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dc.contributor.authorBraud, Martin
dc.contributor.authorMagee, David A.
dc.contributor.authorPark, Stephen D. E.
dc.contributor.authorSonstegard, Tad S.
dc.contributor.authorWaters, Sinead M.
dc.contributor.authorMacHugh, David E.
dc.contributor.authorSpillane, Charles
dc.date.accessioned2020-07-01T15:28:34Z
dc.date.available2020-07-01T15:28:34Z
dc.date.issued2017-01-31
dc.identifier.citationBraud M, Magee DA, Park SDE, Sonstegard TS, Waters SM, MacHugh DE and Spillane C (2017) Genome-Wide microRNA Binding Site Variation between Extinct Wild Aurochs and Modern Cattle Identifies Candidate microRNA-Regulated Domestication Genes. Frontiers in Genetics. 8:3. doi: http::/dx.doi.org/10.3389/fgene.2017.00003en_US
dc.identifier.urihttp://hdl.handle.net/11019/2111
dc.descriptionpeer-revieweden_US
dc.description.abstractThe domestication of cattle from the now-extinct wild aurochs (Bos primigenius) involved selection for physiological and behavioral traits, with underlying genetic factors that remain largely unknown. Non-coding microRNAs have emerged as key regulators of the spatio-temporal expression of target genes controlling mammalian growth and development, including in livestock species. During the domestication process, selection of mutational changes in miRNAs and/or miRNA binding sites could have provided a mechanism to generate some of the traits that differentiate domesticated cattle from wild aurochs. To investigate this, we analyzed the open reading frame DNA sequence of 19,994 orthologous protein-coding gene pairs from extant Bos taurus genomes and a single extinct B. primigenius genome. We identified miRNA binding site polymorphisms in the 3′ UTRs of 1,620 of these orthologous genes. These 1,620 genes with altered miRNA binding sites between the B. taurus and B. primigenius lineages represent candidate domestication genes. Using a novel Score Site ratio metric we have ranked these miRNA-regulated genes according to the extent of divergence between miRNA binding site presence, frequency and copy number between the orthologous genes from B. taurus and B. primigenius. This provides an unbiased approach to identify cattle genes that have undergone the most changes in miRNA binding (i.e., regulation) between the wild aurochs and modern-day cattle breeds. In addition, we demonstrate that these 1,620 candidate domestication genes are enriched for roles in pigmentation, fertility, neurobiology, metabolism, immunity and production traits (including milk quality and feed efficiency). Our findings suggest that directional selection of miRNA regulatory variants was important in the domestication and subsequent artificial selection that gave rise to modern taurine cattle.en_US
dc.language.isoenen_US
dc.publisherFrontiersen_US
dc.relation.ispartofseriesFrontiers in Genetics;Vol. 8
dc.rightsAttribution-NonCommercial-ShareAlike 3.0 United States*
dc.rights.urihttp://creativecommons.org/licenses/by-nc-sa/3.0/us/*
dc.subjectmicroRNAen_US
dc.subjectpolymorphismen_US
dc.subjectevolutionen_US
dc.subjectdomesticationen_US
dc.subjectagricultureen_US
dc.subjectBos primigeniusen_US
dc.subjectBos taurusen_US
dc.subjectancient DNAen_US
dc.titleGenome-Wide microRNA Binding Site Variation between Extinct Wild Aurochs and Modern Cattle Identifies Candidate microRNA-Regulated Domestication Genesen_US
dc.typeArticleen_US
dc.identifier.doihttps://dx.doi.org/10.3389/fgene.2017.00003
dc.contributor.sponsorTeagasc Walsh Fellowship Programmeen_US
dc.contributor.sponsorScience Foundation Irelanden_US
dc.contributor.sponsorDepartment of Agriculture, Food and the Marineen_US
dc.contributor.sponsorEuropean Unionen_US
dc.contributor.sponsorGrantNumber2010062en_US
dc.contributor.sponsorGrantNumberSFI/08/IN.1/B2038en_US
dc.contributor.sponsorGrantNumberSFI/13/IA/1820en_US
dc.contributor.sponsorGrantNumberRSF 06 406en_US
dc.contributor.sponsorGrantNumberKBBE-211602-MACROSYSen_US
refterms.dateFOA2020-07-01T15:28:35Z


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