Functional Dynamics Revealed by the Structure of the SufBCD Complex,a Novel ATP-binding Cassette (ABC) Protein That Serves as a Scaffold for Iron-Sulfur Cluster Biogenesis

ATP-binding cassette (ABC)-type ATPases are chemomechanical engines involved in diverse biological pathways. Recent genomic information reveals that ABC ATPase domains/subunits act not only in ABC transporters and structural maintenance of chromosome proteins, but also in iron-sulfur (Fe-S) cluster biogenesis. A novel type of ABC protein, the SufBCD complex, functions in the biosynthesis of nascent Fe-S clusters in almost all Eubacteria and Archaea, as well as eukaryotic chloroplasts. In this study, we determined the first crystal structure of the Escherichia coli SufBCD complex, which exhibits the common architecture of ABC proteins: two ABC ATPase components (SufC) with function-specific components (SufB-SufD protomers). Biochemical and physiological analyses based on this structure provided critical insights into Fe-S cluster assembly and revealed a dynamic conformational change driven by ABC ATPase activity. We propose a molecular mechanism for the biogenesis of the Fe-S cluster in the SufBCD complex.     

Transcriptomic Analysis of Temperature Responses of Aspergillus kawachii during Barley Koji Production

The koji mold Aspergillus kawachii is used for making the Japanese distilled spirit shochu. During shochu production, A. kawachii is grown in solid-state culture (koji) on steamed grains, such as rice or barley, to convert the grain starch to glucose and produce citric acid. During this process, the cultivation temperature of A. kawachii is gradually increased to 40°C and is then lowered to 30°C. This temperature modulation is important for stimulating amylase activity and the accumulation of citric acid. However, the effects of temperature on A. kawachii at the gene expression level have not been elucidated. In this study, we investigated the effect of solid-state cultivation temperature on gene expression for A. kawachii grown on barley. The results of DNA microarray and gene ontology analyses showed that the expression of genes involved in the glycerol, trehalose, and pentose phosphate metabolic pathways, which function downstream of glycolysis, was downregulated by shifting the cultivation temperature from 40 to 30°C. In addition, significantly reduced expression of genes related to heat shock responses and increased expression of genes related with amino acid transport were also observed. These results suggest that solid-state cultivation at 40°C is stressful for A. kawachii and that heat adaptation leads to reduced citric acid accumulation through activation of pathways branching from glycolysis. The gene expression profile of A. kawachii elucidated in this study is expected to contribute to the understanding of gene regulation during koji production and optimization of the industrially desirable characteristics of A. kawachii.     

Expression and localization of aquaporin-4 in sensory ganglia

Aquaporin-4 (AQP4) is a water channel protein that is predominantly expressed in astrocytes in the CNS. The rapid water flux through AQP4 may contribute to electrolyte/water homeostasis and may support neuronal activities in the CNS. On the other hand, little is known about the expression of AQP4 in the peripheral nervous system (PNS). Using AQP4^−/− mice as a negative control, we demonstrated that AQP4 is also expressed in sensory ganglia, such as trigeminal ganglia and dorsal root ganglia in the PNS. Immunohistochemistry revealed that AQP4 is exclusively localized to satellite glial cells (SGCs) surrounding the cell bodies of the primary afferent sensory neurons in the sensory ganglia. Biochemical analyses revealed that the expression levels of AQP4 in sensory ganglia were considerably lower than those in astrocytes in the CNS. Consistently, behavioral analyses did not show any significant difference in terms of mechanical and cold sensitivity between wild type and AQP4^−/− mice. Overall, although the pathophysiological relevance of AQP4 in somatosensory perception remains unclear, our findings provide new insight into the involvement of water homeostasis in the peripheral sensory system.     

Lipase member H is a novel secreted protein selectively upregulated in human lung adenocarcinomas and bronchioloalveolar carcinomas

Lung cancer is one of the most frequent causes of cancer-related death worldwide. However, molecular markers for lung cancer have not been well established. To identify novel genes related to lung cancer development, we surveyed publicly available DNA microarray data on lung cancer tissues. We identified lipase member H (LIPH, also known as mPA-PLA1) as one of the significantly upregulated genes in lung adenocarcinoma. LIPH was expressed in several adenocarcinoma cell lines when they were analyzed by quantitative real-time polymerase chain reaction (qPCR), western blotting, and sandwich enzyme-linked immunosorbent assay (ELISA). Immunohistochemical analysis detected LIPH expression in most of the adenocarcinomas and bronchioloalveolar carcinomas tissue sections obtained from lung cancer patients. LIPH expression was also observed less frequently in the squamous lung cancer tissue samples. Furthermore, LIPH protein was upregulated in the serum of early- and late-phase lung cancer patients when they were analyzed by ELISA. Interestingly, high serum level of LIPH was correlated with better survival in early phase lung cancer patients after surgery. Thus, LIPH may be a novel molecular biomarker for lung cancer, especially for adenocarcinoma and bronchioloalveolar carcinoma.     

Sphingomyelin Synthase 2, but Not Sphingomyelin Synthase 1, Is Involved in HIV-1 Envelope-mediated Membrane Fusion

Membrane fusion between the viral envelope and plasma membranes of target cells has previously been correlated with HIV-1 infection. Lipids in the plasma membrane, including sphingomyelin, may be crucially involved in HIV-1 infection; however, the role of lipid-metabolic enzymes in membrane fusion remains unclear. In this study, we examined the roles of sphingomyelin synthase (SMS) in HIV-1 Env-mediated membrane fusion using a cell-cell fusion assay with HIV-1 mimetics and their target cells. We employed reconstituted cells as target cells that stably express Sms1 or Sms2 in Sms-deficient cells. Fusion susceptibility was ∼5-fold higher in Sms2-expressing cells (not in Sms1-expressing cells) than in Sms-deficient cells. The enhancement of fusion susceptibility observed in Sms2-expressing cells was reversed and reduced by Sms2 knockdown. We also found that catalytically nonactive Sms2 promoted membrane fusion susceptibility. Moreover, SMS2 co-localized and was constitutively associated with the HIV receptor·co-receptor complex in the plasma membrane. In addition, HIV-1 Env treatment resulted in a transient increase in nonreceptor tyrosine kinase (Pyk2) phosphorylation in Sms2-expressing and catalytically nonactive Sms2-expressing cells. We observed that F-actin polymerization in the region of membrane fusion was more prominent in Sms2-expressing cells than Sms-deficient cells. Taken together, our research provides insight into a novel function of SMS2 which is the regulation of HIV-1 Env-mediated membrane fusion via actin rearrangement.     

Neuron-derived Neurotrophic Factor Functions as a Novel Modulator That Enhances Endothelial Cell Function and Revascularization Processes

Strategies to stimulate revascularization are valuable for cardiovascular diseases. Here we identify neuron-derived neurotrophic factor (NDNF)/epidermacan as a secreted molecule that is up-regulated in endothelial cells in ischemic limbs of mice. NDNF was secreted from cultured human endothelial cells, and its secretion was stimulated by hypoxia. NDNF promoted endothelial cell network formation and survival in vitro through activation of Akt/endothelial NOS (eNOS) signaling involving integrin αvβ3. Conversely, siRNA-mediated knockdown of NDNF in endothelial cells led to reduction of cellular responses and basal Akt signaling. Intramuscular overexpression of NDNF led to enhanced blood flow recovery and capillary density in ischemic limbs of mice, which was accompanied by enhanced phosphorylation of Akt and eNOS. The stimulatory actions of NDNF on perfusion recovery in ischemic muscles of mice were abolished by eNOS deficiency or NOS inhibition. Furthermore, siRNA-mediated reduction of NDNF in muscles of mice resulted in reduction of perfusion recovery and phosphorylation of Akt and eNOS in response to ischemia. Our data indicate that NDNF acts as an endogenous modulator that promotes endothelial cell function and ischemia-induced revascularization through eNOS-dependent mechanisms. Thus, NDNF can represent a therapeutic target for the manipulation of ischemic vascular disorders.     

The Expression of Fn14 via Mechanical Stress-activated JNK Contributes to Apoptosis Induction in Osteoblasts

Bone mass is maintained by the balance between the activities of bone-forming osteoblasts and bone-resorbing osteoclasts. It is well known that adequate mechanical stress is essential for the maintenance of bone mass, whereas excess mechanical stress induces bone resorption. However, it has not been clarified how osteoblasts respond to different magnitudes of mechanical stress. Here we report that large-magnitude (12%) cyclic stretch induced Ca²⁺ influx, which activated reactive oxygen species generation in MC3T3-E1 osteoblasts. Reactive oxygen species then activated the ASK1-JNK/p38 pathways. The activated JNK led to transiently enhanced expression of FGF-inducible 14 (Fn14, a member of the TNF receptor superfamily) gene. Cells with enhanced expression of Fn14 subsequently acquired sensitivity to the ligand of Fn14, TNF-related weak inducer of apoptosis, and underwent apoptosis. On the other hand, the ASK1-p38 pathway induced expression of the monocyte chemoattractant protein 3 (MCP-3) gene, which promoted chemotaxis of preosteoclasts. In contrast, the ERK pathway was activated by small-magnitude stretching (1%) and induced expression of two osteogenic genes, collagen Ia (Col1a) and osteopontin (OPN). Moreover, activated JNK suppressed Col1a and OPN induction in large-magnitude mechanical stretch-loaded cells. The enhanced expression of Fn14 and MCP-3 by 12% stretch and the enhanced expression of Col1a and OPN by 1% stretch were also observed in mouse primary osteoblasts. These results suggest that differences in the response of osteoblasts to varying magnitudes of mechanical stress play a key role in switching the mode of bone metabolism between formation and resorption.     

Physiological IgM Class Catalytic Antibodies Selective for Transthyretin Amyloid

Peptide bond-hydrolyzing catalytic antibodies (catabodies) could degrade toxic proteins, but acquired immunity principles have not provided evidence for beneficial catabodies. Transthyretin (TTR) forms misfolded β-sheet aggregates responsible for age-associated amyloidosis. We describe nucleophilic catabodies from healthy humans without amyloidosis that degraded misfolded TTR (misTTR) without reactivity to the physiological tetrameric TTR (phyTTR). IgM class B cell receptors specifically recognized the electrophilic analog of misTTR but not phyTTR. IgM but not IgG class antibodies hydrolyzed the particulate and soluble misTTR species. No misTTR-IgM binding was detected. The IgMs accounted for essentially all of the misTTR hydrolytic activity of unfractionated human serum. The IgMs did not degrade non-amyloidogenic, non-superantigenic proteins. Individual monoclonal IgMs (mIgMs) expressed variable misTTR hydrolytic rates and differing oligoreactivity directed to amyloid β peptide and microbial superantigen proteins. A subset of the mIgMs was monoreactive for misTTR. Excess misTTR was dissolved by a hydrolytic mIgM. The studies reveal a novel antibody property, the innate ability of IgMs to selectively degrade and dissolve toxic misTTR species as a first line immune function.     

Ideal Osmotic Spaces for Chlorobionts or Cyanobionts Are Differentially Realized by Lichenized Fungi

Lichens result from symbioses between a fungus and either a green alga or a cyanobacterium. They are known to exhibit extreme desiccation tolerance. We investigated the mechanism that makes photobionts biologically active under severe desiccation using green algal lichens (chlorolichens), cyanobacterial lichens (cyanolichens), a cephalodia-possessing lichen composed of green algal and cyanobacterial parts within the same thallus, a green algal photobiont, an aerial green alga, and a terrestrial cyanobacterium. The photosynthetic response to dehydration by the cyanolichen was almost the same as that of the terrestrial cyanobacterium but was more sensitive than that of the chlorolichen or the chlorobiont. Different responses to dehydration were closely related to cellular osmolarity; osmolarity was comparable between the cyanolichen and a cyanobacterium as well as between a chlorolichen and a green alga. In the cephalodium-possessing lichen, osmolarity and the effect of dehydration on cephalodia were similar to those exhibited by cyanolichens. The green algal part response was similar to those exhibited by chlorolichens. Through the analysis of cellular osmolarity, it was clearly shown that photobionts retain their original properties as free-living organisms even after lichenization.Lichens are ubiquitously found in all terrestrial environments, including those with extreme climates such as Antarctica and deserts; they are pioneer organisms in primary succession (Longton, 1988; Ahmadjian, 1993). Colonization ability is largely owed to lichens’ extreme tolerance for desiccation (Ahmadjian, 1993). Although lichens harbor photosynthetic green algae or cyanobacteria (blue-green algae) within their thalli, they show metabolic activity even when dried at 20°C and under conditions of 54% relative humidity (Cowan et al., 1979). This desiccation tolerance partially results from drought resistance originally exhibited by the photobiont. It is further strengthened by lichen symbiosis (Kosugi et al., 2009). Cyanolichens (symbiosis between a fungus and a cyanobacterium) are desiccation-tolerant organisms that favor humid and shady environments, whereas chlorolichens (symbiosis between a fungus and a green alga) tolerate dry and high-light environments (James and Henssen, 1976; Lange et al., 1988). Chlorolichens can perform photosynthesis when the surrounding humidity is high, but cyanolichens require some water in a liquid state (Lange et al., 1986, 2001; Nash et al., 1990; Ahmadjian, 1993).Most poikilohydric photosynthetic organisms can tolerate rapid drying. Biological activity during desiccation and recovery following drought are scarcely affected by protein synthesis inhibitors (Proctor and Smirnoff, 2000). Moderate drought tolerance is attained by increasing compatible solutes (amino acids, sugars, and sugar alcohols) as protective agents during drought stress (Mazur, 1968; Parker, 1968; Hoekstra et al., 2001). An increase in compatible solutes prevents water loss or increases water uptake from the air when humidity is high (Lange et al., 1988). It has been observed, however, that the intracellular solute concentration is low (corresponding to a sorbitol concentration of approximately 0.22 m) in the desiccation-tolerant terrestrial cyanobacterium Nostoc commune (Satoh et al., 2002; Hirai et al., 2004). N. commune photosynthetic activity is lost when incubated in low sorbitol concentrations (Hirai et al., 2004), whereas a Trebouxia spp. chlorobiont freshly isolated from the desiccation-tolerant chlorolichen Ramalina yasudae remains active under the same conditions (Kosugi et al., 2009).Different solute concentrations in photobionts may dictate habitat preferences for chlorolichens and cyanolichens (James and Henssen, 1976; Lange et al., 1988). One might expect that the ideal cellular osmotic pressure (or cellular solute concentration) of a lichenized fungus is problematic, as both the fungus and the photobiont are closely associated in the thallus (Kranner et al., 2005). Thus, we may be able to further hypothesize that the solute concentration itself in original photobionts determines the nature of desiccation tolerance in chlorolichens and cyanolichens.To better understand symbiosis in lichens, it is important to examine how the cellular osmotic pressures of both symbionts contribute to lichen photosynthesis. In this study, cellular osmotic pressures of lichens and photobionts were determined by assessing water potential. The cephalodia-possessing lichen Stereocaulon sorediiferum was chosen as a desiccation-tolerant model organism because it separately harbors a green alga and a cyanobacterium in different compartments of the lichen body. The green algal photobiont is contained in the stem- and branch-like structures, whereas the cyanobacterial photobiont (cyanobiont) is contained in the organism’s cephalodia. For comparison, several chlorolichens (R. yasudae, Parmotrema tinctorum, and Graphis spp.), cyanolichens (Collema subflaccidum and Peltigera degenii), green algae (Prasiola crispa, Trebouxia spp., and Trentepohlia aurea), and cyanobacteria (N. commune, Scytonema spp., and Stigonema spp.) were also analyzed (Fig. 1). The cyanobiont of C. subflaccidum is closely related to N. commune (Ahmadjian, 1993), and the cyanobiont of S. sorediiferum belongs to the genus Stigonema (Kurina and Vitousek, 1999). Green algal photobionts of R. yasudae and S. sorediiferum are Trebouxia spp. (Bergman and Huss-Danell, 1983). For the measurements of water potential, we had to use specimens larger than 0.1 g dry weight for one measurement. Furthermore, the specimens should cover approximately 70% of the surface area of a sample cup with 4 cm diameter that was equipped in our dewpoint potentiometer. Considering the statistical analyses, we needed large amounts of lichen and algal samples for the measurement of water potential. To conduct this study, we wanted to use free-living green algae and cyanobacteria, not the photobionts isolated from a lichen body. This is because inconsistent results were reported previously for chlorobionts liberated from lichens (Brock, 1975; Lange et al., 1990). Three major photobionts of lichens, Trebouxia, Trentepohlia, and Nostoc spp., were considered for inclusion. Until now, free-living Trebouxia spp. were not observed convincingly in nature. Therefore, cultivated Trebouxia spp. were used. Other green algae and cyanobacteria were chosen from among free-living species that (1) are closely related to some photobionts, (2) form large communities sufficient to cover the required quantity that will not destroy the local ecosystem by our sampling, (3) are easy to remove from other attached algae/microorganisms, and (4) are tolerant to desiccation. P. crispa forms large communities in nature, and the closely related species Prasiola borealis is known to be a photobiont of Mastodia tessellata. Only two freshwater species of genus Prasiola are found in Japan; P. crispa inhabits a limited area of Hokkaido Island, and Prasiola japonica is a rare species. P. crispa harvested in Antarctica and shown to be desiccation tolerant in our previous work (Kosugi et al., 2010b) was used in this study.Open in a separate windowFigure 1.Lichens analyzed in this study. A, Cyanolichen C. subflaccidum on a rock. B, Wet (left) and dry (right) thalli of cyanolichen Peltigera degenii with green moss. C, Chlorolichen R. yasudae on a rock. D, Chlorolichen Graphis spp. on a Zelkova serrata tree trunk. The grayish basal part of Graphis spp. is the site where the photobiont resides, and the dark-colored streaks are the apothecia. E, Chlorolichen Parmotrema tinctorum on a Z. serrata tree trunk. F, Cephalodia-possessing lichen S. sorediiferum. Some cephalodia are indicated by arrows. The stem- and branch-like structures are the green algae-containing compartments.