hal.structure.identifier | Biodiversité, Gènes & Communautés [BioGeCo] | |
dc.contributor.author | PLOMION, Christophe | |
hal.structure.identifier | Génomique métabolique [UMR 8030] | |
hal.structure.identifier | Laboratoire de Bioinformatique pour la Génomique et la Biodiversité [LBGB] | |
dc.contributor.author | AURY, Jean-Marc | |
hal.structure.identifier | Unité de Recherche Génomique Info [URGI] | |
dc.contributor.author | AMSELEM, Joëlle | |
hal.structure.identifier | Unité de Recherche Génomique Info [URGI] | |
dc.contributor.author | ALAEITABAR, Tina | |
hal.structure.identifier | Genoscope - Centre national de séquençage [Evry] [GENOSCOPE] | |
dc.contributor.author | BARBE, Valérie | |
hal.structure.identifier | Génomique métabolique [UMR 8030] | |
hal.structure.identifier | Laboratoire de Bioinformatique pour la Génomique et la Biodiversité [LBGB] | |
dc.contributor.author | BELSER, Caroline | |
hal.structure.identifier | Centre National de Ressources Génomiques Végétales [CNRGV] | |
dc.contributor.author | BERGÈS, Hélène | |
hal.structure.identifier | Biodiversité, Gènes & Communautés [BioGeCo] | |
dc.contributor.author | BODÉNÈS, Catherine | |
hal.structure.identifier | Unité de recherche en génomique végétale [URGV] | |
dc.contributor.author | BOUDET, Nathalie | |
hal.structure.identifier | Biodiversité, Gènes & Communautés [BioGeCo] | |
dc.contributor.author | BOURY, Christophe | |
hal.structure.identifier | Unité de recherche en génomique végétale [URGV] | |
dc.contributor.author | CANAGUIER, Aurélie | |
hal.structure.identifier | Génomique métabolique [UMR 8030] | |
hal.structure.identifier | Laboratoire de Bioinformatique pour la Génomique et la Biodiversité [LBGB] | |
dc.contributor.author | COULOUX, Arnaud | |
hal.structure.identifier | Génomique métabolique [UMR 8030] | |
hal.structure.identifier | Laboratoire de Bioinformatique pour la Génomique et la Biodiversité [LBGB] | |
dc.contributor.author | DA SILVA, Corinne | |
hal.structure.identifier | Interactions Arbres-Microorganismes [IAM] | |
dc.contributor.author | DUPLESSIS, Sébastien | |
hal.structure.identifier | Biodiversité, Gènes & Communautés [BioGeCo] | |
dc.contributor.author | EHRENMANN, François | |
hal.structure.identifier | Genoscope - Centre national de séquençage [Evry] [GENOSCOPE] | |
dc.contributor.author | ESTRADA-MAIREY, Barbara | |
hal.structure.identifier | Genoscope - Centre national de séquençage [Evry] [GENOSCOPE] | |
dc.contributor.author | FOUTEAU, Stéphanie | |
hal.structure.identifier | Unité de Recherche Génomique Info [URGI] | |
dc.contributor.author | FRANCILLONNE, Nicolas | |
hal.structure.identifier | Unité de Biométrie et Intelligence Artificielle (ancêtre de MIAT) [UBIA] | |
dc.contributor.author | GASPIN, Christine | |
hal.structure.identifier | Unité de recherche en génomique végétale [URGV] | |
dc.contributor.author | GUICHARD, Cécile | |
hal.structure.identifier | Unité de Biométrie et Intelligence Artificielle (ancêtre de MIAT) [UBIA] | |
dc.contributor.author | KLOPP, Christophe | |
hal.structure.identifier | Genoscope - Centre national de séquençage [Evry] [GENOSCOPE] | |
dc.contributor.author | LABADIE, Karine | |
hal.structure.identifier | Biodiversité, Gènes & Communautés [BioGeCo] | |
dc.contributor.author | LALANNE, Céline | |
hal.structure.identifier | Unité de recherche en génomique végétale [URGV] | |
dc.contributor.author | LE CLAINCHE, Isabelle | |
hal.structure.identifier | Unité de recherche Amélioration, Génétique et Physiologie Forestières [AGPF] | |
dc.contributor.author | LEPLÉ, Jean-Charles | |
hal.structure.identifier | Biodiversité, Gènes & Communautés [BioGeCo] | |
dc.contributor.author | LE PROVOST, Grégoire | |
hal.structure.identifier | Biodiversité, Gènes & Communautés [BioGeCo] | |
dc.contributor.author | LEROY, Thibault | |
hal.structure.identifier | Biodiversité, Gènes & Communautés [BioGeCo] | |
dc.contributor.author | LESUR, Isabelle | |
hal.structure.identifier | Interactions Arbres-Microorganismes [IAM] | |
dc.contributor.author | MARTIN, Francis | |
hal.structure.identifier | Génomique métabolique [UMR 8030] | |
hal.structure.identifier | Laboratoire de Bioinformatique pour la Génomique et la Biodiversité [LBGB] | |
dc.contributor.author | MERCIER, Jonathan | |
hal.structure.identifier | Unité de Recherche Génomique Info [URGI] | |
dc.contributor.author | MICHOTEY, Célia | |
hal.structure.identifier | Génétique Diversité et Ecophysiologie des Céréales [GDEC] | |
dc.contributor.author | MURAT, Florent | |
hal.structure.identifier | Biodiversité, Gènes & Communautés [BioGeCo] | |
dc.contributor.author | SALIN, Franck | |
hal.structure.identifier | Unité de Recherche Génomique Info [URGI] | |
dc.contributor.author | STEINBACH, Delphine | |
hal.structure.identifier | Unité de recherche en génomique végétale [URGV] | |
dc.contributor.author | FAIVRE-RAMPANT, Patricia | |
hal.structure.identifier | Génomique métabolique [UMR 8030] | |
dc.contributor.author | WINCKER, Patrick | |
hal.structure.identifier | Génétique Diversité et Ecophysiologie des Céréales [GDEC] | |
dc.contributor.author | SALSE, Jérôme | |
hal.structure.identifier | Unité de Recherche Génomique Info [URGI] | |
dc.contributor.author | QUESNEVILLE, Hadi | |
hal.structure.identifier | Biodiversité, Gènes & Communautés [BioGeCo] | |
dc.contributor.author | KREMER, Antoine | |
dc.date.issued | 2015-05 | |
dc.identifier.issn | 1755-098X | |
dc.description.abstractEn | The 1.5 Gbp/2C genome of pedunculate oak (Quercus robur) has been sequenced. A strategy was established for dealing with the challenges imposed by the sequencing of such a large, complex and highly heterozygous genome by a whole-genome shotgun (WGS) approach, without the use of costly and time-consuming methods, such as fosmid or BAC clone-based hierarchical sequencing methods. The sequencing strategy combined short and long reads. Over 49 million reads provided by Roche 454 GS-FLX technology were assembled into contigs and combined with shorter Illumina sequence reads from paired-end and mate-pair libraries of different insert sizes, to build scaffolds. Errors were corrected and gaps filled with Illumina paired-end reads and contaminants detected, resulting in a total of 17,910 scaffolds (>2 kb) corresponding to 1.34 Gb. Fifty per cent of the assembly was accounted for by 1468 scaffolds (N50 of 260 kb). Initial comparison with the phylogenetically related Prunus persica gene model indicated that genes for 84.6% of the proteins present in peach (mean protein coverage of 90.5%) were present in our assembly. The second and third steps in this project are genome annotation and the assignment of scaffolds to the oak genetic linkage map. In accordance with the Bermuda and Fort Lauderdale agreements and the more recent Toronto Statement, the oak genome data have been released into public sequence repositories in advance of publication. In this presubmission paper, the oak genome consortium describes its principal lines of work and future directions for analyses of the nature, function and evolution of the oak genome. | |
dc.description.sponsorship | Recherches Avancées sur l'Arbre et les Ecosytèmes Forestiers | |
dc.language.iso | en | |
dc.publisher | Wiley/Blackwell | |
dc.subject.en | Quercus robur | |
dc.subject.en | genome sequence | |
dc.subject.en | genomic resources | |
dc.title.en | Decoding the oak genome: public release of sequence data, assembly, annotation and publication strategies. | |
dc.type | Article de revue | |
dc.identifier.doi | 10.1111/1755-0998.12425 | |
dc.subject.hal | Sciences du Vivant [q-bio] | |
bordeaux.journal | Molecular Ecology Resources | |
bordeaux.page | 254-265 | |
bordeaux.volume | 16 | |
bordeaux.issue | 1 | |
bordeaux.peerReviewed | oui | |
hal.identifier | hal-01579667 | |
hal.version | 1 | |
hal.popular | non | |
hal.audience | Internationale | |
hal.origin.link | https://hal.archives-ouvertes.fr//hal-01579667v1 | |
bordeaux.COinS | ctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=Molecular%20Ecology%20Resources&rft.date=2015-05&rft.volume=16&rft.issue=1&rft.spage=254-265&rft.epage=254-265&rft.eissn=1755-098X&rft.issn=1755-098X&rft.au=PLOMION,%20Christophe&AURY,%20Jean-Marc&AMSELEM,%20Jo%C3%ABlle&ALAEITABAR,%20Tina&BARBE,%20Val%C3%A9rie&rft.genre=article | |