IMPUTATION AND GENOME-WIDE ASSOCIATION ANALYSIS USING HAPLOTYPES FOR ABDOMINAL FAT IN CHICKENS.

• Grant number: 16/00569-1
• Support Opportunities: Scholarships abroad - Research Internship - Doctorate
• Start date: March 21, 2016
• End date: March 20, 2017
• Field of knowledge: Agronomical Sciences - Animal Husbandry - Genetics and Improvement of Domestic Animals
• Principal Investigator: Luiz Lehmann Coutinho
• Grantee: Gabriel Costa Monteiro Moreira
• Supervisor: James Reecy
• Host Institution: Escola Superior de Agricultura Luiz de Queiroz (ESALQ). Universidade de São Paulo (USP). Piracicaba , SP, Brazil
• Institution abroad: Iowa State University, United States
• Associated to the scholarship: 14/21380-9 - Genome wide association studies for fat deposition and carcass yield in chickens, BP.DR

Abstract

Animals selected for rapid growth and increased muscle deposition also have higher carcass fat deposition. Excess of fat deposited in the carcass is a negative factor for production considering the processing cost and the depreciation in the value of the product. The fat deposition is a trait controlled by several genes involved in lipid metabolism. The identification of genetic components responsible for a part of the observed variation is fundamental for breeding programs thus allowing the selection of animals showing traits of economic interest. The objective of this study is to identify genomic regions, putative candidate genes and possible causative mutations controlling abdominal fat deposition in Brazilian chicken populations. For this purpose, the imputation of SNPs identified in parental lines from F2-TC and TT populations in genotyped chickens will be performed as well, GWAS analysis using haplotype information. The parental lines re-sequencing was performed previously (28 parental chickens from F2-TC population and 14 parental chickens from TT population) and these animals will be used as reference population to perform genotype imputation. Those analyses can improve the power to detect QTL as well as the chances to identify functional mutations. In addition, this proposed study will help us to understand the process of fat deposition in chickens and the molecular mechanisms involved.

Scientific publications

(7)

(References retrieved automatically from Web of Science and SciELO through information on FAPESP grants and their corresponding numbers as mentioned in the publications by the authors)

MOREIRA, GABRIEL COSTA MONTEIRO; BOSCHIERO, CLARISSA; MELLO CESAR, ALINE SILVA; REECY, JAMES M.; GODOY, THAIS FERNANDA; PERTILLE, FABIO; LEDUR, MONICA CORREA; MEIRA TAVARES MOURA, ANA SILVIA ALVES; GARRICK, DORIAN J.; COUTINHO, LUIZ LEHMANN. Integration of genome wide association studies and whole genome sequencing provides novel insights into fat deposition in chicken. SCIENTIFIC REPORTS, v. 8, NOV 1 2018. (15/00616-7, 14/08704-0, 14/21380-9, 16/20440-3, 16/00569-1)

COSTA ALMEIDA, OCTAVIO AUGUSTO; MONTEIRO MOREIRA, GABRIEL COSTA; REZENDE, FERNANDA MARCONDES; BOSCHIERO, CLARISSA; PEIXOTO, JANE DE OLIVEIRA; GUARATINI IBELLI, ADRIANA MERCIA; LEDUR, MONICA CORREA; DE NOVAIS, FRANCISCO JOSE; COUTINHO, LUIZ LEHMANN. Identification of selection signatures involved in performance traits in a paternal broiler line. BMC Genomics, v. 20, JUN 3 2019. (14/21380-9, 16/00569-1, 14/08704-0)

TREVISOLI, PRISCILA ANCHIETA; MONTEIRO MOREIRA, GABRIEL COSTA; BOSCHIERO, CLARISSA; MELLO CESAR, ALINE SILVA; PETRINI, JULIANA; ALVES MARGARIDO, GABRIEL RODRIGUES; LEDUR, MONICA CORREA; MOURAO, GERSON BARRETO; GARRICK, DORIAN; COUTINHO, LUIZ LEHMANN. A Missense Mutation in the MYBPH Gene Is Associated With Abdominal Fat Traits in Meat-Type Chickens. FRONTIERS IN GENETICS, v. 12, AUG 11 2021. (14/21380-9, 16/13589-0, 16/00569-1)

MONTEIRO MOREIRA, GABRIEL COSTA; POLETI, MIRELE DAIANA; PERTILLE, FABIO; BOSCHIERO, CLARISSA; MELLO CESAR, ALINE SILVA; GODOY, THAIS FERNANDA; LEDUR, MONICA CORREA; REECY, JAMES M.; GARRICK, DORIAN J.; COUTINHO, LUIZ LEHMANN. Unraveling genomic associations with feed efficiency and body weight traits in chickens through an integrative approach. BMC GENETICS, v. 20, n. 1, NOV 6 2019. (14/21380-9, 16/20440-3, 16/00569-1, 14/08704-0, 15/00616-7)

SALVIAN, MAYARA; MONTEIRO MOREIRA, GABRIEL COSTA; FREITAS SILVEIRA, ROBSON MATEUS; REIS, ANDREA PLOTZKI; D'AURIA, BRAYAN DIAS; PILONETTO, FABRICIO; GERVASIO, IZALLY CARVALHO; LEDUR, MONICA CORRE; COUTINHO, LUIZ LEHMANN; SPANGLER, MATTHEW LEE; et al. Estimation of breeding values using different densities of SNP to inform kinship in broiler chickens. LIVESTOCK SCIENCE, v. 267, p. 8-pg., 2022-11-29. (14/08704-0, 14/21380-9, 16/00569-1)

MONTEIRO MOREIRA, GABRIEL COSTA; SALVIAN, MAYARA; BOSCHIERO, CLARISSA; MELLO CESAR, ALINE SILVA; REECY, JAMES M.; GODOY, THAIS FERNANDA; LEDUR, MONICA CORREA; GARRICK, DORIAN; MOURAO, GERSON BARRETO; COUTINHO, LUIZ L.. Genome-wide association scan for QTL and their positional candidate genes associated with internal organ traits in chickens. BMC Genomics, v. 20, n. 1, AUG 22 2019. (14/21380-9, 16/00569-1, 14/08704-0)

MONTEIRO MOREIRA, GABRIEL COSTA; BOSCHIERO, CLARISSA; MELLO CESAR, ALINE SILVA; REECY, JAMES M.; GODOY, THAIS FERNANDA; TREVISOLI, PRISCILA ANCHIETA; CANTAO, MAURICIO E.; LEDUR, MONICA CORREA; GUARATINI IBELLI, ADRIANA MERCIA; PEIXOTO, JANE DE OLIVEIRA; et al. A genome-wide association study reveals novel genomic regions and positional candidate genes for fat deposition in broiler chickens. BMC Genomics, v. 19, MAY 21 2018. (14/21380-9, 15/00616-7, 16/00569-1, 14/08704-0)