Chromosomal-level assembly of the Asian seabass genome using long sequence reads and multi-layered scaffolding

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dc.contributor.authorVij, Shubha
dc.contributor.authorVan Heusden, Peter
dc.contributor.authorChristoffels, Alan
dc.contributor.authorMbandi, Stanley K.
dc.contributor.authorMwangi, Sarah
dc.date.accessioned2016-04-24T17:53:24Z
dc.date.available2016-04-24T17:53:24Z
dc.date.issued2016
dc.description.abstractWe report here the ~670 Mb genome assembly of the Asian seabass (Lates calcarifer), a tropical marine teleost. We used long-read sequencing augmented by transcriptomics, optical and genetic mapping along with shared synteny from closely related fish species to derive a chromosome-level assembly with a contig N50 size over 1 Mb and scaffold N50 size over 25 Mb that span ~90% of the genome. The population structure of L. calcarifer species complex was analyzed by re-sequencing 61 individuals representing various regions across the species’ native range. SNP analyses identified high levels of genetic diversity and confirmed earlier indications of a population stratification comprising three clades with signs of admixture apparent in the South-East Asian population. The quality of the Asian seabass genome assembly far exceeds that of any other fish species, and will serve as a new standard for fish genomics.en_US
dc.description.accreditationWeb of Scienceen_US
dc.identifier.citationVij, S. et al. (2016). Chromosomal-level assembly of the Asian seabass genome using long sequence reads and multi-layered scaffolding. PLoS Genetics, 12(4): e1005954en_US
dc.identifier.issn1553-7404
dc.identifier.urihttp://hdl.handle.net/10566/2133
dc.language.isoenen_US
dc.privacy.showsubmitterFALSE
dc.publisherPublic Library of Scienceen_US
dc.rightsThis is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 public domain dedication.
dc.source.urihttp://dx.doi.org/10.1371/journal.pgen.1005954
dc.status.ispeerreviewedTRUE
dc.subjectAsian seabassen_US
dc.subjectLates calcariferen_US
dc.subjectChromosomesen_US
dc.subjectFish speciesen_US
dc.subjectDNA sequencingen_US
dc.subjectGenome sequencingen_US
dc.subjectNorth-Western Indiaen_US
dc.subjectSouth-East Asiaen_US
dc.subjectAustraliaen_US
dc.subjectPapua New Guineaen_US
dc.titleChromosomal-level assembly of the Asian seabass genome using long sequence reads and multi-layered scaffoldingen_US
dc.typeArticleen_US

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