Folding mechanisms of periplasmic proteins

More than one fifth of the proteins encoded by the genome of Escherichia coli are destined to the bacterial cell envelope. Over the past 20 years, the mechanisms by which envelope proteins reach their three-dimensional structure have been intensively studied, leading to the discovery of an intricate network of periplasmic folding helpers whose members have distinct but complementary roles. For instance, the correct assembly of ß-barrel proteins containing disulfide bonds depends both on chaperones like SurA and Skp for transport across the periplasm and on protein folding catalysts like DsbA and DsbC for disulfide bond formation. In this review, we provide an overview of the current knowledge about the complex network of protein folding helpers present in the periplasm of E. coli and highlight the questions that remain unsolved. This article is part of a Special Issue entitled: Protein trafficking and secretion in bacteria. Guest Editors: Anastassios Economou and Ross Dalbey.     

Crown responses to neighbor density and species identity in a young mixed deciduous stand

Key message

Density was more important in shaping crown structure than neighbor species identity. Both species showed high crown plasticity at alternative levels, which may explain species coexistence in mixed broadleaved forests with functionally similar species.

Abstract

Understanding crown response to local competition is essential to predicting stand development in mixed stands. We analyzed data from an 8-year-old field experimental plantation mixing two species according to a crossed gradient of density and species proportion to quantify the effect of a broad range of local neighborhood conditions on the development of young trees at multiple crown levels. We used Fagus sylvatica and Acer pseudoplatanus, as two model deciduous species. They are considered functionally equivalent at the young stages, but with contrasting architectural patterns. For both species: (1) changes in density explained more of the variation on crown development than species proportion (2) much of the effect of competition was accounted for by variables at the stem level, while branch and leaf development within crowns were not directly altered by competition. Both species were able to modify their crowns at the stem level to compete with intra- and inter-specific neighbors: Acer and Fagus were taller with a highest proportion of Fagus as neighbors; Fagus displayed a lower crown base when the proportion of Fagus decreased, while Acer had a lower crown base when the proportion of Fagus around it increased. Both species showed common shapes in allometric relationships but contrasting responses at alternative crown levels. Acer exhibited broader intra-specific variation in its height–diameter relationship and in its crown length, while Fagus displayed higher individual variation of branch development and leaf area than Acer. This study demonstrates that differences in crown development strategy of each species in response to changes in local neighborhood conditions are an important factor in maintaining species coexistence in broadleaved forests and designing mixtures that persist over time.     

9β Polymorphism of the Glucocorticoid Receptor Gene Appears to Have Limited Impact in Patients with Addison’s Disease

Background

Addison’s disease (AD) has been associated with an increased risk of cardiovascular disease. Glucocorticoid receptor polymorphisms that alter glucocorticoid sensitivity may influence metabolic and cardiovascular risk factors in patients with AD. The 9β polymorphism of the glucocorticoid receptor gene is associated with relative glucocorticoid resistance and has been reported to increase the risk of myocardial infarction in the elderly. We explored the impact of this polymorphism in patients with AD.

Materials and Methods

147 patients with AD and 147 age, gender and ethnicity matched healthy controls were recruited. Blood was taken in a non-fasted state for plasma lipid determination, measurement of cardiovascular risk factors and DNA extraction.

Results

Genotype data for the 9β polymorphism was available for 139 patients and 146 controls. AD patients had a more atherogenic lipid profile characterized by an increase in the prevalence of small dense LDL (p = 0.003), increased triglycerides (p = 0.002), reduced HDLC (p<0.001) an elevated highly sensitive C-reactive protein (p = 0.01), compared with controls. The 9β polymorphism (at least one G allele) was found in 28% of patients and controls respectively. After adjusting for age, gender, ethnicity, BMI and hydrocortisone dose per metre square of body surface area in patients, there were no significant metabolic associations with this polymorphism and hydrocortisone doses were not higher in patients with the polymorphism.

Conclusions

This study did not identify any associations between the 9β polymorphism and cardiovascular risk factors or hydrocortisone dose and determination of this polymorphism is therefore unlikely to be of clinical benefit in the management of patients with AD.     

Topography and Land Cover of Watersheds Predicts the Distribution of the Environmental Pathogen Mycobacterium ulcerans in Aquatic Insects

Background

An understanding of the factors driving the distribution of pathogens is useful in preventing disease. Often we achieve this understanding at a local microhabitat scale; however the larger scale processes are often neglected. This can result in misleading inferences about the distribution of the pathogen, inhibiting our ability to manage the disease. One such disease is Buruli ulcer, an emerging neglected tropical disease afflicting many thousands in Africa, caused by the environmental pathogen Mycobacterium ulcerans. Herein, we aim to describe the larger scale landscape process describing the distribution of M. ulcerans.

Methodology

Following extensive sampling of the community of aquatic macroinvertebrates in Cameroon, we select the 5 dominant insect Orders, and conduct an ecological niche model to describe how the distribution of M. ulcerans positive insects changes according to land cover and topography. We then explore the generalizability of the results by testing them against an independent dataset collected in a second endemic region, French Guiana.

Principal Findings

We find that the distribution of the bacterium in Cameroon is accurately described by the land cover and topography of the watershed, that there are notable seasonal differences in distribution, and that the Cameroon model does not predict the distribution of M. ulcerans in French Guiana.

Conclusions/Significance

Future studies of M. ulcerans would benefit from consideration of local structure of the local stream network in future sampling, and further work is needed on the reasons for notable differences in the distribution of this species from one region to another. This work represents a first step in the identification of large-scale environmental drivers of this species, for the purposes of disease risk mapping.     

Biochemical and physical properties of remnant-HDL2 and of pre beta 1-HDL produced by hepatic lipase

The hepatic lipase acting on triglyceride-rich high-density lipoprotein2 (HDL2) induces the formation of pre beta 1-HDL, leaving a residual alpha-migrating HDL particle that was named "remnant-HDL2" (Barrans, A., Collet, X., Barbaras, R., Jaspard, B., Manent, J., Vieu, C., Chap, H., and Perret, B. (1994) J. Biol. Chem. 269, 11572-11577.]. In this study, these two product particles generated by hepatic lipase were isolated by density gradient ultracentrifugation. Particles were first characterized in terms of chemical composition, density, and mass. The pre beta 1-HDL obtained in vitro contain one to two molecules of apoA-I, associated with phospholipids, and free and esterified cholesterol. When compared to triglyceride-rich HDL2, remnant-HDL2 have lost on average one molecule of apoA-I, 60% of triacylglycerols, and 15% of phospholipids. The estimated composition is concordant with the hypothesis of the splitting of a substrate particle into one pre beta 1-HDL and one remnant-HDL2. Spectroscopic studies were carried out to monitor changes in lipid fluidity upon lipolysis. The fluorescence anisotropy was measured using (1,6)-diphenyl-hexa-(1,3, 5)-triene as a probe, and the degree of order was calculated from electron spin resonance spectra using the 5-nitroxy-derivative of stearic acid. Both approaches showed a decreased lipid fluidity in remnant-HDL2, as compared to triglyceride-rich HDL2. The immunoreactivity of apoA-I toward several monoclonal antibodies was assayed as a reflection of changes of apoA-I conformation. In remnant-HDL2, as compared to triglyceride-rich HDL2, a lower reactivity was noted with the 2G11 antibody, which interacts in the NH2 terminal part of apoA-I. Finally, remnant-HDL2 was clearly different from HDL3 with respect to all of the parameters studied, demonstrating that hepatic lipase does not promote the direct conversion of HDL2 to HDL3. Thus, hepatic lipase produces remnant-HDL2 particles, which display modifications of apoA-I conformation and of fluidity of the lipid environment. This newly described HDL2 subfraction may play a major role in the reverse cholesterol transport.     

Evolutionary diversification of structure and function in the family of intracellular calcium-binding proteins

Summary The maximum parsimony method was used to reconstruct the genealogical history of the family of intracellular calcium-binding proteins represented by six major present-day lineages, three of which - calcium dependent modulator protein, heart and skeletal muscle troponin Cs, and alkali light chains of myosin - were found to share a closer kinship with one another than with the other lineages. Similarly, parvalbumins and regulatory light chains of myosin were depicted as more closely related, whereas the branch of intestinal calcium-binding protein proved to have the most distant separation. The computer-generated amino acid sequence for the common ancestor of these six lineages described a four domain protein in which each domain of approximately 40 amino acid residues had a mid-region, 12 residue segment that bound calcium and had properties most resembling those of the calcium dependent modulator protein. It could then be deduced that parvalbumins evolved by deletion of domain I, inactivation of calcium-binding properties in domain II, and acquisition of increased affinity for Ca⁺⁺ and Mg⁺⁺ in domains III and IV. Regulatory light chains of myosin lost the cation binding property from three domains, retaining it in I, whereas alkali light chains of myosin lost this ability from each of the four domains. In skeletal muscle troponin C all domains retained their calcium-binding activity; however, like parvalbumins, domains III and IV acquired high affinity properties. Cardiac troponin C lost its binding activity from domain I but otherwise resembled the skeletal muscle form. Finally, intestinal calcium-binding protein evolved by deletion of domains III and IV.Positive selection could be implicated in these evolutionary changes in that the rate of fixation of mutations substantially increased in the mid portions of those domains which were loosing calcium-binding activity. Likewise, when the cation binding sites were changing from low to high affinity, an accelerated rate of fixed mutations was observed. Once this new functional parameter was selected these regions showed a remarkable conservatism, as did those binding sites which were maintaining the lower affinity. Moreover even in sequence regions not directly involved in cation binding, the lineage of troponin C became very conservative over the past 300 million years, perhaps because of the necessity for maintaining specific interfaces in order for the molecule to interact with troponin I and T in a functional thin myofilament. A similar phenomenon was observed in domain II of the regulatory light chains of the myosin lineage suggesting a possible binding site with the heavy chain of myosin.This paper is dedicated to the memory of Jean-Francois Pechère, deceased     

Autonomic nervous system responses correlate with mental rehearsal in volleyball training

The aim of this study was to assess objectivèly the processes of mental rehearsing (imagery) by measuring variations of the autonomic nervous system (or ANS responses) during an open-ended complex motor skill in two actual experiments (volleyball) and during mental rehearsing taking place between them. Comparison between pre- and post-test (volleyball) scores related to imagining and non-imagining performances revealed significant improvement in the former (²=20.9, P<0.00001) while in the latter ²=27, P<0.9, NS. The ANS parameters (skin potential and resistance, skin temperature and heat clearance, instantaneous heart rate and respiratory frequency) were quantified by original techniques and indices. Results from a principal component analysis showed a strong correlation between the responses in actual tasks (pre- and post-test volleyball) and during mental imagery, since the same preferential variables appeared on the main axis in 87% of cases. Thus the same autonomic channels seemed to be used during the actual activity and during the mental imagery of this activity. So far as phasic results were concerned, the main finding was a differing development of skill between imagining and non-imagining volleyball players. No clear difference was seen between pre- and post-tests in non-imaginers, except an increase in the median of the duration of the response observed in heat clearance, m₁ and m₂ respectively [m₁= 5.8 (SD 4.1) s, m₂= 7.6 (SD 3.9) s, P<0.001]. Conversely, for other ANS parameters, a significant decrease was seen in the post-test responses compared to pre-test responses in the imagining group [for instance, the median of the duration of the resistance responses decreased from m₁= 12.6 (SD 4.3) s, and m₂= 7.8 (SD 4.5) s, P<0.0001 in imaginers, while no change was observed in non-imaginers: 9.6 (SD 6.0) s vs 9.5 (SD 6.1) s, NS] except in the duration of the heat clearance response where an␣increase was seen [m₁= 7.3 (SD 5.0) s vs m₂= 7.6 (SD␣3.1) s, NS]. Compared to the non-imagining group, the latter result may also have been associated with a response decrease in the imagining group. Thus mental rehearsing induced a specific pattern of autonomic response: decreased amplitude, shorter duration and negative skin potentials compared to the control group. As this pattern was associated with better performance in the tests it can be suggested that in the case of open-ended motor activity, mental rehearsing may help in the construction of schema which can be reproduced, without thinking, in actual practice. Thus a neural information process might develop in the central nervous system changing from a parallel into a serial treatment. Accepted : 23 October 1997     

Tyrosine hydroxylase and insulin-like growth factor II but not insulin are adjacent in the teleost species barramundi, Lates calcarifer

In humans, the genes encoding tyrosine hydroxylase (TH), insulin and insulin-like growth factor II (IGF-II) form an extremely tight linkage group on chromosome 11p15. Characterisation of the homologous genomic region of a teleost, the barramundi Lates calcarifer , revealed tight linkage of the TH and IGF-II genes, and the absence of the gene encoding insulin.