally, the nature of their contribution to tissue physiology?IVM has been extensively used to image subcellular structures in smaller organisms (i.e., zebrafish, Caenorhabditis elegans) that are transparent and can be easily immobilized (Rohde and Yanik, 2011; Tserevelakis et al., 2011; Hove and Craig, 2012). In addition, the ability to easily perform genetic manipulations has made these systems extremely attractive to study several aspects of developmental and cell biology. However, their differences in term of organ physiology with respect to rodents do not make them suitable models for human diseases. For a long time, subcellular imaging in live rodents has been hampered by the motion artifacts derived from the heartbeat and respiration. Indeed, small shifts along the three axes make it practically impossible to visualize structures whose sizes are in the micrometer or submicrometer range, whereas it marginally affects larger structures. This issue has been only recently addressed by using a combination of strategies, which include: (1) the development of specific surgical procedures that allow the exposure and proper positioning of the organ of interest (Masedunskas et al., 2013), (2) the improvement of specific organ holders (Cao et al., 2012; Masedunskas et al., 2012a), and (3) the synchronization of the imaging acquisition with the heartbeat and respiration (Presson et al., 2011; Li et al., 2012). Very importantly, these approaches have been successfully implemented without compromising the integrity and the physiology of the tissue, thus opening the door to study cell biology in a live animal.For example, large subcellular structures such as the nuclei have been easily imaged, making it possible to study processes such as cell division and apoptosis (Fig. 4 A; Goetz et al., 2011; Orth et al., 2011; Rompolas et al., 2012). Interestingly, these studies have highlighted the fact that the in vivo microenvironment substantially affects nuclear dynamics. Indeed, mitosis and the structure of the mitotic spindle were followed over time in a xenograft model of human cancer expressing the histone marker mCherry-H2B and GFP-tubulin (Orth et al., 2011). Specifically, the effects of the anticancer drug Paclitaxel were studied, revealing that the tumor cells in vivo have a higher mitotic index and lower pro-apoptotic propensity than in vitro (Orth et al., 2011). FRET has been used in subcutaneous tumors to image cytotoxic T lymphocyte–induced apoptosis and highlighted that the kinetics of this process are much slower than those reported for nontumor cells in vivo that are exposed to a different microenvironment (Breart et al., 2008). Cell division has also been followed in the hair-follicle stem cells of transgenic mice expressing GFP-H2B. This study determined that epithelial–mesenchymal interactions are essential for stem cell activation and regeneration, and that nuclear divisions occur in a specific area of the hair follicles and are oriented toward the axis of growth (Rompolas et al., 2012). These processes show an extremely high level of temporal and spatial organization that can only be appreciated in vivo and by using time-lapse imaging.Open in a separate windowFigure 4.Imaging subcellular events in live animals. (A) Human squamous carcinoma cells were engineered to stably express the Fucci cell cycle reporter into the nucleus and injected in the back of an immunocompromised mouse. After 1 wk, the tumor was imaged by two-photon microscopy and SHG (excitation wavelength: 930 nm). (top) Maximal projection of a z stack (xy view). Cells in G2/M are in green, cells in G1 are in red, and collagen fibers are in cyan. (bottom) Lateral view (xz) of a z stack. (B) Clusters of GLUT4-containing vesicles (green) in the soleus muscle of a transgenic mouse expressing GFP-GLUT4 and injected with 70 kD Texas red–dextran to visualize the vasculature and imaged by two-photon microscopy (excitation wavelength: 930 nm). (C) Confocal microscopy (excitation wavelength: 488 nm) of hepatocytes in the liver of a transgenic mouse expressing the autophagy marker GFP-LC3. The inset shows small GFP-LC3 autophagic vesicles. (D–G) Dynamics of intracellular compartments imaged by time-lapse two-photon (E) or confocal microscopy (D, F, and G). (D) Endocytosis of systemically injected 10 kD Texas red–dextran into the kidney of a transgenic mouse expressing the membrane marker m-GFP. The dextran (red) is transported from the microvasculature into the proximal tubuli, and then internalized in small endocytic vesicles (arrows; Video 2). (E) Endocytosis of a systemically injected 10 kD of Alexa Fluor 488 dextran into the salivary glands of a live rat. The dextran (green) diffuses from the vasculature into the stroma, and it is internalized by stromal cells (insets). Collagen fibers (red) are highlighted by SHG. (F) Regulated exocytosis of large secretory granules in the salivary glands of a live transgenic mouse expressing cytoplasmic GFP. The GFP is excluded from the secretory granules and accumulates on their limiting membranes (arrows) after fusion with the plasma membrane (broken lines). The gradual collapse of an individual granule is highlighted in the insets. (G) Dynamics of mitochondria labeled with the membrane potential dye TMRM in the salivary glands of a live mouse. Time is expressed as minutes:seconds. Bars: (A) 40 µm; (B) 15 µm; (C, D, E, and G) 10 µm; (F) 5 µm.Imaging membrane trafficking has been more challenging because of its dynamic nature and the size of the structures to image. The first successful attempt to visualize membrane traffic events was achieved in the kidney of live rats by using two-photon microscopy where the endocytosis of fluid-phase markers, such as dextrans, or the receptor-mediated uptake of folate, albumin, and the aminoglycoside gentamicin were followed in the proximal tubuli (Fig. 4 D and Video 2; Dunn et al., 2002; Sandoval et al., 2004; Russo et al., 2007). These pioneering studies showed for the first time that apical uptake is involved in the filtration of large molecules in the kidney, whereas previously it was believed to be exclusively due to a barrier in the glomerular capillary wall. However, in the kidney the residual motion artifacts limited the imaging to short periods of time. Recently, the salivary glands have proven to be a suitable organ to study the dynamics of membrane trafficking by using either two-photon or confocal microscopy. Systemically injected dextrans, BSA, and transferrin were observed to rapidly internalize in the stromal cells surrounding the salivary gland epithelium in a process dependent on the actin cytoskeleton (Masedunskas and Weigert, 2008; Masedunskas et al., 2012b). Moreover, the trafficking of these molecules through the endo-lysosomal system was documented, providing interesting insights on early endosomal fusion (Fig. 4 E; Masedunskas and Weigert, 2008; Masedunskas et al., 2012b). Notably, significant differences were observed in the kinetics of internalization of transferrin and dextran. In vivo, dextran was rapidly internalized by stromal cells, whereas transferrin appeared in endosomal structures after 10–15 min. However, in freshly explanted stromal cells adherent on glass, transferrin was internalized within 1 min, whereas dextran appeared in endosomal structures after 10–15 min. Although the reasons for this difference were not addressed, it is clear that the environment in vivo has profound effects on the regulation of intracellular processes (Masedunskas et al., 2012b). Similar differences have been reported for the caveolae that in vivo are more dynamic than in cell cultures (Thomsen et al., 2002; Oh et al., 2007). Endocytosis has also been investigated in the epithelium of the salivary glands (Sramkova et al., 2009). Specifically, plasmid DNA was shown to be internalized by a clathrin-independent pathway from the apical plasma membrane of acinar and ductal cells, and to subsequently escape from the endo-lysosomal system, thus providing useful information on the mechanisms of nonviral gene delivery in vivo (Sramkova et al., 2012). Receptor-mediated endocytosis has also been studied in cancer models. Indeed, the uptake of a fluorescent EGF conjugated to carbon nanotubes has been followed in xenografts of head and neck cancer cells revealing that the internalization occurs primarily in cells that express high levels of EGFR (Bhirde et al., 2009). The role of endosomal recycling has also been investigated during tumor progression. Indeed, the small GTPase Rab25 was found to regulate the ability of head neck cancer cells to migrate to lymph nodes by controlling the dynamic assembly of plasma membrane actin reach protrusion in vivo (Amornphimoltham et al., 2013). Interestingly, this activity of Rab25 was reconstituted in cells migrating through a 3D collagen matrix but not in cells grown adherent to a solid substrate.IVM has been a powerful tool in investigating the molecular machinery controlling regulated exocytosis in various organs. In salivary glands, the use of selected transgenic mice expressing either soluble GFP or a membrane-targeted peptide has permitted the characterization of the dynamics of exocytosis of the secretory granules after fusion with the plasma membrane (Fig. 4 E; Masedunskas et al., 2011a, 2012d). These studies revealed that the regulation and the modality of exocytosis differ between in vivo and in vitro systems. Indeed, in vivo, regulated exocytosis is controlled by stimulation of the β-adrenergic receptor, and secretory granules undergo a gradual collapse after fusion with the apical plasma membrane, whereas, in vitro, regulated exocytosis is also controlled by the muscarinic receptor and the secretory granules fuse to each other, forming strings of interconnected vesicles at the plasma membrane (compound exocytosis; Masedunskas et al., 2011a, 2012d). Moreover, the transient expression of reporter molecules for F-actin has revealed the requirement for the assembly of an actomyosin complex to facilitate the completion of the exocytic process (Masedunskas et al., 2011a, 2012d). This result underscores the fact that the dynamics of the assembly of the actin cytoskeleton can be studied both qualitatively and quantitatively in live animals at the level of individual secretory granules. In addition, this approach has highlighted some of the mechanisms that contribute to regulate the apical plasma membrane homeostasis in vivo that cannot be recapitulated in an in vitro model systems (Masedunskas et al., 2011b, 2012c; Porat-Shliom et al., 2013). Indeed, the hydrostatic pressure that is built inside the ductal system by the secretion of fluids that accompanies exocytosis plays a significant role in controlling the dynamics of secretory granules at the apical plasma membrane. This aspect has never been appreciated in organ explants where the integrity of the ductal system is compromised. Finally, a very promising model has been developed in the skeletal muscle, where the transient transfection of a GFP-tagged version of the glucose transporter type 4 (GLUT4) has made possible to characterize the kinetics of the GLUT4-containing vesicles in resting conditions and their insulin-dependent translocation to the plasma membrane (Fig. 4 B; Lauritzen et al., 2008, 2010). This represents a very powerful experimental model that bridges together physiology and cell biology and has the potential to provide fundamental information on metabolic diseases.These examples underscore the merits of subcellular IVM to investigate specific areas of cell biology such as membrane trafficking, the cell cycle, apoptosis, and cytoskeletal organization. However, IVM is rapidly extending to other areas, such as cell signaling (Stockholm et al., 2005; Rudolf et al., 2006; Ritsma et al., 2012a), metabolism (Fig. 4 C; Débarre et al., 2006; Cao et al., 2012), mitochondrial dynamics (Fig. 4 F; Sun et al., 2005; Hall et al., 2013), or gene and protein expression (Pinner et al., 2009) that have just begun to be explored.

Future perspectives

IVM has become a powerful tool to study biological processes in live animals that is destined to have an enormous impact on cell biology. The examples described here give a clear picture of the broad applicability of this approach. In essence, we foresee that IVM is going to be the obligatory choice to study highly dynamic subcellular processes that cannot be reconstituted in vitro or ex vivo, or when a link between cellular events and tissue physiopathology is being pursued. In addition, IVM will provide the opportunity to complement and confirm data generated from in vitro studies. Importantly, the fact that in several instances confocal microscopy can be effectively used for subcellular IVM makes this approach immediately accessible to several investigators.In terms of future directions, we envision that other light microscopy techniques will soon become standard tools for in vivo studies, as shown by the recent application of FRET to study signaling (Stockholm et al., 2005; Rudolf et al., 2006; Breart et al., 2008; Ritsma et al., 2012a), and FRAP, which has been used in the live brain to measure the diffusion of α synuclein, thus opening the door to studying the biophysical properties of proteins in vivo (Unni et al., 2010). Moreover, super-resolution microscopy may be applied for imaging live animals, although this task may pose some challenges. Indeed, these techniques require: (1) the complete stability of the specimen, (2) extended periods of time for light collection, (3) substantial modifications to the existing microscopes, and (4) the generation of transgenic mice expressing photoactivatable probes.To reach its full potential, IVM has to further develop two main aspects: animal models and instrumentations. Indeed, a significant effort has to be invested in developing novel transgenic mouse models, which express fluorescently labeled reporter molecules. One example is the recently developed mouse that expresses fluorescently tagged lifeact. This model will provide the unique opportunity to study F-actin dynamics in vivo in the context of processes such as cell migration and membrane trafficking (Riedl et al., 2010). Moreover, the possibility of crossing these reporter mice with knockout animals will provide the means to further study cellular processes at a molecular level. Alternatively, reporter molecules or other transgenes that may perturb a specific cellular pathway can be transiently transfected into live animals in several ways. Indeed, the remarkable advancements in gene therapy have contributed to the development of several nonviral- and viral-mediated strategies for gene delivery to selected target organs. In this respect, the salivary glands and the skeletal muscle are two formidable model systems because either transgenes or siRNAs can be successfully delivered without any adverse reaction and expressed in a few hours. In terms of the current technical limitations of IVM, the main areas of improvement are the temporal resolution, the ability to access the organ of interest with minimal invasion, and the ability to perform long-term imaging. As for the temporal resolution, the issue has begun to be addressed by using two different approaches: (1) the use of spinning disk microscopy, as shown by its recent application to image platelet dynamics in live mice (Jenne et al., 2011); and (2) the development of confocal and two-photon microscopes equipped with resonant scanners that permit increasing the scanning speed to 30 frames per second (Kirkpatrick et al., 2012). As for accessing the organs, recently several microlenses (350 µm in diameter) have been inserted or permanently implanted into live animals, minimizing the exposure of the organs and the risk of affecting their physiology (Llewellyn et al., 2008). Finally, although some approaches for the long-term imaging of the brain, the mammary glands, and the liver have been developed, additional effort has to be devoted to establish chronic ports of observations in other organs.In conclusion, these are truly exciting times, and a new era full of novel discoveries is just around the corner. The ability to see processes inside the cells of a live animal is no longer a dream.

Online supplemental material

Video 1 shows time-lapse confocal microscopy of a granulocyte moving inside a blood vessel in the mammary gland of a mouse expressing GFP-tagged myosin IIb (green) and labeled with MitoTracker (red). Video 2 shows time-lapse confocal microscopy of the endocytosis of systemically injected 10 kD Texas red–dextran (red) into the kidney-proximal tubuli of a transgenic mouse expressing the membrane marker m-GFP (green). Online supplemental material is available at http://www.jcb.org/cgi/content/full/jcb.201212130/DC1.  相似文献   

20.
Arabidopsis LON2 Is Necessary for Peroxisomal Function and Sustained Matrix Protein Import     
Matthew J. Lingard  Bonnie Bartel 《Plant physiology》2009,151(3):1354-1365
Relatively little is known about the small subset of peroxisomal proteins with predicted protease activity. Here, we report that the peroxisomal LON2 (At5g47040) protease facilitates matrix protein import into Arabidopsis (Arabidopsis thaliana) peroxisomes. We identified T-DNA insertion alleles disrupted in five of the nine confirmed or predicted peroxisomal proteases and found only two—lon2 and deg15, a mutant defective in the previously described PTS2-processing protease (DEG15/At1g28320)—with phenotypes suggestive of peroxisome metabolism defects. Both lon2 and deg15 mutants were mildly resistant to the inhibitory effects of indole-3-butyric acid (IBA) on root elongation, but only lon2 mutants were resistant to the stimulatory effects of IBA on lateral root production or displayed Suc dependence during seedling growth. lon2 mutants displayed defects in removing the type 2 peroxisome targeting signal (PTS2) from peroxisomal malate dehydrogenase and reduced accumulation of 3-ketoacyl-CoA thiolase, another PTS2-containing protein; both defects were not apparent upon germination but appeared in 5- to 8-d-old seedlings. In lon2 cotyledon cells, matrix proteins were localized to peroxisomes in 4-d-old seedlings but mislocalized to the cytosol in 8-d-old seedlings. Moreover, a PTS2-GFP reporter sorted to peroxisomes in lon2 root tip cells but was largely cytosolic in more mature root cells. Our results indicate that LON2 is needed for sustained matrix protein import into peroxisomes. The delayed onset of matrix protein sorting defects may account for the relatively weak Suc dependence following germination, moderate IBA-resistant primary root elongation, and severe defects in IBA-induced lateral root formation observed in lon2 mutants.Peroxisomes are single-membrane-bound organelles found in most eukaryotes. Peroxin (PEX) proteins are necessary for various aspects of peroxisome biogenesis, including matrix protein import (for review, see Distel et al., 1996; Schrader and Fahimi, 2008). Most matrix proteins are imported into peroxisomes from the cytosol using one of two targeting signals, a C-terminal type 1 peroxisome-targeting signal (PTS1) or a cleavable N-terminal type 2 peroxisome-targeting signal (PTS2) (Reumann, 2004). PTS1- and PTS2-containing proteins are bound in the cytosol by soluble matrix protein receptors, escorted to the peroxisome membrane docking complex, and translocated into the peroxisome matrix (for review, see Platta and Erdmann, 2007). Once in the peroxisome, many matrix proteins participate in metabolic pathways, such as β-oxidation, hydrogen peroxide decomposition, and photorespiration (for review, see Gabaldon et al., 2006; Poirier et al., 2006).In addition to metabolic enzymes, several proteases are found in the peroxisome matrix. Only one protease, DEG15/Tysnd1, has a well-defined role in peroxisome biology. The rat Tysnd1 protease removes the targeting signal after PTS2-containing proteins enter the peroxisome and also processes certain PTS1-containing β-oxidation enzymes (Kurochkin et al., 2007). Similarly, the Arabidopsis (Arabidopsis thaliana) Tysnd1 homolog DEG15 (At1g28320) is a peroxisomal Ser protease that removes PTS2 targeting signals (Helm et al., 2007; Schuhmann et al., 2008).In contrast with DEG15, little is known about the other eight Arabidopsis proteins that are annotated as proteases in the AraPerox database of putative peroxisomal proteins (Reumann et al., 2004; Carter et al., 2004; Shimaoka et al., 2004), which, in combination with the minor PTS found in both of these predicted proteases (Reumann, 2004), suggests that these enzymes may not be peroxisomal. Along with DEG15, only two of the predicted peroxisomal proteases, an M16 metalloprotease (At2g41790), which we have named PXM16 for peroxisomal M16 protease, and a Lon-related protease (At5g47040/LON2; Ostersetzer et al., 2007), are found in the proteome of peroxisomes purified from Arabidopsis suspension cells (Eubel et al., 2008). DEG15 and LON2 also have been validated as peroxisomally targeted using GFP fusions (Ostersetzer et al., 2007; Schuhmann et al., 2008).

Table I.

Putative Arabidopsis proteases predicted or demonstrated to be peroxisomal
AGI IdentifierAliasProtein ClassT-DNA Insertion AllelesPTSLocalization EvidenceLocalization References
At1g28320DEG15PTS2-processing proteaseSALK_007184 (deg15-1)SKL>aGFPReumann et al., 2004; Helm et al., 2007; Eubel et al., 2008; Schuhmann et al., 2008)
Proteomics
Bioinformatics
At2g41790PXM16Peptidase M16 family proteinSALK_019128 (pxm16-1)PKL>bProteomicsReumann et al., 2004, 2009; Eubel et al., 2008)
SALK_023917 (pxm16-2)Bioinformatics
At5g47040LON2Lon protease homologSALK_128438 (lon2-1)SKL>aGFPReumann et al., 2004, 2009; Ostersetzer et al., 2007; Eubel et al., 2008)
SALK_043857 (lon2-2)Proteomics
Bioinformatics
At2g18080Ser-type peptidaseSALK_020628SSI>cBioinformatics(Reumann et al., 2004)
SALK_102239
At2g35615Aspartyl proteaseSALK_090795ANL>bBioinformatics(Reumann et al., 2004)
SALK_036333
At3g57810Ovarian tumor-like Cys proteaseSKL>aBioinformatics(Reumann et al., 2004)
At4g14570Acylaminoacyl-peptidase proteinCKL>bBioinformatics (peroxisome)(Reumann et al., 2004; Shimaoka et al., 2004)
Proteomics (vacuole)
At4g20310Peptidase M50 family proteinRMx5HLdBioinformatics(Reumann et al., 2004)
At4g36195Ser carboxypeptidase S28 familySSM>bBioinformatics (peroxisome)(Carter et al., 2004; Reumann et al., 2004)





Proteomics (vacuole)

Open in a separate windowaMajor PTS1 (Reumann, 2004).bMinor PTS1 (Reumann, 2004).cValidated PTS1 (Reumann et al., 2007).dMinor PTS2 (Reumann, 2004).PXM16 is the only one of the nine Arabidopsis M16 (pitrilysin family) metalloproteases (García-Lorenzo et al., 2006; Rawlings et al., 2008) containing a predicted PTS. M16 subfamilies B and C contain the plastid and mitochondrial processing peptidases (for review, see Schaller, 2004), whereas PXM16 belongs to M16 subfamily A, which includes insulin-degrading peptidases (Schaller, 2004). A tomato (Solanum lycopersicum) M16 subfamily A protease similar to insulin-degrading enzymes with a putative PTS1 was identified in a screen for proteases that cleave the wound response peptide hormone systemin (Strassner et al., 2002), but the role of Arabidopsis PXM16 is unknown.Arabidopsis LON2 is a typical Lon protease with three conserved domains: an N-terminal domain, a central ATPase domain in the AAA family, and a C-terminal protease domain with a Ser-Lys catalytic dyad (Fig. 1A; Lee and Suzuki, 2008). Lon proteases are found in prokaryotes and in some eukaryotic organelles (Fig. 1C) and participate in protein quality control by cleaving unfolded proteins and can regulate metabolism by controlling levels of enzymes from many pathways, including cell cycle, metabolism, and stress responses (for review, see Tsilibaris et al., 2006). Four Lon homologs are encoded in the Arabidopsis genome; isoforms have been identified in mitochondria, plastids, and peroxisomes (Ostersetzer et al., 2007; Eubel et al., 2008; Rawlings et al., 2008). Mitochondrial Lon protesases are found in a variety of eukaryotes (Fig. 1A) and function both as ATP-dependent proteases and as chaperones promoting protein complex assemblies (Lee and Suzuki, 2008). LON2 is the only Arabidopsis Lon isoform with a canonical C-terminal PTS1 (SKL-COOH; Ostersetzer et al., 2007) or found in the peroxisome proteome (Eubel et al., 2008; Reumann et al., 2009). Functional studies have been conducted with peroxisomal Lon isoforms found in the proteome of peroxisomes purified from rat hepatic cells (pLon; Kikuchi et al., 2004) and the methylotrophic yeast Hansenula polymorpha (Pln; Aksam et al., 2007). Rat pLon interacts with β-oxidation enzymes, and a cell line expressing a dominant negative pLon variant has decreased β-oxidation activity, displays defects in the activation processing of PTS1-containing acyl-CoA oxidase, and missorts catalase to the cytosol (Omi et al., 2008). H. polymorpha Pln is necessary for degradation of a misfolded, peroxisome-targeted version of dihydrofolate reductase and for degradation of in vitro-synthesized alcohol oxidase in peroxisomal matrix extracts, but does not contribute to degradation of peroxisomally targeted GFP (Aksam et al., 2007).Open in a separate windowFigure 1.Diagram of LON2 protein domains, gene models for LON2, PXM16, DEG15, PED1, PEX5, and PEX6, and phylogenetic relationships of LON family members. A, Organization of the 888-amino acid LON2 protein. Locations of the N-terminal domain conserved among Lon proteins, predicted ATP-binding Walker A and B domains (black circles), active site Ser (S) and Lys (K) residues (asterisks), and the C-terminal Ser-Lys-Leu (SKL) peroxisomal targeting signal (PTS1) are shown (Lee and Suzuki, 2008). B, Gene models for LON2, PXM16, DEG15, PED1, PEX5, and PEX6 and locations of T-DNA insertions (triangles) or missense alleles (arrows) used in this study. Exons are depicted by black boxes, introns by black lines, and untranslated regions by gray lines. C, Phylogenetic relationships among LON homologs. Sequences were aligned using MegAlign (DNAStar) and the ClustalW method. The PAUP 4.0b10 program (Swofford, 2001) was used to generate an unrooted phylogram from a trimmed alignment corresponding to Arabidopsis LON2 residues 400 to 888 (from the beginning of the ATPase domain to the end of the protein). The bootstrap method was performed for 500 replicates with distance as the optimality criterion. Bootstrap values are indicated at the nodes. Predicted peroxisomal proteins have C-terminal PTS1 signals in parentheses and are in light-gray ovals. Proteins in the darker gray oval have N-terminal extensions and include mitochondrial and chloroplastic proteins. Sequence identifiers are listed in Supplemental Table S2.In this work, we examined the roles of several putative peroxisomal proteases in Arabidopsis. We found that lon2 mutants displayed peroxisome-deficient phenotypes, including resistance to the protoauxin indole-3-butyric acid (IBA) and age-dependent defects in peroxisomal import of PTS1- and PTS2-targeted matrix proteins. Our results indicate that LON2 contributes to matrix protein import into Arabidopsis peroxisomes.  相似文献   

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