Show simple item record

dc.contributor.authorMalinsky, Milanen
dc.contributor.authorChallis, Richard Jen
dc.contributor.authorTyers, Alexandra Men
dc.contributor.authorSchiffels, Stephanen
dc.contributor.authorTerau, Yoheyen
dc.contributor.authorNgatunga, Benjamin Pen
dc.contributor.authorMiska, Ericen
dc.contributor.authorDurbin, Richarden
dc.contributor.authorGenner, Martin Jen
dc.contributor.authorTurner, George Fen
dc.date.accessioned2015-11-16T12:17:43Z
dc.date.available2015-11-16T12:17:43Z
dc.date.issued2015-06-18en
dc.identifier.issn0036-8075
dc.identifier.urihttps://www.repository.cam.ac.uk/handle/1810/252609
dc.description.abstractThe genomic causes and effects of divergent ecological selection during speciation are still poorly understood. Here, we report the discovery and detailed characterization of early-stage adaptive divergence of two cichlid fish ecomorphs in a small (700m diameter) isolated crater lake in Tanzania. The ecomorphs differ in depth preference, male breeding color, body shape, diet and trophic morphology. With whole genome sequences of 146 fish, we identify 98 clearly demarcated genomic ‘islands’ of high differentiation and demonstrate association of genotypes across these islands to divergent mate preferences. The islands contain candidate adaptive genes enriched for functions in sensory perception (including rhodopsin and other twilight vision associated genes), hormone signaling and morphogenesis. Our study suggests mechanisms and genomic regions that may play a role in the closely related mega-radiation of Lake Malawi.
dc.description.sponsorshipThe work was funded by Royal Society-Leverhulme Trust Africa Awards AA100023 and AA130107 (M.J.G., B.P.N. and G.F.T.), a Wellcome Trust PhD studentship grant 097677/Z/11/Z (M.M.), Wellcome Trust grant WT098051 (S.S. and R.D.), Wellcome Trust and Cancer Research UK core support and a Wellcome Trust Senior Investigator Award (E.A.M.), a Leverhulme Trust Research Fellowship RF-2014-686 (M.J.G.), a University of Bristol Research Committee award (M.G.), a Bangor University Anniversary PhD studentship (to A.M.T.) and a Fisheries Society of the British Isles award (G.F.T.). Raw sequencing reads are in the SRA nucleotide archive: RAD sequencing (BioProject: PRJNA286304; accessions SAMN03768857 to SAMN03768912) and whole genome sequencing (BioProject PRJEB1254: sample accessions listed in Table S16). The RAD based phylogeny and alignments have been deposited in TreeBase (TB2:S18241). Whole genome variant calls in the VCF format, phylogenetic trees, and primer sequences for Sequenom genotyping are available from the Dryad Digital Repository (http://dx.doi.org/10.5061/dryad.770mc). RD declares his interests as a founder and non-executive director of Congenica Ltd., that he owns stock in Illumina from previous consulting, and is a scientific advisory board member of Dovetail Inc. We thank R. Schley for generating pharyngeal jaw data; S. Mzighani, J. Kihedu and staff of the Tanzanian Fisheries Research Institute for logistical support; A. Smith, H. Sungani, A. Shechonge, P. Parsons, J. Swanstrom, G. Cooke and J. Bridle for contributions to sampling and aquarium maintenance, the Sanger Institute sequencing core for DNA sequencing and Dr. H. Imai (Kyoto University) for the use of spectrometer in his laboratory.
dc.languageEnglishen
dc.language.isoenen
dc.titleGenomic islands of speciation separate cichlid ecomorphs in an East African crater lakeen
dc.typeArticle
dc.description.versionThis is the author accepted manuscript. The final version is available from AAAS via http://dx.doi.org/10.1126/science.aac9927en
prism.endingPage1498
prism.publicationDate2015en
prism.publicationNameScienceen
prism.startingPage1493
prism.volume350en
dc.rioxxterms.funderWellcome Trust
dc.rioxxterms.funderCRUK
dc.rioxxterms.funderRoyal Society
dc.rioxxterms.projectidAA100023
dc.rioxxterms.projectidAA130107
dc.rioxxterms.projectid097677/Z/11/Z
dc.rioxxterms.projectidWT098051
rioxxterms.versionofrecord10.1126/science.aac9927en
rioxxterms.licenseref.urihttp://www.rioxx.net/licenses/all-rights-reserveden
rioxxterms.licenseref.startdate2015-06-18en
dc.contributor.orcidMiska, Eric [0000-0002-4450-576X]
dc.contributor.orcidDurbin, Richard [0000-0002-9130-1006]
dc.identifier.eissn1095-9203
rioxxterms.typeJournal Article/Reviewen
pubs.funder-project-idWellcome Trust (097677/Z/11/Z)
pubs.funder-project-idWellcome Trust (092096/Z/10/Z)
rioxxterms.freetoread.startdate2015-06-18


Files in this item

Thumbnail

This item appears in the following Collection(s)

Show simple item record