TY - JOUR
T1 - Identification of candidate genes and SNPs related to cattle temperament using a GWAS analysis coupled with an interacting network analysis
AU - Paredes-Sánchez, Francisco Alejandro
AU - Sifuentes-Rincón, Ana María
AU - Lara-Ramírez, Edgar Eduardo
AU - Casas, Eduardo
AU - Rodríguez-Almeida, Felipe Alonso
AU - Herrera-Mayorga, Elsa Verónica
AU - Randel, Ronald D.
N1 - Publisher Copyright:
© 2023 INIFAP-CENID Parasitologia Veterinaria. All rights reserved.
PY - 2023/1
Y1 - 2023/1
N2 - The objective of this study was to identify in Angus and Brangus breed animals with extreme temperament, measured as exit velocity, genomic regions and candidate genes associated with bovine temperament. The population was genotyped with the Genomic Profiler HD 150K chip and after the genome-wide association analysis, the SNPs rs133956611 (P=2.65 E-06) and rs81144933 (P=9.58 E-06) were associated with temperament. The mapping analysis of the regions close to the SNP rs81144933 identified the SNCA (alpha-synuclein) and MMRN1 (multimerin-1) genes at 222.8 and 435.9 Kb downstream respectively, while for the rs133956611 loci the gene GPRIN3 (GPRIN family-member-3) was identified at 245.7 Kb upstream, all three genes are located on the BTA6 chromosome. The analysis of SNCA protein-protein interactions allowed the identification of the genes APP (β-amyloid precursor protein), PARK7 (parkinsonism-associated-deglycase), UCHL1 (ubiquitin-C-terminal-hydrolase-L1), PARK2 (parkin-RBRE3-ubiquitin-protein-ligase), and genes of the SLC family as candidates to be associated with bovine temperament. All these candidate genes and their interacting were resequenced, which allowed the discovery of new SNPs in the SNCA and APP genes. Of these, the SNPs located in introns 5, 8 and 11 of the APP gene affect splicing site motifs. These results indicate that SNCA and its interacting genes are candidates to be related to bovine temperament.
AB - The objective of this study was to identify in Angus and Brangus breed animals with extreme temperament, measured as exit velocity, genomic regions and candidate genes associated with bovine temperament. The population was genotyped with the Genomic Profiler HD 150K chip and after the genome-wide association analysis, the SNPs rs133956611 (P=2.65 E-06) and rs81144933 (P=9.58 E-06) were associated with temperament. The mapping analysis of the regions close to the SNP rs81144933 identified the SNCA (alpha-synuclein) and MMRN1 (multimerin-1) genes at 222.8 and 435.9 Kb downstream respectively, while for the rs133956611 loci the gene GPRIN3 (GPRIN family-member-3) was identified at 245.7 Kb upstream, all three genes are located on the BTA6 chromosome. The analysis of SNCA protein-protein interactions allowed the identification of the genes APP (β-amyloid precursor protein), PARK7 (parkinsonism-associated-deglycase), UCHL1 (ubiquitin-C-terminal-hydrolase-L1), PARK2 (parkin-RBRE3-ubiquitin-protein-ligase), and genes of the SLC family as candidates to be associated with bovine temperament. All these candidate genes and their interacting were resequenced, which allowed the discovery of new SNPs in the SNCA and APP genes. Of these, the SNPs located in introns 5, 8 and 11 of the APP gene affect splicing site motifs. These results indicate that SNCA and its interacting genes are candidates to be related to bovine temperament.
KW - BTA6
KW - Beef cattle
KW - Behaviour
KW - Candidate genes
KW - Temperament
UR - http://www.scopus.com/inward/record.url?scp=85146303951&partnerID=8YFLogxK
U2 - 10.22319/rmcp.v14i1.6077
DO - 10.22319/rmcp.v14i1.6077
M3 - Artículo
AN - SCOPUS:85146303951
SN - 2007-1124
VL - 14
SP - 1
EP - 22
JO - Revista Mexicana De Ciencias Pecuarias
JF - Revista Mexicana De Ciencias Pecuarias
IS - 1
ER -