Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
The southernmost part of the Ryukyu subduction, where the Philippine Sea Plate is subducting under the Eurasian Plate, is known to be a very seismically active region of transition from a north-dipping subduction along the Ryukyu subduction to an ~ SE-NW collision along the Taiwanese orogenic wedge. In this paper, we will focus on the Ryukyu forearc area close to Taiwan where the deformation is paroxysmal. In order to decipher the nature of the seismic deformation in this region, a three month passive experiment, combining 22 Ocean Bottom Seismometers and 51 onland stations, has been led. Starting from an a-priori heterogeneous model, we have obtained 801 well-located earthquake hypocenters, a precise P-wave tomography model and 14 focal mechanisms. The seismicity along the Ryukyu forearc is mainly located not only in the vicinity of the Interplate Seismogenic Zone (ISZ) but also within both the subducting PSP and the overriding plate. Seismicity within the upper-plate is essentially localized east of Nanao basin where NW-SE extension occurs, and northwest of the Hoping basin where strike-slip dominates. As revealed by both the P-wave velocity structure and the newly derived seismicity, we argue that a sub-vertical step offsetting the subducting PSP around 10 km may support the presence of a trench-parallel tear. The PSP also undergoes extension in its upper part that is probably caused by buckling and slab pull. The P-wave velocity structure reveals three other major features: (1) a continuity between the Central Range and the Ryukyu Arc with a shallower Moho (~ 30 km depth) between ~ 122.3°N and ~ 122.5°N along the Ryukyu Arc, (2) high P-wave velocities along the eastern side of the Central Range and, (3) two bodies with similar high crustal velocities (6.5-7.0 km/s) at 12-18 km depths, embedded within the Ryukyu arc basement, just north of Hoping Basin and north of the Nanao Basin.
ISSN: 0040-1951

hal-00795521
https://hal.archives-ouvertes.fr/hal-00795521
DOI : 10.1016/j.tecto.2012.04.011

Éditeur(s) : HAL CCSD Wiley-Blackwell
Résumé : International audience
Although protists are critical components of marine ecosystems, they are still poorly characterized. Here we analysed the taxonomic diversity of planktonic and benthic protist communities collected in six distant European coastal sites. Environmental deoxyribonucleic acid (DNA) and ribonucleic acid (RNA) from three size fractions (pico-, nano- and micro/mesoplankton), as well as from dissolved DNA and surface sediments were used as templates for tag pyrosequencing of the V4 region of the 18S ribosomal DNA. Beta-diversity analyses split the protist community structure into three main clusters: picoplankton-nanoplankton-dissolved DNA, micro/mesoplankton and sediments. Within each cluster, protist communities from the same site and time clustered together, while communities from the same site but different seasons were unrelated. Both DNA and RNA-based surveys provided similar relative abundances for most class-level taxonomic groups. Yet, particular groups were overrepresented in one of the two templates, such as marine alveolates (MALV)-I and MALV-II that were much more abundant in DNA surveys. Overall, the groups displaying the highest relative contribution were Dinophyceae, Diatomea, Ciliophora and Acantharia. Also, well represented were Mamiellophyceae, Cryptomonadales, marine alveolates and marine stramenopiles in the picoplankton, and Monadofilosa and basal Fungi in sediments. Our extensive and systematic sequencing of geographically separated sites provides the most comprehensive molecular description of coastal marine protist diversity to date.
ISSN: 1462-2912

hal-01191731
http://hal.upmc.fr/hal-01191731
http://hal.upmc.fr/hal-01191731/document
http://hal.upmc.fr/hal-01191731/file/Massana_2015_Marine_protist.pdf
DOI : 10.1111/1462-2920.12955

Éditeur(s) : HAL CCSD Nature Publishing Group
Résumé : International audience
The shallow water bivalve Codakia orbicularis lives in symbiotic association with a sulfur-oxidizing bacterium in its gills. The endosymbiont fixes CO2 and thus generates organic carbon compounds, which support the host's growth. To investigate the uncultured symbiont's metabolism and symbiont-host interactions in detail we conducted a proteogenomic analysis of purified bacteria. Unexpectedly, our results reveal a hitherto completely unrecognized feature of the C. orbicularis symbiont's physiology: the symbiont's genome encodes all proteins necessary for biological nitrogen fixation (diazotrophy). Expression of the respective genes under standard ambient conditions was confirmed by proteomics. Nitrogenase activity in the symbiont was also verified by enzyme activity assays. Phylogenetic analysis of the bacterial nitrogenase reductase NifH revealed the symbiont's close relationship to free-living nitrogen-fixing Proteobacteria from the seagrass sediment. The C. orbicularis symbiont, here tentatively named `Candidatus Thiodiazotropha endolucinida', may thus not only sustain the bivalve's carbon demands. C. orbicularis may also benefit from a steady supply of fixed nitrogen from its symbiont-a scenario that is unprecedented in comparable chemoautotrophic symbioses.
ISSN: 2058-5276

hal-01545904
https://hal.archives-ouvertes.fr/hal-01545904
DOI : 10.1038/nmicrobiol.2016.193

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : International audience
Understanding how communities respond to natural disturbances is fundamental to assess the mechanisms of ecosystem resistance and resilience. However, ecosystem responses to natural disturbances are rarely monitored both through space and time, while the factors promoting ecosystem stability act at various temporal and spatial scales. Hence, assessing both the spatial and temporal variations in species composition is important to comprehensively explore the effects of natural disturbances. Here, we suggest a framework to better scrutinize the mechanisms underlying community responses to disturbances through both time and space. Our analytical approach is based on beta diversity decomposition into two components, replacement and biomass difference. We illustrate this approach using a 9-year monitoring of coral reef fish communities off Moorea Island (French Polynesia), which encompassed two severe natural disturbances: a crown-of-thorns starfish outbreak and a hurricane. These disturbances triggered a fast logistic decline in coral cover, which suffered a 90% decrease on all reefs. However, we found that the coral reef fish composition remained largely stable through time and space whereas compensatory changes in bio-mass among species were responsible for most of the temporal fluctuations, as outlined by the overall high contribution of the replacement component to total beta diversity. This suggests that, despite the severity of the two disturbances, fish communities exhibited high resistance and the ability to reorganize their compositions to maintain the same level of total community biomass as before the disturbances. We further investigated the spatial congruence of this pattern and showed that temporal dynamics involved different species across sites; yet, herbivores controlling the proliferation of algae that compete with coral communities were consistently favored. These results suggest that compensatory changes in bio-mass among species and spatial heterogeneity in species responses can provide further
ISSN: 1932-6203

hal-01212344
https://hal-univ-perp.archives-ouvertes.fr/hal-01212344
https://hal-univ-perp.archives-ouvertes.fr/hal-01212344/document
https://hal-univ-perp.archives-ouvertes.fr/hal-01212344/file/journal.pone.0138696.pdf
DOI : 10.1371/journal.pone.0138696

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Few studies have explored the consequences of environmental exposure to organochlorine pesticides for gestational hypertension (GH), preeclampsia (PE) and gestational diabetes mellitus (GDM). Chlordecone is a persistent organochlorine pesticide that was used intensively, and almost exclusively, in the French West Indies until 1993. We investigated the impact of prenatal exposure to chlordecone on the occurrence of GDM, GH and PE by studying 779 pregnant women enrolled in a prospective mother-child cohort (Timoun Study) in Guadeloupe between 2004 and 2007. Chlordecone exposure was determined by assaying maternal plasma and information about pregnancy complications was obtained from midwives, pediatricians and hospital medical records after delivery. The risks of GH (n=65), PE (n=31) and GDM (n=71) were estimated by multiple logistic regression including potential confounders. Levels of chlordecone plasma concentration in the third (OR=0.2; 95% confidence interval (CI): 0.1, 0.5) and fourth quartiles (OR=0.3; 95% CI: 0.2, 0.7) were associated with a statistically significant decrease in the risk of GH. A log10 increase in chlordecone concentration was significantly associated with lower risk of GH (OR=0.4; 95% CI: 0.2, 0.6). No significant associations were observed between the chlordecone exposure and the risk of PE or GDM. This study suggests an inverse association between chlordecone exposure during pregnancy and GH. Further studies are required to determine the underlying mechanism, or the potential unknown confounding factors, resulting in this association.
ISSN: 0160-4120

hal-01061391
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01061391
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01061391/document
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01061391/file/Saunders_et_al._Final_version_main_manuscript.pdf
DOI : 10.1016/j.envint.2014.03.024

Éditeur(s) : HAL CCSD Oxford University Press
Résumé : International audience
The BioMart Community Portal (www.biomart.org) is a community-driven effort to provide a unified interface to biomedical databases that are distributed worldwide. The portal provides access to numerous database projects supported by 30 scientific organizations. It includes over 800 different biological datasets spanning genomics, proteomics, model organisms, cancer data, ontology information and more. All resources available through the portal are independently administered and funded by their host organizations. The BioMart data federation technology provides a unified interface to all the available data. The latest version of the portal comes with many new databases that have been created by our ever-growing community. It also comes with better support and extensibility for data analysis and visualization tools. A new addition to our toolbox, the enrichment analysis tool is now accessible through graphical and web service interface. The BioMart community portal averages over one million requests per day. Building on this level of service and the wealth of information that has become available, the BioMart Community Portal has introduced a new, more scalable and cheaper alternative to the large data stores maintained by specialized organizations.
ISSN: 0305-1048

hal-01146849
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01146849
DOI : 10.1093/nar/gkv350
PUBMED : 25897122

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
BACKGROUND: The insecticide chlordecone was extensively used in the French West Indies to control banana root borer. Its persistence in soils has led to the widespread pollution of the environment, and human beings are still exposed to this chemical. Chlordecone has been shown to impair neurological and behavioural functions in rodents when exposed gestationally or neonatally. OBJECTIVES: The aim of the study was to evaluate the impact of prenatal and postnatal exposure to chlordecone on the cognitive, visual, and motor development of 7-month-old infants from Guadeloupe. METHODS: Infants were tested at 7 months (n=153). Visual recognition memory and processing speed were assessed with the Fagan Tests of Infant Intelligence (FTII), visual acuity with the Teller Acuity Card, and fine motor development with the Brunet-Lezine. Samples of cord blood and breast milk at 3 months (n=88) were analyzed for chlordecone concentrations. Postnatal exposure was determined through breast feeding and frequency of contaminated food consumption by the infants. RESULTS: Cord chlordecone concentrations in tertiles were associated with reduced novelty preference on the FTII in the highly exposed group (β=-0.19, p=0.02). Postnatal exposure through contaminated food consumption was marginally related to reduced novelty preference (β=-0.14, p=0.07), and longer processing speed (β=0.16, p=0.07). Detectable levels of chlordecone in cord blood were associated with higher risk of obtaining low scores on the fine motor development scale (OR=1.25, p<0.01). CONCLUSION: These results suggest that pre- and postnatal low chronic exposure to chlordecone is associated with negative effects on cognitive and motor development during infancy.
ISSN: 0013-9351

hal-00875939
https://hal.archives-ouvertes.fr/hal-00875939
DOI : 10.1016/j.envres.2012.07.006
PUBMED : 22910562

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
This study provides new Ar-40/Ar-39 geochronological constraints on the age of the Alpine tectonics in the Aspromonte Massif (southern part of the Calabrian-Peloritan belt). This massif exposes the upper units of the Calabride Complex which originated from the European continental margin. The Calabride Complex was incorporated in the Alpine orogenic wedge and then integrated into the Apennines and Maghrebides fold- and-thrust belts. Throughout the Calabride Complex there is evidence for a two stage tectonic history, which remains however rather poorly dated: Alpine nappe stacking is followed by extensional reworking along the former thrust contacts or along new detachment surfaces. Our new ages suggest that exhumation of the uppermost units, which accompanied nappe stacking, probably started at 45 Ma and that the deepest units were almost completely exhumed at 33 Ma. This kinematics probably corresponds to syn-orogenic extension while the end of exhumation is clearly related to the extensional tectonics dated at 28.6 Ma along detachment structures.;Our geochronological data reveal a very short lag time between accretional and extensional processes in this part of the Mediterranean Alpine orogenic belt. The direction of extension, when the units are restored to their initial position (i.e. before the opening of the Western Mediterranean basins and the bending of the arc) is NNE-SSW. Such a direction does not fit with the eastward slab-retreat model generally put forward to explain extension in the Western Mediterranean. In contrast, we provide evidence for roughly N-S middle Oligocene extension in the accretionary prism, not previously described in this part of the Mediterranean domain.
ISSN: 0024-4937

hal-00475649
https://hal.archives-ouvertes.fr/hal-00475649
DOI : 10.1016/j.lithos.2009.10.011

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Numerous field studies highlighted the capacities of marine sponges to bioaccumulate trace elements and assessed their potential as biomonitors of the marine environment. Experimental works demonstrated that dissolved metals and radionuclides can be taken up directly by sponge tissues but, to the best of our knowledge, little is known on the contribution of the dietary pathway through the consumption of contaminated bacteria considered as one of the trophic source in sponge diet. Objectives of this work are to study trophic transfer of radiotracers 110mAg, 241Am, 109Cd, 57Co, 134Cs, 54Mn and 65Zn from the marine bacteria Pseudomonas stutzeri to the Mediterranean sponges Aplysina cavernicola and Ircinia oros. P. stutzeri efficiently bioaccumulated trace elements in our culture experimental conditions with CF comprised between 105 and 107 after 48 hours of growth in radiolabeled medium. When fed with these radiolabelled bacteria, A. cavernicola took up around 60% of radiotracers accumulated in trophic source except 134Cs for which only 8% has been transferred from bacteria to sponge. Contrasting to this, I. oros retained only 7% of 110mAg, 109Cd and 65Zn counted in bacteria, but retained 2-fold longer accumulated metals in its tissues. The sponge inter-specific differences of accumulation and depuration following a trophic exposure are discussed with respect to the structure and the clearance capacities of each species.
ISSN: 0045-6535

hal-01217273
https://hal.archives-ouvertes.fr/hal-01217273
https://hal.archives-ouvertes.fr/hal-01217273/document
https://hal.archives-ouvertes.fr/hal-01217273/file/Pub%20Bacteria%20CHEM_HAL.pdf
DOI : 10.1016/j.chemosphere.2015.10.046

Éditeur(s) : HAL CCSD John Libbey Eurotext
Résumé : International audience
The diversity of chemicals used in hospitals (detergents-disinfectants, alcohol-based hand sanitizers, drugs, etc.) and recent developments in indoor air quality regulation of public access buildings require a better understanding of chemical risks in this particular environment. We developed a methodology for semi-quantitative chemical risk assessments in this environment to prioritize inhalation risks by sector and chemical. This methodology is based on a similar approach in the workplace that defines classes of exposures and of hazards. Their combination produces a risk matrix. Four criteria were used to determine the exposure classes: quantity and frequency of the chemical's use, volatility (vapor pressure), and the type of collective protective equipment associated with each area. The hazard class is also derived from four criteria: classification as carcinogenic, mutagenic, or toxic to reproduction, the existence of a toxicity reference value, occupational exposure limit values, and risk phrases (official risk descriptions, on labels, data sheets, etc). This methodology was tested in the Rennes University Hospital (Rennes, France) in five different hospital areas, with a specific survey undertaken to collect data about chemicals in each area. The results show the spatial specificity of chemical risks. Among the various sites analysed, the chemical risks of two require priority attention: the parasitology-mycology laboratory and patients' rooms. Because of their wide use in the hospital and the volatility of some of their components (alcohols), detergents-disinfectants contribute to increasing risk levels in all areas. The model is therefore discriminatory in terms of areas and substances.
ISSN: 1635-0421

hal-00952349
https://hal-univ-rennes1.archives-ouvertes.fr/hal-00952349
DOI : 10.1684/ers.2013.0659

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
The fitness landscapethe mapping between genotypes and fitnessdetermines properties of the process of adaptation. Several small genotypic fitness landscapes have recently been built by selecting a handful of beneficial mutations and measuring fitness of all combinations of these mutations. Here, we generate several testable predictions for the properties of these small genotypic landscapes under Fisher's geometric model of adaptation. When the ancestral strain is far from the fitness optimum, we analytically compute the fitness effect of selected mutations and their epistatic interactions. Epistasis may be negative or positive on average depending on the distance of the ancestral genotype to the optimum and whether mutations were independently selected, or coselected in an adaptive walk. Simulations show that genotypic landscapes built from Fisher's model are very close to an additive landscape when the ancestral strain is far from the optimum. However, when it is close to the optimum, a large diversity of landscape with substantial roughness and sign epistasis emerged. Strikingly, small genotypic landscapes built from several replicate adaptive walks on the same underlying landscape were highly variable, suggesting that several realizations of small genotypic landscapes are needed to gain information about the underlying architecture of the fitness landscape.
ISSN: 0014-3820

hal-01544760
https://hal.archives-ouvertes.fr/hal-01544760
DOI : 10.1111/evo.12545

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
We analyze in this study a new set of marine data including 3D local tomography, 1992-2008 relocated earthquakes and two recent multichannel seismic lines to characterize the deformation style in the collision area offshore east Taiwan. We have mapped in detail the Mohos of the converging plates as well as the subduction interface with a resolution never reached before. We show that the sharp continental subduction of the Eurasia plate, beneath the middle part of the Central Range, indents the Philippine Sea plate (PSP) as attested by intra-oceanic slicing and incipient subduction of the PSP beneath the east coast of Taiwan. The westernmost part of the PSP slab is probably experiencing a beginning of break-off as attested by NW-trending en-échelon shear zones beneath the southern slope of the southern Ryukyu arc (SRA). These en-échelon shear zones have a sinistral component favored by the "collision-free" subduction of the PSP north of 24°30′N. The down-faulting of the subduction interface forms ramps along which earthquakes clusterize. Three M7 subduction earthquakes occurred offshore Suao city along these ramps with a recurrence interval of about 40 years: 1920 Mw7.7, 1963 Mw7.2 and 2002 Mw7.1 events. The 1966 Mw6.0-7.5 earthquakes sequence likely outlines a WNW-ESE left-lateral intra-slab shear zone. The SRA upper plate accommodates the complex geometry and deformation of the subducting PSP through seismic deformation. Shallow high velocities fringing the Luzon volcanic arc (LVA) beneath the Longitudinal Valley and north of the southernmost Ryukyu forearc basins are interpreted as relics of the LVA forearc basement squeezed in the collision zone. Based on the accommodation of a large part of the convergence through shortening within the PSP and the subsequent segmentation of the shallow subduction interface, we consider that the nucleation of a Mw ≥ 8 earthquake along the southernmost Ryukyu megathrust is unlikely.
ISSN: 0040-1951

hal-00853365
https://hal.archives-ouvertes.fr/hal-00853365
https://hal.archives-ouvertes.fr/hal-00853365/document
https://hal.archives-ouvertes.fr/hal-00853365/file/publallemandifremer.pdf
DOI : 10.1016/j.tecto.2013.03.020

Éditeur(s) : HAL CCSD
Résumé : International audience
Journées internationalessur la communication, l'éducation et la culture scientifique et industrielle
Chamonix, France

hal-01620768
https://hal.univ-antilles.fr/hal-01620768
https://hal.univ-antilles.fr/hal-01620768/document
https://hal.univ-antilles.fr/hal-01620768/file/Atelier%20Forissier-ClementJIES2001.pdf

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : International audience
BACKGROUND: Studies relating long-term exposure to persistent organochlorine pollutants (POPs) with endocrine activities (endocrine disrupting chemicals) on circulating levels of steroid hormones have been limited to a small number of hormones and reported conflicting results. OBJECTIVE: We examined the relationship between serum concentrations of dehydroepiandrosterone, dehydroepiandrosterone sulphate, androstenedione, androstenediol, testosterone, free and bioavailable testosterone, dihydrotestosterone, estrone, estrone sulphate, estradiol, sex-hormone binding globulin, follicle-stimulating hormone, and luteinizing hormone as a function of level of exposure to three POPs known to interfere with hormone-regulated processes in different way: dichlorodiphenyl dichloroethene (DDE), polychlorinated biphenyl (PCB) congener 153, and chlordecone. METHODS: We collected fasting, morning serum samples from 277 healthy, non obese, middle-aged men from the French West Indies. Steroid hormones were determined by gas chromatography-mass spectrometry, except for dehydroepiandrosterone sulphate, which was determined by immunological assay, as were the concentrations of sex-hormone binding globulin, follicle-stimulating hormone and luteinizing hormone. Associations were assessed by multiple linear regression analysis, controlling for confounding factors, in a backward elimination procedure, in multiple bootstrap samples. RESULTS: DDE exposure was negatively associated to dihydrotestosterone level and positively associated to luteinizing hormone level. PCB 153 was positively associated to androstenedione and estrone levels. No association was found for chlordecone. CONCLUSIONS: These results suggested that the endocrine response pattern, estimated by determining blood levels of steroid hormones, varies depending on the POPs studied, possibly reflecting differences in the modes of action generally attributed to these compounds. It remains to be investigated whether this response pattern is predictive of the subsequent occurrence of disease.
ISSN: 1932-6203

hal-00876025
https://hal.archives-ouvertes.fr/hal-00876025
https://hal.archives-ouvertes.fr/hal-00876025/document
https://hal.archives-ouvertes.fr/hal-00876025/file/Persistent_Organochlorine-accepted.pdf
DOI : 10.1371/journal.pone.0066460

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
ISSN: 0305-7453

hal-01470808
https://hal.archives-ouvertes.fr/hal-01470808
DOI : 10.1093/jac/dkw352
PUBMED : 27609051

Éditeur(s) : HAL CCSD
Résumé : International audience
Dans une première partie, une approche bibliographique sur les conceptions relatives àla nature et à l'environnement nous a permis de concevoir un questionnaire qui a été proposé à desfuturs enseignants de biologie. Une seconde partie analyse les réponses à l'une des questions : cesfuturs enseignants différencient nettement la nature et l'environnement.
Journées internationales sur la comunication, l'éducation et la culture scientifiques et industrielles
Chamonix, France

hal-01620771
https://hal.univ-antilles.fr/hal-01620771
https://hal.univ-antilles.fr/hal-01620771/document
https://hal.univ-antilles.fr/hal-01620771/file/Forissierchamonix2002.pdf

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
The brown algal genus Padina (Dictyotales, Phaeophyceae) is distributed worldwide in tropical and temperate seas. Global species diversity and distribution ranges, however, remain largely unknown. Species-level diversity was reassessed using DNA-based, algorithmic species delineation techniques based on cox3 and rbcL sequence data from 221 specimens collected worldwide. This resulted in estimates ranging from 39 to 61 putative species (ESUs), depending on the technique as well as the locus. We discuss the merits, potential pitfalls, and evolutionary and biogeographic significance of algorithmic species delineation. We unveil patterns whereby ESUs are in all but one case restricted to either the Atlantic or Indo-Pacific Ocean. Within ocean basins we find evidence for the vast majority of ESUs to be confined to a single marine realm. Exceptions, whereby ESUs span up to three realms, are located in the Indo-Pacific Ocean. Patterns of range-restricted species likely arise by repeated founder events and subsequent peripatric speciation, hypothesized to dominate speciation mechanisms for coastal marine organisms in the Indo-Pacific. Using a three-gene (cox3, psaA and rbcL), relaxed molecular clock phylogenetic analysis we estimated divergence times, providing a historical framework to interpret biogeographic patterns.
ISSN: 0022-3646

hal-01545323
https://hal.archives-ouvertes.fr/hal-01545323
DOI : 10.1111/jpy.12027

Éditeur(s) : HAL CCSD BioMed Central
Résumé : International audience
Background: The filamentous fungus Trichoderma reesei is the main industrial cellulolytic enzyme producer. Several strains have been developed in the past using random mutagenesis, and despite impressive performance enhancements, the pressure for low-cost cellulases has stimulated continuous research in the field. In this context, comparative study of the lower and higher producer strains obtained through random mutagenesis using systems biology tools (genome and transcriptome sequencing) can shed light on the mechanisms of cellulase production and help identify genes linked to performance. Previously, our group published comparative genome sequencing of the lower and higher producer strains NG 14 and RUT C30. In this follow-up work, we examine how these mutations affect phenotype as regards the transcriptome and cultivation behaviour. Results: We performed kinetic transcriptome analysis of the NG 14 and RUT C30 strains of early enzyme production induced by lactose using bioreactor cultivations close to an industrial cultivation regime. RUT C30 exhibited both earlier onset of protein production (3 h) and higher steady-state productivity. A rather small number of genes compared to previous studies were regulated (568), most of them being specific to the NG 14 strain (319). Clustering analysis highlighted similar behaviour for some functional categories and allowed us to distinguish between induction-related genes and productivity-related genes. Cross-comparison of our transcriptome data with previously identified mutations revealed that most genes from our dataset have not been mutated. Interestingly, the few mutated genes belong to the same clusters, suggesting that these clusters contain genes playing a role in strain performance. Conclusions: This is the first kinetic analysis of a transcriptomic study carried out under conditions approaching industrial ones with two related strains of T. reesei showing distinctive cultivation behaviour. Our study sheds some light on some of the events occurring in these strains following induction by lactose. The fact that few regulated genes have been affected by mutagenesis suggests that the induction mechanism is essentially intact compared to that for the wild-type isolate QM6a and might be engineered for further improvement of T. reesei. Genes from two specific clusters might be potential targets for such genetic engineering.
ISSN: 1754-6834

Droits : http://creativecommons.org/licenses/by/
hal-01112360
http://hal.upmc.fr/hal-01112360
http://hal.upmc.fr/hal-01112360/document
http://hal.upmc.fr/hal-01112360/file/Poggi-Parodi_2014_Kinetic.pdf
DOI : 10.1186/s13068-014-0173-z

Éditeur(s) : HAL CCSD
Résumé : Les populations envahissantes sont généralement confrontées à un monde hétérogène où les conditions abiotiques, la distribution et la disponibilité en ressource et les densités d’espèces natives varient à la fois dans le temps et dans l’espace. Une telle hétérogénéité environmentale peut jouer un rôle décisif dans le succès d’établissement et sur la vitesse d’expansion d’une invasion. Des capacités de dispersion dans le temps et dans l’espace sont attendues pour permettre aux populations envahissantes de faire face à ces contraintes. Les Hyménoptères spécialistes des graines du genre Megastigmus (Torymidae) sont des modèles invasifs intéressants parce-qu’ils exploitent des populations d’arbres qui sont réparties en patchs discontinus dans le paysage et qui montrent des variations inter-annuelles synchronisées et de forte amplitude dans la production de graines (masting). Nous nous sommes intéressés à l’invasion récente des forêts de cèdre de l’Atlas du sud-est de la France par M. schimitscheki, qui montre de fortes propensions à : (i) la dispersion passive par le vent (dispersion spatiale), et (ii) la diapause prolongée, une forme de dormance larvaire pouvant durer de 3 à 5 années consécutives (dispersion temporelle). Dans un premier temps, nous montrons que, malgré une distribution très fragmentée de son hôte obligatoire à l’échelle du paysage, M. schimitscheki a pu envahir la quasi-totalité des cédraies de la région PACA par des évènements de dispersion à longue distance depuis sa zone d’introduction, à la faveur d’un vent régional dominant (le Mistral). Dans un second temps, nous montrons que, à l’échelle d’une population, la diapause prolongée peut constituer un refuge temporel démographique et génétique pour des cohortes soumises aux variations extrêmes de disponibilité en ressources, qui résultent du masting de leur hôte obligatoire.
Colloque de lancement du GdR ‘Invasions Biologiques’
Rennes, France

hal-01601706
https://hal.archives-ouvertes.fr/hal-01601706
PRODINRA : 404855

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
OBJECTIVE: The WEGENT trial and other short-term studies suggested that azathioprine or methotrexate could effectively maintain granulomatosis with polyangiitis (GPA) or microscopic polyangiitis (MPA) remission. Whether differences in relapse or adverse event rates would appear after discontinuation of those 2 maintenance regimens and longer follow-up remains unknown. METHODS: Long-term outcomes for the patients enrolled in the WEGENT trial were analyzed according to their randomization group. Parameters at trial entry were evaluated as potential prognostic factors for death, relapse or damage in multivariate models. RESULTS: Data were returned for 88.8% of the 126 original participants. Median [95% confidence interval] followup was 11.9 [11.3-12.5] years. For the azathioprine and methotrexate arms, respectively, the 10-year overall survival rates were 75.1% [64.8-86.9] and 79.9% [70.3-90.8] (P = 0.56), and relapse-free survival rates 26.3% [17.3-40.1] and 33.5% [23.5-47.7] (P = 0.29). No between-arm differences were observed for relapse, adverse events, damage, survival rates without severe side effects and survival rates without relapse and severe side effects. Considering only the 97 GPA patients, no between-arm survival differences were observed. Relapse-free survival was shorter for GPA than MPA patients but the multivariate analysis retained anti-PR3-ANCA-positivity, and not GPA, as being independently associated with relapse. CONCLUSION: This long-term analysis confirms that azathioprine and methotrexate are comparable options for maintaining GPA or MPA remission. Despite good overall survival, relapses, adverse events and damage remain matters of concern and further studies are needed to reduce them.
ISSN: 2326-5205

hal-01217989
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01217989
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01217989/document
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01217989/file/Long-term%20outcomes%20of%20the%20WEGENT%20trial_accepted.pdf
DOI : 10.1002/art.39450