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Registros recuperados: 7
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Complete Genome Sequence of Lactococcus lactis subsp. lactis A12, a Strain Isolated from Wheat Sourdough ArchiMer
Guellerin, Maéva; Passerini, Delphine; Fontagné-faucher, Catherine; Robert, Hervé; Gabriel, Valérie; Loux, Valentin; Klopp, Christophe; Le Loir, Yves; Coddeville, Michèle; Daveran-mingot, Marie-line; Ritzenthaler, Paul; Le Bourgeois, Pascal.
We report here the complete genome sequence of Lactococcus lactis subsp. lactis strain A12, a strain isolated from sourdough. The circular chromosome and the four plasmids reveal genes involved in carbohydrate metabolism that are potentially required for the persistence of this strain in such a complex ecosystem.
Tipo: Text
Ano: 2016 URL: https://archimer.ifremer.fr/doc/00369/48051/48136.pdf
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Draft Genome Sequence of Enterohemorrhagic Escherichia coli O157:H7 Strain MC2 Isolated from Cattle in France ArchiMer
Auffret, Pauline; Segura, Audrey; Bertin, Yolande; Klopp, Christophe; Bouchez, Olivier; Kérourédan, Monique; Bibbal, Delphine; Brugère, Hubert; Forano, Evelyne.
Enterohemorrhagic Escherichia coli (EHEC) with serotype O157:H7 is a major foodborne pathogen. Here, we report the draft genome sequence of EHEC O157:H7 strain MC2 isolated from cattle in France. The assembly contains 5,400,376 bp that encoded 5,914 predicted genes (5,805 protein-encoding genes and 109 RNA genes).
Tipo: Text
Ano: 2017 URL: https://archimer.ifremer.fr/doc/00404/51538/52129.pdf
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Evolutionary Origins of Rhizarian Parasites ArchiMer
Sierra, Roberto; Canas-duarte, Silvia J.; Burki, Fabien; Schwelm, Arne; Fogelqvist, Johan; Dixelius, Christina; Gonzalez-garcia, Laura N.; Gile, Gillian H.; Slamovits, Claudio H.; Klopp, Christophe; Restrepo, Silvia; Arzul, Isabelle; Pawlowski, Jan.
The SAR group (Stramenopila, Alveolata, Rhizaria) is one of the largest clades in the tree of eukaryotes and includes a great number of parasitic lineages. Rhizarian parasites are obligate and have devastating effects on commercially important plants and animals but despite this fact, our knowledge of their biology and evolution is limited. Here, we present rhizarian transcriptomes from all major parasitic lineages in order to elucidate their evolutionary relationships using a phylogenomic approach. Our results suggest that Ascetosporea, parasites of marine invertebrates, are sister to the novel clade Apofilosa. The phytomyxean plant parasites branch sister to the vampyrellid algal ectoparasites in the novel clade Phytorhiza. They also show that...
Tipo: Text Palavras-chave: Rhizaria; Parasites; Phylogenomics.
Ano: 2016 URL: http://archimer.ifremer.fr/doc/00320/43156/44988.pdf
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Generation and analysis of a 29,745 unique Expressed Sequence Tags from the Pacific oyster (Crassostrea gigas) assembled into a publicly accessible database: the GigasDatabase ArchiMer
Fleury, Elodie; Huvet, Arnaud; Lelong, Christophe; De Lorgeril, Julien; Boulo, Viviane; Gueguen, Yannick; Bachere, Evelyne; Tanguy, Arnaud; Moraga, Dario; Fabioux, Caroline; Lindeque, Penelope; Shaw, Jenny; Reinhardt, Richard; Prunet, Patrick; Davey, Grace; Lapegue, Sylvie; Sauvage, Christopher; Corporeau, Charlotte; Moal, Jeanne; Gavory, Frederick; Wincker, Patrick; Moreews, Francois; Klopp, Christophe; Mathieu, Michel; Boudry, Pierre; Favrel, Pascal.
Background: Although bivalves are among the most-studied marine organisms because of their ecological role and economic importance, very little information is available on the genome sequences of oyster species. This report documents three large-scale cDNA sequencing projects for the Pacific oyster Crassostrea gigas initiated to provide a large number of expressed sequence tags that were subsequently compiled in a publicly accessible database. This resource allowed for the identification of a large number of transcripts and provides valuable information for ongoing investigations of tissue-specific and stimulus-dependant gene expression patterns. These data are crucial for constructing comprehensive DNA microarrays, identifying single nucleotide...
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Ano: 2009 URL: http://archimer.ifremer.fr/doc/2009/publication-6770.pdf
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GigaTON: an extensive publicly searchable database providing a new reference transcriptome in the pacific oyster Crassostrea gigas ArchiMer
Riviere, Guillaume; Klopp, Christophe; Ibouniyamine, Nabihoudine; Huvet, Arnaud; Boudry, Pierre; Favrel, Pascal.
Background: The Pacific oyster, Crassostrea gigas, is one of the most important aquaculture shellfish resources worldwide. Important efforts have been undertaken towards a better knowledge of its genome and transcriptome, which makes now C. gigas becoming a model organism among lophotrochozoans, the under-described sister clade of ecdysozoans within protostomes. These massive sequencing efforts offer the opportunity to assemble gene expression data and make such resource accessible and exploitable for the scientific community. Therefore, we undertook this assembly into an up-to-date publicly available transcriptome database: the GigaTON (Gigas TranscriptOme pipeliNe) database. Description: We assembled 2204 million sequences obtained from 114 publicly...
Tipo: Text Palavras-chave: Oyster; Transcriptome; Development; Stress; Tissues; NGS.
Ano: 2015 URL: https://archimer.ifremer.fr/doc/00302/41321/40520.pdf
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Gonad transcriptome analysis of pearl oyster Pinctada margaritifera: identification of potential sex differentiation and sex determining genes ArchiMer
Teaniniuraitemoana, Vaihiti; Huvet, Arnaud; Levy, Peva; Klopp, Christophe; Lhuillier, Emeline; Gaertner-mazouni, Nabila; Gueguen, Yannick; Le Moullac, Gilles.
Background Black pearl farming is based on culture of the blacklip pearl oyster Pinctada margaritifera (Mollusca, lophotrochozoa), a protandrous hermaphrodite species. At first maturation, all individuals are males. The female sex appears progressively from two years old, which represents a limitation for broodstock conditioning for aquaculture production. In marine mollusks displaying hermaphroditic features, data on sexual determinism and differentiation, including the molecular sex determining cascade, are scarce. To increase genomic resources and identify the molecular mechanisms whereby gene expression may act in the sexual dimorphism of P. margaritifera, we performed gonad transcriptome analysis. Results The gonad transcriptome of P. margaritifera...
Tipo: Text Palavras-chave: Pinctada margaritifera; Gametogenesis; Transcriptome; Differential expression; Sex determinism.
Ano: 2014 URL: http://archimer.ifremer.fr/doc/00201/31194/29593.pdf
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Transcriptomic analysis reveals specific metabolic pathways of enterohemorrhagic Escherichia coli O157:H7 in bovine digestive contents ArchiMer
Segura, Audrey; Bertoni, Marine; Auffret, Pauline; Klopp, Christophe; Bouchez, Olivier; Genthon, Clemence; Durand, Alexandra; Bertin, Yolande; Forano, Evelyne.
Background The cattle gastrointestinal tract (GIT) is the main enterohemorrhagic Escherichia coli (EHEC) reservoir. In order to identify nutrients required for the survival or multiplication of EHEC in the bovine GIT, we compared the transcriptomes of the EHEC O157:H7 reference strain EDL933 cultured in vitro in bovine digestive contents (DCs) (rumen, small intestine and rectum) using RNA-sequencing. Results Gene expression profiles showed that EHEC EDL933 activated common but also specific metabolic pathways to survive in the different bovine DCs. Mucus-derived carbohydrates seem important in EHEC nutrition in posterior DCs (small intestine and rectum) but not in rumen content. Additional carbohydrates (xylose, ribose, mannitol, galactitol) as well as...
Tipo: Text Palavras-chave: EHEC O157:H7; Bovine gastrointestinal tract; RNA-seq; Metabolism; Carbon sources; Mucus-derived carbohydrates; Ethanolamine; Respiration.
Ano: 2018 URL: https://archimer.ifremer.fr/doc/00464/57563/59734.pdf
Registros recuperados: 7
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