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

Autor(es)

Nascimento, A. V. ^[1] ; Romero, A. R. S. ^[1] ; Nawaz, M. Y. ^[2] ; Cardoso, D. F. ^[3] ; Santos, D. J. A. ^[4] ; Gondro, C. ^[5] ; Tonhati, H. ^[1]

Afiliação do(s) autor(es)

^[1] Sao Paulo State Univ, Dept Anim Sci, BR-14884900 Jaboticabal - Brazil

^[2] Michigan State Univ, Genet & Genome Sci Program, E Lansing, MI 48823 - USA

^[3] Univ Guelph, Dept Anim Biosci, Guelph, ON N1G 2W1 - Canada

^[4] Univ Maryland, Dept Anim Sci, College Pk, MD 20740 - USA

^[5] Michigan State Univ, Dept Anim Sci, E Lansing, MI 48823 - USA

• Tipo de documento: Artigo Científico
• Fonte: ANIMAL GENETICS; v. 52, n. 4, p. 505-508, AUG 2021.
• Citações Web of Science: 0

Resumo

The 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. (AU)

• Processo FAPESP: 18/25725-1 - Efeitos da depressão endogâmica sobre características de produção de leite em búfalas Murrah
• Beneficiário: André Vieira do Nascimento
• Modalidade de apoio: Bolsas no Exterior - Estágio de Pesquisa - Doutorado
• Processo FAPESP: 17/10542-6 - Detecção de assinaturas de seleção em búfalos leiteiros (Bubalus bubalis)
• Beneficiário: André Vieira do Nascimento
• Modalidade de apoio: Bolsas no Brasil - Doutorado
• Processo FAPESP: 16/21213-0 - Estudos de associação e predição genômica em bubalinos leiteiros (Bubalus bubalis)
• Beneficiário: Humberto Tonhati
• Modalidade de apoio: Auxílio à Pesquisa - Regular