Please use this identifier to cite or link to this item: https://hdl.handle.net/1959.11/19670
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dc.contributor.authorKarimi, Karimen
dc.contributor.authorEsmailizadeh Koshkoiyeh, Alien
dc.contributor.authorGondro, Cedricen
dc.date.accessioned2016-12-02T12:52:00Z-
dc.date.issued2015-
dc.identifier.citationJournal of Animal Science and Technology, v.57, p. 1-10en
dc.identifier.issn2055-0391en
dc.identifier.issn1598-9429en
dc.identifier.urihttps://hdl.handle.net/1959.11/19670-
dc.description.abstractBackground: Knowledge of linkage disequilibrium (LD) levels among different populations can be used to detect genetic diversity and to investigate the historical changes in population sizes. Availability of large numbers of SNP through new sequencing technologies has provided opportunities for extensive researches in quantifying LD patterns in cattle breeds. The aim of this study was to compare the extent of linkage disequilibrium among Iranian cattle breeds using high density SNP genotyping data. Results: A total of 70 samples, representing seven Iranian indigenous cattle breeds, were genotyped for 777962 SNPs. The average values of LD based on the r2 criterion were computed by grouping all syntenic SNP pairwises for intermarker distances from 0 Kb up to 1 Mb using three distance sets. Average r2 above 0.3 was observed at distances less than 30 Kb for Sistani and Kermani, 20 Kb for Najdi, Taleshi, Kurdi and Sarabi, and 10 Kb for Mazandarani. The LD levels were considerably different among the Iranian cattle breeds and the difference in LD extent was more detectable between the studied breeds at longer distances. Lower level of LD was observed for Mazandarani breed as compared to other breeds indicating larger ancestral population size in this breed. Kermani breed continued to have more slowly LD decay than all of the other breeds after 3 Kb distances. More slowly LD decay was observed in Kurdi and Sarabi breeds at larger distances (>100 Kb) showing that population decline has been more intense in more recent generations for these populations. Conclusions: A wide genetic diversity and different historical background were well reflected in the LD levels among Iranian cattle breeds. More LD fluctuation was observed in the shorter distances (less than 10 Kb) in different cattle populations. Despite of the sample size effects, High LD levels found in this study were in accordance with the presence of inbreeding and population decline in Iranian cattle breeds.en
dc.languageenen
dc.publisherBioMed Central Ltden
dc.relation.ispartofJournal of Animal Science and Technologyen
dc.titleComparison of linkage disequilibrium levels in Iranian indigenous cattle using whole genome SNPs dataen
dc.typeJournal Articleen
dc.identifier.doi10.1186/s40781-015-0080-2en
dcterms.accessRightsGolden
dc.subject.keywordsAnimal Breedingen
local.contributor.firstnameKarimen
local.contributor.firstnameAlien
local.contributor.firstnameCedricen
local.subject.for2008070201 Animal Breedingen
local.subject.seo2008830302 Dairy Cattleen
local.subject.seo2008830301 Beef Cattleen
local.profile.schoolSchool of Environmental and Rural Scienceen
local.profile.emailcgondro2@une.edu.auen
local.output.categoryC1en
local.record.placeauen
local.record.institutionUniversity of New Englanden
local.identifier.epublicationsrecordune-chute-20161122-112348en
local.publisher.placeUnited Kingdomen
local.identifier.runningnumber47en
local.format.startpage1en
local.format.endpage10en
local.peerreviewedYesen
local.identifier.volume57en
local.access.fulltextYesen
local.contributor.lastnameKarimien
local.contributor.lastnameEsmailizadeh Koshkoiyehen
local.contributor.lastnameGondroen
dc.identifier.staffune-id:cgondro2en
local.profile.orcid0000-0003-0666-656Xen
local.profile.roleauthoren
local.profile.roleauthoren
local.profile.roleauthoren
local.identifier.unepublicationidune:19860en
dc.identifier.academiclevelAcademicen
local.title.maintitleComparison of linkage disequilibrium levels in Iranian indigenous cattle using whole genome SNPs dataen
local.output.categorydescriptionC1 Refereed Article in a Scholarly Journalen
local.search.authorKarimi, Karimen
local.search.authorEsmailizadeh Koshkoiyeh, Alien
local.search.authorGondro, Cedricen
local.uneassociationUnknownen
local.year.published2015en
local.subject.for2020300305 Animal reproduction and breedingen
local.subject.seo2020100402 Dairy cattleen
local.subject.seo2020100401 Beef cattleen
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