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Effect of linkage disequilibrium on inferences of population structure and introgression of iberian and black honey bees

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dc.contributor.authorChávez-Galarza, Julio
dc.contributor.authorHenriques, Dora
dc.contributor.authorKryger, Per
dc.contributor.authorDe la Rúa, Pilar
dc.contributor.authorJohnston, J. Spencer
dc.contributor.authorRufino, José
dc.contributor.authorPinto, M. Alice
dc.date.accessioned2013-10-28T10:55:17Z
dc.date.available2013-10-28T10:55:17Z
dc.date.issued2012
dc.description.abstractIdentification of population structure, a primary goal in population genetics, is easily performed because there is a number of methods available, implemented by user-friendly software packages. However, the user must be cautious when inferring population structure because spurious results may be obtained when there is strong linkage disequilibrium. With recent development of high-density SNPs we have now more power to interrogate the honey bee genome. However, the greater the number of loci genotyped the greater the chance of scoring loci that are linked. In addition, events such as population bottleneck, small effective population size, genetic drift, and admixture may also generate strong linkage disequilibrium. According to Kaeuffer et al. (2007), correlation rLD is the best way to deal with linkage disequilibrium. These authors recommend removing loci with rLD higher than 0.5 when inferring structure. In this study we used the GoldenGate Assay of Illumina to genotype over 1221 loci in individuals sampled from populations of A.m. iberiensis and A.m. mellifera. In this dataset we used the genetic distance between SNPs and rLD to test the effect of linkage in the number of clusters and the introgression level inferred by the clustering method implemented in the software STRUCTURE.por
dc.description.sponsorshipFundação para a Ciência e Tecnologiapor
dc.identifier.citationChavez-Galarza, Julio; Henriques, Dora; Kryger, Per; De la Rúa, Pilar; Johnston, John Spencer; Rufino, José; Pinto, M. Alice (2012). Effect of linkage disequilibrium on inferences of population structure and introgression of iberian and black honey bees. In 5th European Conference of Apidology: EURBEE 2012. Halle an der Saale, Germanypor
dc.identifier.urihttp://hdl.handle.net/10198/8936
dc.language.isoengpor
dc.peerreviewednopor
dc.relationPOPULATION GENOMICS AND LANDSCAPE GENETICS OF THE IBERIAN HONEY BEE APIS MELLIFERA IBERIENSIS
dc.subjectIberian honey beepor
dc.subjectApis mellifera ibéricapor
dc.subjectLinkage desiquilibriumpor
dc.subjectC-lineage introgressionpor
dc.titleEffect of linkage disequilibrium on inferences of population structure and introgression of iberian and black honey beespor
dc.typeconference object
dspace.entity.typePublication
oaire.awardTitlePOPULATION GENOMICS AND LANDSCAPE GENETICS OF THE IBERIAN HONEY BEE APIS MELLIFERA IBERIENSIS
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/5876-PPCDTI/PTDC%2FBIA-BEC%2F099640%2F2008/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT//SFRH%2FBD%2F68682%2F2010/PT
oaire.citation.conferencePlaceHalle an der Saale, Germanypor
oaire.citation.titleEURBEE 2012: 5th European Conference of Apidologypor
oaire.fundingStream5876-PPCDTI
person.familyNameHenriques
person.familyNameRufino
person.familyNamePinto
person.givenNameDora
person.givenNameJosé
person.givenNameMaria Alice
person.identifier.ciencia-id291F-986F-07DA
person.identifier.ciencia-idC414-F47F-6323
person.identifier.ciencia-idF814-A1D0-8318
person.identifier.orcid0000-0001-7530-682X
person.identifier.orcid0000-0002-1344-8264
person.identifier.orcid0000-0001-9663-8399
person.identifier.scopus-author-id55761737300
person.identifier.scopus-author-id55947199100
person.identifier.scopus-author-id8085507800
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.nameFundação para a Ciência e a Tecnologia
project.funder.nameFundação para a Ciência e a Tecnologia
rcaap.rightsopenAccesspor
rcaap.typeconferenceObjectpor
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