dc.contributor.authorWang, Le
dc.contributor.authorBai, Bin
dc.contributor.authorLiu, Peng
dc.contributor.authorHuang, Shu Qing
dc.contributor.authorWan, Zi Yi
dc.contributor.authorChua, Elaine
dc.contributor.authorYe, Baoqing
dc.contributor.authorYue, Gen Hua
dc.date.accessioned2017-01-26T04:48:35Z
dc.date.available2017-01-26T04:48:35Z
dc.date.issued2017
dc.identifier.citationWang, L., Bai, B., Liu, P., Huang, S. Q., Wan, Z. Y., Chua, E., et al. (2017). Construction of high-resolution recombination maps in Asian seabass. BMC Genomics, 18, 63-.en_US
dc.identifier.issn1471-2164en_US
dc.identifier.urihttp://hdl.handle.net/10220/42062
dc.description.abstractBackground: A high-density genetic map is essential for de novo genome assembly, fine mapping QTL for important complex traits, comparative genomic studies and understanding the mechanisms of genome evolution. Although a number of genomic resources are available in Asian seabass (Lates calcarifer), a high-density linkage map is still lacking. To facilitate QTL mapping for marker-assisted selection and genome assembly, and to understand the genome-wide recombination rates, we constructed high density linkage maps using three families and genotyping by sequencing. Results: A high-density consensus linkage map consisting of 8, 274 markers was constructed based on sex-averaged genetic maps. The genetic maps were then aligned and integrated with the current genome assembly of Asian seabass. More than 90% of the genome contig sequences were anchored onto the consensus genetic map. Evidence of assembly errors in the current genome assembly was identified. A fragment of up to 2.5 Mb belonging to LG14 was assembled into Chr15. The length of family-specific sex-averaged maps ranged from 1348.96 to 1624.65 cM. Female maps were slightly longer than male maps using common markers. Female-to-male ratios were highly variable both across chromosomes within each family and throughout three families for each chromosome. However, the distribution patterns of recombination along chromosomes were similar between sexes across the whole genome. The overall recombination rates were significantly correlated with genome-wide GC content and the correlations were revealed to be stronger in females than in males. Conclusions: These high-density genetic maps provide not only essential tools for facilitating de novo genome assembly and comparative genomic studies in teleosts, but also critical resources for fine mapping QTL and genome-wide association mapping for economically important traits in Asian seabass.en_US
dc.description.sponsorshipNRF (Natl Research Foundation, S’pore)en_US
dc.format.extent14 p.en_US
dc.language.isoenen_US
dc.relation.ispartofseriesBMC Genomicsen_US
dc.rights© 2017 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. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.en_US
dc.subjectLinkage mapen_US
dc.subjectGenome assemblyen_US
dc.titleConstruction of high-resolution recombination maps in Asian seabassen_US
dc.typeJournal Article
dc.contributor.schoolSchool of Biological Sciencesen_US
dc.identifier.doihttp://dx.doi.org/10.1186/s12864-016-3462-z
dc.description.versionPublished versionen_US


Files in this item

Thumbnail

This item appears in the following Collection(s)

Show simple item record