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| Registros recuperados: 14 | |
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| Jouault, Albane; Gobet, Angelique; Simon, Marjolaine; Portier, Emilie; Perennou, Morgan; Corre, Erwan; Gaillard, Fanny; Vallenet, David; Michel, Gurvan; Fleury, Yannick; Bazire, Alexis; Dufour, Alain. |
| The aim was to identify and study the antibiofilm protein secreted by the marine bacterium Pseudoalteromonas sp. 3J6. The latter is active against marine and terrestrial bacteria, including Pseudomonas aeruginosa clinical strains forming different biofilm types. Several amino acid sequences were obtained from the partially purified antibiofilm protein, named alterocin. The Pseudoalteromonas sp. 3J6 genome was sequenced and a candidate alt gene was identified by comparing the genome-encoded proteins to the sequences from purified alterocin. Expressing the alt gene in another non-active Pseudoalteromonas sp. strain, 3J3, demonstrated that it is responsible for the antibiofilm activity. Alterocin is a 139-residue protein including a predicted 20-residue... |
| Tipo: Text |
Palavras-chave: Antibiofilm protein; Pseudoalteromonas; Pseudomonas aeruginosa; Biofilm. |
| Ano: 2020 |
URL: https://archimer.ifremer.fr/doc/00643/75517/76405.pdf |
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| Meng, Arnaud; Corre, Erwan; Probert, Ian; Gutierrez-rodriguez, Andres; Siano, Raffaele; Annamale, Anita; Alberti, Adriana; Da Silva, Corinne; Wincker, Patrick; Le Crom, Stephane; Not, Fabrice; Bittner, Lucie. |
| Dinoflagellates are one of the most abundant and functionally diverse groups of eukaryotes. Despite an overall scarcity of genomic information for dinoflagellates, constantly emerging high-throughput sequencing resources can be used to characterize and compare these organisms. We assembled de novo and processed 46 dinoflagellate transcriptomes and used a sequence similarity network (SSN) to compare the underlying genomic basis of functional features within the group. This approach constitutes the most comprehensive picture to date of the genomic potential of dinoflagellates. A core-predicted proteome composed of 252 connected components (CCs) of putative conserved protein domains (pCDs) was identified. Of these, 206 were novel and 16 lacked any functional... |
| Tipo: Text |
Palavras-chave: Genomics; Proteomics; Microbial biology; Molecular evolution; Protists; Transcriptomics. |
| Ano: 2018 |
URL: https://archimer.ifremer.fr/doc/00444/55550/57209.pdf |
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| L’haridon, Stéphane; Corre, Erwan; Guan, Yue; Vinu, Manikandan; La Cono, Violetta; Yakimov, Mickail; Stingl, Ulrich; Toffin, Laurent; Jebbar, Mohamed. |
| The complete genome sequence of Methanohalophilus halophilus DSM 3094T, a member of the Methanosarcinaceae family and the Methanosarcianales order, consists of 2,022,959 bp in one contig and contains 2,137 predicted genes. The genome is consistent with a halophilic methylotrophic anaerobic lifestyle, including the methylotrophic and CO2-H2 methanogensis pathways. |
| Tipo: Text |
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| Ano: 2017 |
URL: https://archimer.ifremer.fr/doc/00372/48351/48523.pdf |
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| L'Haridon, Stephane; Corre, Erwan; Guan, Yue; Vinu, Manikandan; La Cono, Violetta; Yakimov, Michail; Stingl, Ulrich; Toffin, Laurent; Jebbar, Mohamed. |
| We report here the complete genome sequence (2.08 Mb) of Methanohalophilus portucalensis strain FDF-1T, a halophilic methylotrophic methanogen isolated from the sediment of a saltern in Figeria da Foz, Portugal. The average nucleotide identity and DNA-DNA hybridization analyses show that Methanohalophilus mahii, M. halophilus, and M. portucalensis are three different species within the Methanosarcinaceae family. |
| Tipo: Text |
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| Ano: 2018 |
URL: https://archimer.ifremer.fr/doc/00420/53138/54102.pdf |
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| Cai, Ruibo; Kayal, Ehsan; Alves-de-souza, Catharina; Bigeard, Estelle; Corre, Erwan; Jeanthon, Christian; Marie, Dominique; Porcel, Betina M.; Siano, Raffaele; Szymczak, Jeremy; Wolf, Matthias; Guillou, Laure. |
| As critical primary producers and recyclers of organic matter, the diversity of marine protists has been extensively explored by high-throughput barcode sequencing. However, classification of short metabarcoding sequences into traditional taxonomic units is not trivial, especially for lineages mainly known by their genetic fingerprints. This is the case for the widespread Amoebophrya ceratii species complex, parasites of their dinoflagellate congeners. We used genetic and phenotypic characters, applied to 119 Amoebophrya individuals sampled from the same geographic area, to construct practical guidelines for species delineation that could be applied in DNA/RNA based diversity analyses. Based on the internal transcribed spacer (ITS) regions, ITS2... |
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| Ano: 2020 |
URL: https://archimer.ifremer.fr/doc/00609/72156/70916.pdf |
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| Dubrulle, Guillaume; Picot, Adeline; Madec, Stephanie; Corre, Erwan; Pawtowski, Audrey; Baroncelli, Riccardo; Zivy, Michel; Balliau, Thierry; Le Floch, Gaétan; Pensec, Flora. |
| The fungal phytopathogen Colletotrichum lupini is responsible for lupin anthracnose, resulting in significant yield losses worldwide. The molecular mechanisms underlying this infectious process are yet to be elucidated. This study proposes to evaluate C. lupini gene expression and protein synthesis during lupin infection, using, respectively, an RNAseq-based transcriptomic approach and a mass spectrometry-based proteomic approach. Patterns of differentially-expressed genes in planta were evaluated from 24 to 84 hours post-inoculation, and compared to in vitro cultures. A total of 897 differentially-expressed genes were identified from C. lupini during interaction with white lupin, of which 520 genes were predicted to have a putative function, including... |
| Tipo: Text |
Palavras-chave: Anthracnose disease; Transcriptome; Proteome; Pathogenicity factors. |
| Ano: 2020 |
URL: https://archimer.ifremer.fr/doc/00656/76795/77961.pdf |
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| Cascella, Kevin; Jollivet, Didier; Papot, Claire; Leger, Nelly; Corre, Erwan; Ravaux, Juliette; Clark, Melody S.; Toullec, Jean-yves. |
| Background A comparative thermal tolerance study was undertaken on two sister species of Euphausiids (Antarctic krills) Euphausia superba and Euphausia crystallorophias. Both are essential components of the Southern Ocean ecosystem, but occupy distinct environmental geographical locations with slightly different temperature regimes. They therefore provide a useful model system for the investigation of adaptations to thermal tolerance. Methodology/Principal Finding Initial CTmax studies showed that E. superba was slightly more thermotolerant than E. crystallorophias. Five Hsp70 mRNAs were characterized from the RNAseq data of both species and subsequent expression kinetics studies revealed notable differences in induction of each of the 5 orthologues... |
| Tipo: Text |
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| Ano: 2015 |
URL: https://archimer.ifremer.fr/doc/00293/40445/39081.pdf |
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| Dupont, Samuel; Corre, Erwan; Li, Yanyan; Vacelet, Jean; Bourguet-kondracki, Marie-lise. |
| Using 454 pyrosequencing, we characterized for the first time the associated microbial community of the deep-sea carnivorous Demosponge Asbestopluma hypogea (Cladorhizidae). Targeting the 16S rRNA gene V3 and V6 hypervariable regions, we compared the diversity and composition of associated microbes of two individual sponges of A.hypogea freshly collected in the cave with surrounding seawater and with one sponge sample maintained 1year in an aquarium after collection. With more than 22961 high quality sequences from sponge samples, representing c. 800 operational taxonomic units per sponge sample at 97% sequence similarities, the phylogenetic affiliation of A.hypogea-associated microbes was assigned to 20 bacterial and two archaeal phyla, distributed into... |
| Tipo: Text |
Palavras-chave: Asbestopluma hypogea; Carnivorous sponge; Cladorhizidae; Microbial diversity; Microscopic studies; Pyrosequencing 454 amplicons. |
| Ano: 2013 |
URL: https://archimer.ifremer.fr/doc/00372/48277/48534.pdf |
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| Couton, Marjorie; Comtet, Thierry; Le Cam, Sabrina; Corre, Erwan; Viard, Frédérique. |
| High-throughput sequencing (HTS) technologies offer new promise to support surveillance programs targeting marine non-indigenous species (NIS). Metabarcoding might surpass traditional monitoring methods, for example through its ability to detect rare species, a key feature in early detection of NIS. Another interest of this approach is the identification of organisms difficult to identify based on morphology only (e.g., early developmental stages), making it relevant in the context of management programs. Because many marine benthic NIS have a biphasic benthopelagic life cycle, targeting their pelagic larval stages in zooplankton may allow early detection and assessment of their establishment and potential spread. We illustrate this approach with an... |
| Tipo: Text |
Palavras-chave: Zooplankton; Time-series; Non-indigenous species; Estuary; High-throughput sequencing; Surveillance; Monitoring. |
| Ano: 2019 |
URL: https://archimer.ifremer.fr/doc/00599/71127/69442.pdf |
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| Muir, Anna P.; Dubois, Stanislas; Ross, Rebecca E.; Firth, Louise B.; Knights, Antony M.; Lima, Fernando P.; Seabra, Rui; Corre, Erwan; Le Corguillé, Gildas; Nunes, Flavia. |
| ackground Under the threat of climate change populations can disperse, acclimatise or evolve in order to avoid fitness loss. In light of this, it is important to understand neutral gene flow patterns as a measure of dispersal potential, but also adaptive genetic variation as a measure of evolutionary potential. In order to assess genetic variation and how this relates to environment in the honeycomb worm (Sabellaria alveolata (L.)), a reef-building polychaete that supports high biodiversity, we carried out RAD sequencing using individuals from along its complete latitudinal range. Patterns of neutral population genetic structure were compared to larval dispersal as predicted by ocean circulation modelling, and outlier analyses and genotype-environment... |
| Tipo: Text |
Palavras-chave: RADseq; Ocean circulation modelling; Adaptation; Marine invertebrate; Larval dispersal. |
| Ano: 2020 |
URL: https://archimer.ifremer.fr/doc/00643/75538/76445.pdf |
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| Jacquemot, Loic; Bettarel, Yvan; Monjol, Joanne; Corre, Erwan; Halary, Sebastien; Desnues, Christelle; Bouvier, Thierry; Ferrier-pages, Christine; Baudoux, Anne-claire. |
| Biological control using bacteriophages is a promising approach for mitigating the devastating effects of coral diseases. Several phages that infect Vibrio coralliilyticus, a widespread coral pathogen, have been isolated, suggesting that this bacterium is permissive to viral infection and is, therefore, a suitable candidate for treatment by phage therapy. In this study, we combined functional and genomic approaches to evaluate the therapeutic potential of BONAISHI, a novel V. coralliilyticus phage, which was isolated from the coral reef in Van Phong Bay (Vietnam). BONAISHI appears to be strictly lytic for several pathogenic strains of V. coralliilyticus and remains infectious over a broad range of environmental conditions. This candidate has an unusually... |
| Tipo: Text |
Palavras-chave: Phage therapy; Coral disease; Vibrio coralliilyticus; Viral genomics; Phage-host interactions. |
| Ano: 2018 |
URL: https://archimer.ifremer.fr/doc/00465/57717/74946.pdf |
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| Toullec, Jean-yves; Corre, Erwan; Bernay, Benoit; Thorne, Michael A. S.; Cascella, Kevin; Ollivaux, Celine; Henry, Joel; Clark, Melody S.. |
| Background: The Ice krill, Euphausia crystallorophias is one of the species at the base of the Southern Ocean food chain. Given their significant contribution to the biomass of the Southern Ocean, it is vitally important to gain a better understanding of their physiology and, in particular, anticipate their responses to climate change effects in the warming seas around Antarctica. Methodology/Principal Findings: Illumina sequencing was used to produce a transcriptome of the ice krill. Analysis of the assembled contigs via two different methods, produced 36 new pre-pro-peptides, coding for 61 neuropeptides or peptide hormones belonging to the following families: Allatostatins (A, B et C), Bursicon (a and b), Crustacean Hyperglycemic Hormones (CHH and... |
| Tipo: Text |
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| Ano: 2013 |
URL: https://archimer.ifremer.fr/doc/00293/40444/39080.pdf |
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| Rahmani, Alexandra; Corre, Erwan; Richard, Gaëlle; Bidault, Adeline; Lambert, Christophe; Oliveira, Louisi; Thompson, Cristiane; Thompson, Fabiano; Pichereau, Vianney; Paillard, Christine. |
| The Brown Ring Disease is an infection caused by the bacterium Vibrio tapetis on the Manila clam Ruditapes philippinarum. The process of infection, in the extrapallial fluids (EPFs) of clams, involves alteration of immune functions, in particular on hemocytes which are the cells responsible of phagocytosis. Disorganization of the actin-cytoskeleton in infected clams is a part of what leads to this alteration. This study is the first transcriptomic approach based on collection of extrapallial fluids on living animals experimentally infected by V. tapetis. We performed differential gene expression analysis of EPFs in two experimental treatments (healthy-against infected-clams by V. tapetis), and showed the deregulation of 135 genes. In infected clams, a... |
| Tipo: Text |
Palavras-chave: Brown ring disease; V. tapetis; R. philippinarum; Hemocytes; Actin cytoskeleton; Beta-Thymosin; Coactosin; Resting cells. |
| Ano: 2019 |
URL: https://archimer.ifremer.fr/doc/00510/62131/66362.pdf |
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| Registros recuperados: 14 | |
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