Comparative physical maps derived from BAC end sequences of tilapia (Oreochromis niloticus)

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dc.contributor.authorSoler, Lucile
dc.contributor.authorConte, Matthew A.
dc.contributor.authorKatagiri, Takayuki
dc.contributor.authorHowe, Aimee E.
dc.contributor.authorLee, Bo-Young
dc.contributor.authorAmemiya, Chris
dc.contributor.authorStuart, Andrew
dc.contributor.authorDossat, Carole
dc.contributor.authorPoulain, Julie
dc.contributor.authorJohnson, Jeremy
dc.contributor.authorDi Palma, Federica
dc.contributor.authorLindblad-Toh, Kerstin
dc.contributor.authorBaroiller, Jean-Francois
dc.contributor.authorD'Cotta, Helena
dc.contributor.authorOzouf-Costaz, Catherine
dc.contributor.authorKocher, Thomas D.
dc.date.accessioned2013-01-10T21:14:48Z
dc.date.available2013-01-10T21:14:48Z
dc.date.issued2010-11-16
dc.description.abstractBackground: The Nile tilapia is the second most important fish in aquaculture. It is an excellent laboratory model, and is closely related to the African lake cichlids famous for their rapid rates of speciation. A suite of genomic resources has been developed for this species, including genetic maps and ESTs. Here we analyze BAC endsequences to develop comparative physical maps, and estimate the number of genome rearrangements, between tilapia and other model fish species. Results: We obtained sequence from one or both ends of 106,259 tilapia BACs. BLAST analysis against the genome assemblies of stickleback, medaka and pufferfish allowed identification of homologies for approximately 25,000 BACs for each species. We calculate that rearrangement breakpoints between tilapia and these species occur about every 3 Mb across the genome. Analysis of 35,000 clones previously assembled into contigs by restriction fingerprints allowed identification of longer-range syntenies. Conclusions: Our data suggest that chromosomal evolution in recent teleosts is dominated by alternate loss of gene duplicates, and by intra-chromosomal rearrangements (~one per million years). These physical maps are a useful resource for comparative positional cloning of traits in cichlid fishes. The paired BAC end sequences from these clones will be an important resource for scaffolding forthcoming shotgun sequence assemblies of the tilapia genome.en_US
dc.description.urihttps://doi.org/10.1186/1471-2164-11-636
dc.identifier.citationSoler, L., Conte, M.A., Katagiri, T. et al. Comparative physical maps derived from BAC end sequences of tilapia (Oreochromis niloticus). BMC Genomics 11, 636 (2010).en_US
dc.identifier.urihttp://hdl.handle.net/1903/13364
dc.language.isoen_USen_US
dc.relation.isAvailableAtCollege of Computer, Mathematical & Physical Sciencesen_us
dc.relation.isAvailableAtDigital Repository at the University of Marylanden_us
dc.relation.isAvailableAtBiologyen_us
dc.relation.isAvailableAtUniversity of Maryland (College Park, MD)en_us
dc.subjectNile tilapiaen_US
dc.subjectgenetic mapsen_US
dc.titleComparative physical maps derived from BAC end sequences of tilapia (Oreochromis niloticus)en_US
dc.typeArticleen_US

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