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High-resolution genetic maps of Eucalyptus improve Eucalyptus grandis genome assembly

hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
hal.structure.identifierAmélioration génétique et adaptation des plantes méditerranéennes et tropicales [UMR AGAP]
dc.contributor.authorBARTHOLOMÉ, Jérôme
hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
dc.contributor.authorMANDROU, Eric
hal.structure.identifierCentre de Recherche sur la Durabilité et la Productivité des Plantations Industrielles [CRDPI]
dc.contributor.authorMABIALA, André
hal.structure.identifierHudson Alpha Institute for Biotechnology
dc.contributor.authorJENKINS, Jerry
hal.structure.identifierUnité de Mathématiques et Informatique Appliquées de Toulouse [MIAT INRA]
dc.contributor.authorNABIHOUDINE, Ibouniyamine
hal.structure.identifierUnité de Mathématiques et Informatique Appliquées de Toulouse [MIAT INRA]
dc.contributor.authorKLOPP, Christophe
hal.structure.identifierHudson Alpha Institute for Biotechnology
hal.structure.identifierUnited States Department of Energy
dc.contributor.authorSCHMUTZ, Jeremy
hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
dc.contributor.authorPLOMION, Christophe
hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
dc.contributor.authorGION, Jean-Marc
dc.date.issued2015
dc.identifier.issn0028-646X
dc.description.abstractEnGenetic maps are key tools in genetic research as they constitute the framework for many applications, such as quantitative trait locus analysis, and support the assembly of genome sequences. The resequencing of the two parents of a cross between Eucalyptus urophylla and Eucalyptus grandis was used to design a single nucleotide polymorphism (SNP) array of 6000 markers evenly distributed along the E. grandis genome. The genotyping of 1025 offspring enabled the construction of two high-resolution genetic maps containing 1832 and 1773 markers with an average marker interval of 0.45 and 0.5 cM for E. grandis and E. urophylla, respectively. The comparison between genetic maps and the reference genome highlighted 85% of collinear regions. A total of 43 noncollinear regions and 13 nonsynthetic regions were detected and corrected in the new genome assembly. This improved version contains 4943 scaffolds totalling 691.3 Mb of which 88.6% were captured by the 11 chromosomes. The mapping data were also used to investigate the effect of population size and number of markers on linkage mapping accuracy. This study provides the most reliable linkage maps for Eucalyptus and version 2.0 of the E. grandis genome.
dc.language.isoen
dc.publisherWiley
dc.subject.enEucalyptus
dc.subject.engenetic mapping
dc.subject.engenome assembly
dc.subject.ensegregation distortion
dc.subject.ensingle nucleotide polymorphism (SNP) array
dc.title.enHigh-resolution genetic maps of Eucalyptus improve Eucalyptus grandis genome assembly
dc.typeArticle de revue
dc.identifier.doi10.1111/nph.13150
dc.subject.halSciences du Vivant [q-bio]
dc.subject.halMathématiques [math]
dc.subject.halInformatique [cs]
bordeaux.journalNew Phytologist
bordeaux.page1283-1296
bordeaux.volume206
bordeaux.issue4
bordeaux.peerReviewedoui
hal.identifierhal-02637865
hal.version1
hal.popularnon
hal.audienceInternationale
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-02637865v1
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