Unraveling genomic associations with feed efficiency and body weight traits in chickens through an integrative approach

Autor(es)

Monteiro Moreira, Gabriel Costa ^[1] ; Poleti, Mirele Daiana ^[2] ; Pertille, Fabio ^[1] ; Boschiero, Clarissa ^[1] ; Mello Cesar, Aline Silva ^[1] ; Godoy, Thais Fernanda ^[1] ; Ledur, Monica Correa ^[3] ; Reecy, James M. ^[4] ; Garrick, Dorian J. ^[5] ; Coutinho, Luiz Lehmann ^[1]

Afiliação do(s) autor(es)

^[1] Univ Sao Paulo, Dept Anim Sci, BR-13418900 Piracicaba, SP - Brazil

^[2] Univ Sao Paulo, Coll Anim Sci & Food Engn FZEA, Pirassununga, SP - Brazil

^[3] Embrapa Suinos & Aves, Concordia, SC - Brazil

^[4] ISU, Dept Anim Sci, Ames, IA - USA

^[5] Massey Univ, Sch Agr, Hamilton - New Zealand

• Tipo de documento: Artigo Científico
• Fonte: BMC GENETICS; v. 20, n. 1 NOV 6 2019.
• Citações Web of Science: 0

Resumo

Background Feed efficiency and growth rate have been targets for selection to improve chicken production. The incorporation of genomic tools may help to accelerate selection. We genotyped 529 individuals using a high-density SNP chip (600 K, Affymetrix (R)) to estimate genomic heritability of performance traits and to identify genomic regions and their positional candidate genes associated with performance traits in a Brazilian F-2 Chicken Resource population. Regions exhibiting selection signatures and a SNP dataset from resequencing were integrated with the genomic regions identified using the chip to refine the list of positional candidate genes and identify potential causative mutations. Results Feed intake (FI), feed conversion ratio (FC), feed efficiency (FE) and weight gain (WG) exhibited low genomic heritability values (i.e. from 0.0002 to 0.13), while body weight at hatch (BW1), 35 days-of-age (BW35), and 41 days-of-age (BW41) exhibited high genomic heritability values (i.e. from 0.60 to 0.73) in this F-2 population. Twenty unique 1-Mb genomic windows were associated with BW1, BW35 or BW41, located on GGA1-4, 6-7, 10, 14, 24, 27 and 28. Thirty-eight positional candidate genes were identified within these windows, and three of them overlapped with selection signature regions. Thirteen predicted deleterious and three high impact sequence SNPs in these QTL regions were annotated in 11 positional candidate genes related to osteogenesis, skeletal muscle development, growth, energy metabolism and lipid metabolism, which may be associated with body weight in chickens. Conclusions The use of a high-density SNP array to identify QTL which were integrated with whole genome sequence signatures of selection allowed the identification of candidate genes and candidate causal variants. One novel QTL was detected providing additional information to understand the genetic architecture of body weight traits. We identified QTL for body weight traits, which were also associated with fatness in the same population. Our findings form a basis for further functional studies to elucidate the role of specific genes in regulating body weight and fat deposition in chickens, generating useful information for poultry breeding programs. (AU)

• Processo FAPESP: 14/21380-9 - Estudo de associação ampla do genoma para deposição de gordura e rendimento de carcaça em galinhas
• Beneficiário: Gabriel Costa Monteiro Moreira
• Linha de fomento: Bolsas no Brasil - Doutorado
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• Processo FAPESP: 16/00569-1 - Imputação e associação genômica ampla utilizando haplótipos para gordura abdominal em galinhas
• Beneficiário: Gabriel Costa Monteiro Moreira
• Linha de fomento: Bolsas no Exterior - Estágio de Pesquisa - Doutorado
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• Beneficiário: Luiz Lehmann Coutinho
• Linha de fomento: Auxílio à Pesquisa - Temático
• Processo FAPESP: 15/00616-7 - Identificação e caracterização de CNVs no genoma da galinha e associação com desenvolvimento de músculo de peito
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• Linha de fomento: Bolsas no Brasil - Doutorado