Genome-wide association study for detection of chromosomal regions related to scrotal circumference in Nellore cattle

• Grant number: 11/16643-2
• Support Opportunities: Scholarships in Brazil - Master
• Start date: March 01, 2012
• End date: December 31, 2013
• Field of knowledge: Agronomical Sciences - Veterinary Medicine - Animal Reproduction
• Principal Investigator: José Fernando Garcia
• Grantee: Yuri Tani Utsunomiya
• Host Institution: Faculdade de Ciências Agrárias e Veterinárias (FCAV). Universidade Estadual Paulista (UNESP). Campus de Jaboticabal. Jaboticabal , SP, Brazil

Abstract

Scrotal circumference (SC) is one of the most important reproductive parameters in bulls, which is related to the quanti-qualitative character of semen and is indicative of fertility and the onset of puberty. Thus, genetic studies of this trait may contribute to the understanding of complex aspects of reproductive physiology, shedding light to old questions in this field. Recently, with the sequencing and mapping of the first reference bovine genome, studies focused on the discovery of single nucleotide polymorphisms (SNP) have paved the way for the development of powerful tools to characterize genetic profile throughout the genome, the SNP chips. This technology enables the simultaneous interrogation of up to 800,000 points distributed along all cattle chromosomes, which can be analyzed for associations with phenotypes of interest (Genome-wide Association Study - GWAS). This type of study generates knowledge about genes and chromosomal fragments linked to important traits, which are then exploited in systems biology. The proposed project aims at the application of GWAS to the SC phenotype, using Nellore cattle as a model, in order to identify chromosomal regions that may be related to important aspects of bovine reproduction.

Scientific publications

(12)

(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)

NEVES, HAROLDO H. R.; CARVALHEIRO, ROBERTO; PEREZ O'BRIEN, ANA M.; UTSUNOMIYA, YURI T.; DO CARMO, ADRIANA S.; SCHENKEL, FLAVIO S.; SOELKNER, JOHANN; MCEWAN, JOHN C.; VAN TASSELL, CURTIS P.; COLE, JOHN B.; et al. Accuracy of genomic predictions in Bos indicus (Nellore) cattle. GENETICS SELECTION EVOLUTION, v. 46, FEB 27 2014. (10/52030-2, 11/16643-2, 10/06185-4)

SANTANA, M. H. A.; UTSUNOMIYA, Y. T.; NEVES, H. H. R.; GOMES, R. C.; GARCIA, J. F.; FUKUMASU, H.; SILVA, S. L.; LEME, P. R.; COUTINHO, L. L.; ELER, J. P.; et al. Genome-wide association study for feedlot average daily gain in Nellore cattle (Bos indicus). JOURNAL OF ANIMAL BREEDING AND GENETICS, v. 131, n. 3, p. 210-216, JUN 2014. (12/03551-5, 11/16643-2, 12/02039-9)

UTSUNOMIYA, YURI T.; DO CARMO, ADRIANA S.; CARVALHEIRO, ROBERTO; NEVES, HAROLDO H. R.; MATOS, MARCIA C.; ZAVAREZ, LUDMILLA B.; O'BRIEN, ANA M. PEREZ; SOELKNER, JOHANN; MCEWAN, JOHN C.; COLE, JOHN B.; et al. Genome-wide association study for birth weight in Nellore cattle points to previously described orthologous genes affecting human and bovine height. BMC GENETICS, v. 14, JUN 13 2013. (10/52030-2, 11/16643-2)

O'BRIEN, ANA M. PEREZ; MESZAROS, GABOR; UTSUNOMIYA, YURI T.; SONSTEGARD, TAD S.; GARCIA, J. FERNANDO; VAN TASSELL, CURTIS P.; CARVALHEIRO, ROBERTO; DA SILVA, MARCOS V. B.; SOLKNER, JOHANN. Linkage disequilibrium levels in Bos indicus and Bos taurus cattle using medium and high density SNP chip data and different minor allele frequency distributions. LIVESTOCK SCIENCE, v. 166, p. 12-pg., 2014-08-01. (11/16643-2, 10/52030-2)

O'BRIEN, ANA M. PEREZ; MESZAROS, GABOR; UTSUNOMIYA, YURI T.; SONSTEGARD, TAD S.; GARCIA, J. FERNANDO; VAN TASSELL, CURTIS P.; CARVALHEIRO, ROBERTO; DA SILVA, MARCOS V. B.; SOLKNER, JOHANN. Linkage disequilibrium levels in Bos indicus and Bos taurus cattle using medium and high density SNP chip data and different minor allele frequency distributions. LIVESTOCK SCIENCE, v. 166, n. SI, p. 121-132, AUG 2014. (10/52030-2, 11/16643-2)

BOISON, S. A.; NEVES, H. H. R.; PEREZ O'BRIEN, A. M.; UTSUNOMIYA, Y. T.; CARVALHEIRO, R.; DA SILVA, M. V. G. B.; SOELKNER, J.; GARCIA, J. F.. Imputation of non-genotyped individuals using genotyped progeny in Nellore, a Bos indicus cattle breed. LIVESTOCK SCIENCE, v. 166, n. SI, p. 176-189, AUG 2014. (10/52030-2, 11/16643-2)

UTSUNOMIYA, YURI TANI; BOMBA, LORENZO; LUCENTE, GIORDANA; COLLI, LICIA; NEGRINI, RICCARDO; LENSTRA, JOHANNES ARJEN; ERHARDT, GEORG; GARCIA, JOSE FERNANDO; AJMONE-MARSAN, PAOLO; DIVERSITY, EUROPEAN CATTLE GENETIC. Revisiting AFLP fingerprinting for an unbiased assessment of genetic structure and differentiation of taurine and zebu cattle. BMC GENETICS, v. 15, APR 17 2014. (13/12829-0, 11/16643-2)

O'BRIEN, ANA M. PEREZ; UTSUNOMIYA, YURI T.; MESZAROS, GABOR; BICKHART, DEREK M.; LIU, GEORGE E.; VAN TASSELL, CURTIS P.; SONSTEGARD, TAD S.; DA SILVA, MARCOS V. B.; GARCIA, JOSE FERNANDO; SOELKNER, JOHANN. Assessing signatures of selection through variation in linkage disequilibrium between taurine and indicine cattle. GENETICS SELECTION EVOLUTION, v. 46, MAR 4 2014. (10/52030-2, 11/16643-2)

SANTANA, MIGUEL H. A.; UTSUNOMIYA, YURI T.; NEVES, HAROLDO H. R.; GOMES, RODRIGO C.; GARCIA, JOSE F.; FUKUMASU, HEIDGE; SILVA, SAULO L.; OLIVEIRA JUNIOR, GERSON A.; ALEXANDRE, PAMELA A.; LEME, PAULO R.; et al. Genome-wide association analysis of feed intake and residual feed intake in Nellore cattle. BMC GENETICS, v. 15, FEB 11 2014. (12/03551-5, 11/16643-2, 12/02039-9)

UTSUNOMIYA, YURI T.; CARMO, ADRIANA S.; NEVES, HAROLDO H. R.; CARVALHEIRO, ROBERTO; MATOS, MARCIA C.; ZAVAREZ, LUDMILLA B.; ITO, PIER K. R. K.; O'BRIEN, ANA M. PEREZ; SOELKNER, JOHANN; PORTO-NETO, LAERCIO R.; et al. Genome-Wide Mapping of Loci Explaining Variance in Scrotal Circumference in Nellore Cattle. PLoS One, v. 9, n. 2, FEB 18 2014. (10/52030-2, 11/16643-2)

UTSUNOMIYA, YURI TANI; O'BRIEN, ANA MARIA PEREZ; SONSTEGARD, TAD STEWART; VAN TASSELL, CURTIS PAUL; DO CARMO, ADRIANA SANTANA; MESZAROS, GABOR; SOELKNER, JOHANN; GARCIA, JOSE FERNANDO. Detecting Loci under Recent Positive Selection in Dairy and Beef Cattle by Combining Different Genome-Wide Scan Methods. PLoS One, v. 8, n. 5, MAY 16 2013. (10/52030-2, 11/16643-2)

BOISON, S. A.; NEVES, H. H. R.; PEREZ O'BRIEN, A. M.; UTSUNOMIYA, Y. T.; CARVALHEIRO, R.; DA SILVA, M. V. G. B.; SOELKNER, J.; GARCIA, J. F.. Imputation of non-genotyped individuals using genotyped progeny in Nellore, a Bos indicus cattle breed. LIVESTOCK SCIENCE, v. 166, p. 14-pg., 2014-08-01. (11/16643-2, 10/52030-2)

Academic Publications

(References retrieved automatically from State of São Paulo Research Institutions)

UTSUNOMIYA, Yuri Tani. Genome-wide scans to uncover loci underlying bovine reproductive biology. 2013. Master's Dissertation - Universidade Estadual Paulista (Unesp).