Uncovering Sub-Structure and Genomic Profiles in Across-Countries Subpopulations of Angus Cattle

Author(s):Show less -

Cardoso, Diercles Francisco ^{[1, 2]} ; Fernandes Junior, Gerardo Alves ^{[1, 2]} ; Becker Scalez, Daiane Cristina ^[2] ; Carvalho Alves, Anderson Antonio ^[2] ; Braga Magalhaes, Ana Fabricia ^[2] ; Bresolin, Tiago ^[2] ; Ventura, Ricardo Vieira ^[3] ; Li, Changxi ^{[4, 5]} ; de Sena Oliveira, Marcia Cristina ^[6] ; Porto-Neto, Laercio Ribeiro ^[7] ; Carvalheiro, Roberto ^{[2, 8]} ; de Oliveira, Henrique Nunes ^{[2, 8]} ; Tonhati, Humberto ^{[2, 8]} ; Albuquerque, Lucia Galvao ^{[2, 8]}

Affiliation

^[1] Univ Guelph, Ctr Genet Improvement Livestock, Dept Anim Biosci, Guelph, ON - Canada

^[2] Sao Paulo State Univ Unesp, Sch Agr & Veterinarian Sci, Dept Anim Sci, Jaboticabal, SP - Brazil

^[3] Univ Sao Paulo, Sch Vet Med & Anim Sci FMVZ, Dept Anim Nutr & Prod, Pirassununga, SP - Brazil

^[4] Univ Alberta, Fac Agr Life & Environm Sci, Dept Agr Food & Nutr Sci, Edmonton, AB - Canada

^[5] Agr & Agri Food Canada, Lacombe Res & Dev Ctr, Lacombe, AB - Canada

^[6] Embrapa Pecuaria Sudeste, Sao Carlos, SP - Brazil

^[7] CSIRO Agr & Food, 306 Carmody Rd, Brisbane, Qld - Australia

^[8] Natl Council Sci & Technol Dev, Brasilia, DF - Brazil

• Document type: Journal article
• Source: SCIENTIFIC REPORTS; v. 10, n. 1 MAY 29 2020.
• Web of Science Citations: 2

Abstract

Highlighting genomic profiles for geographically distinct subpopulations of the same breed may provide insights into adaptation mechanisms to different environments, reveal genomic regions divergently selected, and offer initial guidance to joint genomic analysis. Here, we characterized similarities and differences between the genomic patterns of Angus subpopulations, born and raised in Canada (N=382) and Brazil (N=566). Furthermore, we systematically scanned for selection signatures based on the detection of autozygosity islands common between the two subpopulations, and signals of divergent selection, via F-ST and varLD tests. The principal component analysis revealed a sub-structure with a close connection between the two subpopulations. The averages of genomic relationships, inbreeding coefficients, and linkage disequilibrium at varying genomic distances were rather similar across them, suggesting non-accentuated differences in overall genomic diversity. Autozygosity islands revealed selection signatures common to both subpopulations at chromosomes 13 (63.77-65.25Mb) and 14 (22.81-23.57Mb), which are notably known regions affecting growth traits. Nevertheless, further autozygosity islands along with F-ST and varLD tests unravel particular sites with accentuated population subdivision at BTAs 7 and 18 overlapping with known QTL and candidate genes of reproductive performance, thermoregulation, and resistance to infectious diseases. Our findings indicate overall genomic similarity between Angus subpopulations, with noticeable signals of divergent selection in genomic regions associated with the adaptation in different environments. (AU)

• FAPESP's process: 16/22490-8 - Mapping signatures of selection in the genome of main domestic species of the Bovini tribe used as food sources in the livestock, cattle (Bos taurus) and water buffaloes (Bubalus bubalis)
• Grantee: Diercles Francisco Cardoso
• Support Opportunities: Scholarships in Brazil - Post-Doctoral