An updated Axiom buffalo genotyping array map and mapping of cattle quantitative trait loci to the new water buffalo reference genome assembly

Página do item simplificado
dc.contributor.authorNascimento, A. V. [UNESP]
dc.contributor.authorRomero, A. R. S. [UNESP]
dc.contributor.authorNawaz, M. Y.
dc.contributor.authorCardoso, D. F.
dc.contributor.authorSantos, D. J. A.
dc.contributor.authorGondro, C.
dc.contributor.authorTonhati, H. [UNESP]
dc.contributor.institutionUniversidade Estadual Paulista (Unesp)
dc.contributor.institutionMichigan State Univ
dc.contributor.institutionUniv Guelph
dc.contributor.institutionUniv Maryland
dc.date.accessioned2021-06-26T08:03:36Z
dc.date.available2021-06-26T08:03:36Z
dc.date.issued2021-06-09
dc.description.abstractThe objectives of this study were to provide the buffalo research community with an updated SNP map for the Axiom Buffalo Genotyping (ABG) array with genomic positions for SNP currently unmapped and to map all cattle QTL from the CattleQTLdb onto the buffalo reference assembly. To update the ABG array map, all SNP probe sequences from the ABG array were re-aligned against the UOA_WB_1 assembly. With the new map, the number of mapped markers increased by approximately 10% and went from 106 778 to 116 708, which reduced the average marker spacing by approximately 2 kb. A comparison of results between signatures of autozygosity study using the ABG and the new map showed that, when the additional markers were used there was an increase in the autozygosity peaks and additional peaks in BBU5 and BBU11 could be identified. After sequence alignment and quality control, 64 650 (UMD3.1) and 76 530 (ARS_UCD1.2) cattle QTL were mapped onto the buffalo genome. The mapping of the bovine QTL database onto the buffalo genome should be useful for genome-wide association studies in buffalo and, given the high homology between the two species, the positions of cattle QTL on the buffalo genome can serve as a stepping stone towards a water buffalo QTL database.en
dc.description.affiliationSao Paulo State Univ, Dept Anim Sci, BR-14884900 Jaboticabal, Brazil
dc.description.affiliationMichigan State Univ, Genet & Genome Sci Program, E Lansing, MI 48823 USA
dc.description.affiliationUniv Guelph, Dept Anim Biosci, Guelph, ON N1G 2W1, Canada
dc.description.affiliationUniv Maryland, Dept Anim Sci, College Pk, MD 20740 USA
dc.description.affiliationMichigan State Univ, Dept Anim Sci, E Lansing, MI 48823 USA
dc.description.affiliationUnespSao Paulo State Univ, Dept Anim Sci, BR-14884900 Jaboticabal, Brazil
dc.description.sponsorshipFundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)
dc.description.sponsorshipIdFAPESP: 2016/21213-0
dc.description.sponsorshipIdFAPESP: 2017/10542-6
dc.description.sponsorshipIdFAPESP: 2018/25725-1
dc.format.extent4
dc.identifierhttp://dx.doi.org/10.1111/age.13103
dc.identifier.citationAnimal Genetics. Hoboken: Wiley, 4 p., 2021.
dc.identifier.doi10.1111/age.13103
dc.identifier.issn0268-9146
dc.identifier.urihttp://hdl.handle.net/11449/210810
dc.identifier.wosWOS:000659162400001
dc.language.isoeng
dc.publisherWiley-Blackwell
dc.relation.ispartofAnimal Genetics
dc.sourceWeb of Science
dc.subjectBubalus bubalis
dc.subjectdairy buffalo
dc.subjectQTL map
dc.subjectruns of homozygosity
dc.subjectSNP map
dc.titleAn updated Axiom buffalo genotyping array map and mapping of cattle quantitative trait loci to the new water buffalo reference genome assemblyen
dc.typeArtigo
dcterms.licensehttp://olabout.wiley.com/WileyCDA/Section/id-406071.html
dcterms.rightsHolderWiley-Blackwell

Arquivos

Coleções

Artigos - Zootecnia - FCAV