Genome sequence of the olive tree, Olea europaea

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• dc.contributor.author Cruz, Fernandoca
• dc.contributor.author Julca, Ireneca
• dc.contributor.author Gómez Garrido, Jèssicaca
• dc.contributor.author Loska, Damianca
• dc.contributor.author Marcet Houben, Marinaca
• dc.contributor.author Cano, Emilioca
• dc.contributor.author Galán Sicilia, Beatrizca
• dc.contributor.author Frias, Leonorca
• dc.contributor.author Ribeca, Paoloca
• dc.contributor.author Derdak, Sophiaca
• dc.contributor.author Gut, Martaca
• dc.contributor.author Sánchez Fernández, Manuelca
• dc.contributor.author García, Jose Luisca
• dc.contributor.author Gut, Ivo Glynneca
• dc.contributor.author Vargas Gómez, Pabloca
• dc.contributor.author Alioto, Tylerca
• dc.contributor.author Gabaldón Estevan, Juan Antonio, 1973-ca
• dc.date.accessioned 2016-11-25T12:30:19Z
• dc.date.available 2016-11-25T12:30:19Z
• dc.date.issued 2016ca
• dc.description.abstract Background: The Mediterranean olive tree (Olea europaea subsp. europaea) was one of the first trees to be domesticated and is currently of major agricultural importance in the Mediterranean region as the source of olive oil. The molecular bases underlying the phenotypic differences among domesticated cultivars, or between domesticated olive trees and their wild relatives, remain poorly understood. Both wild and cultivated olive trees have 46 chromosomes (2n). Findings: A total of 543 Gb of raw DNA sequence from whole genome shotgun sequencing, and a fosmid library containing 155,000 clones from a 1,000+ year-old olive tree (cv. Farga) were generated by Illumina sequencing using different combinations of mate-pair and pair-end libraries. Assembly gave a final genome with a scaffold N50 of 443 kb, and a total length of 1.31 Gb, which represents 95 % of the estimated genome length (1.38 Gb). In addition, the associated fungus Aureobasidium pullulans was partially sequenced. Genome annotation, assisted by RNA sequencing from leaf, root, and fruit tissues at various stages, resulted in 56,349 unique protein coding genes, suggesting recent genomic expansion. Genome completeness, as estimated using the CEGMA pipeline, reached 98.79 %. Conclusions: The assembled draft genome of O. europaea will provide a valuable resource for the study of the evolution and domestication processes of this important tree, and allow determination of the genetic bases of key phenotypic traits. Moreover, it will enhance breeding programs and the formation of new varieties.
• dc.format.mimetype application/pdfca
• dc.identifier.citation Cruz F, Julca I, Gómez-Garrido J, Loska D, Marcet-Houben M, Cano E et al. Genome sequence of the olive tree, Olea europaea. GigaScience. 2016;5:29. DOI: 10.1186/s13742-016-0134-5ca
• dc.identifier.doi http://dx.doi.org/10.1186/s13742-016-0134-5
• dc.identifier.issn 2047-217Xca
• dc.identifier.uri http://hdl.handle.net/10230/27611
• dc.language.iso engca
• dc.publisher BioMed Centralca
• dc.relation.ispartof GigaScience. 2016;5:29
• dc.rights © 2016 The Author(s). Open Access.This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made.ca
• dc.rights.accessRights info:eu-repo/semantics/openAccessca
• dc.rights.uri http://creativecommons.org/licenses/by/4.0/
• dc.subject.keyword Genomics
• dc.subject.keyword Assembly
• dc.subject.keyword Annotation
• dc.title Genome sequence of the olive tree, Olea europaeaca
• dc.type info:eu-repo/semantics/articleca
• dc.type.version info:eu-repo/semantics/publishedVersionca