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Genetic aspects of meat production quality, efficiency and sustainability in Nelore breed animals

Grant number: 17/10630-2
Support type:Research Projects - Thematic Grants
Duration: June 01, 2018 - May 31, 2023
Field of knowledge:Agronomical Sciences - Animal Husbandry - Genetics and Improvement of Domestic Animals
Principal researcher:Lucia Galvão de Albuquerque
Grantee:Lucia Galvão de Albuquerque
Home Institution: Faculdade de Ciências Agrárias e Veterinárias (FCAV). Universidade Estadual Paulista (UNESP). Campus de Jaboticabal. Jaboticabal , SP, Brazil
Pesquisadores principais:
( Atuais )
Josineudson Augusto Ii de Vasconcelos Silva ; Maria Eugênia Zerlotti Mercadante
Pesquisadores principais:
( Anteriores )
Roberto Carvalheiro
Assoc. researchers:Alexandre Berndt ; Ana Fabrícia Braga Magalhães ; Camila Urbano Braz ; Daiane Cristina Becker Scalez ; Daniel Guariz Pinheiro ; Diercles Francisco Cardoso ; Fernando Sebastián Baldi Rey ; Gerardo Alves Fernandes Júnior ; Guilherme Jordão de Magalhães Rosa ; Henrique Nunes de Oliveira ; Humberto Tonhati ; Jesus Aparecido Ferro ; Joslaine Noely dos Santos Goncalves Cyrillo ; Juliana de Oliveira Santos Marcatto ; Larissa Fernanda Simielli Fonseca ; Luis Artur Loyola Chardulo ; Rafael Espigolan ; Roberta Carrilho Canesin ; Roberto Carvalheiro ; Rosa Toyoko Shiraishi Frighetto
Associated grant(s):18/20026-8 - Multi-user equipment approved in grant 2017/10630-2: server, AP.EMU
Associated scholarship(s):21/09942-5 - Variance of gametic diversity estimation for economically important traits of Nellore cattle, BP.DR
20/03975-6 - Incorporating sequence variants to improve genomic prediction for reproductive traits in Nellore cattle, BP.PD
19/11738-7 - Phenotypic, genetic correlations and genomic wide association between feed efficiency and enteric methane emission of Nellore cattle, BP.DR
+ associated scholarships 20/02392-7 - Determination of enteric methane emission from Nelore cattle, BP.TT
20/02304-0 - Association of ingestive behavior and enteric methane emission in cattle of the Nellore breed, BP.IC
19/06361-1 - Genotype-environment interaction in Nellore cattle for growth traits and visual scores using sequence data, BP.DR
19/15397-0 - GENOME WIDE ASSOCIATION STUDY AND DETECTION OF SELECTION SIGNALS IN THE GENOME OF NELORE CATTLE USING SEQUENCE DATA, BP.PD
19/16732-7 - Bioinformatics application in genome and transcriptome analysis of Nellore cattle, integrating public information, BP.PD
19/05165-4 - Evaluation of ruminal methane emission flows of Nelore cattle, BP.TT
18/10109-3 - Identification and analysis of genetic variants obtained from the whole-genome sequencing of Nellore bulls, BP.PD
18/12504-7 - Phenotyping for methane emission in Nelore males submitted to feed efficiency test, BP.TT
18/04313-7 - Assessment of inbreeding and study of functional variants using sequenced data in Nelore cattle, BP.PD - associated scholarships

Abstract

In general, Brazilian beef herds need to improve their indexes of efficiency and the final product (meat) quality. Moreover, nowadays, there is a worldwide concern about the animal production sustainability, which could be improved selecting animals with decreased enteric methane emission to the atmosphere. With the evolution of the complete genome sequencing and the decreasing sequencing costs by animal, this technic has been proposed as an alternative to the SNP chips for genomic selection, with various advantages. Therefore, the present project aims to build a data set of enteric methane emission and to use a data set including feed efficiency, meat and carcass quality and reproduction traits already existent to perform genomic studies based in the complete DNA sequence, with the objective of developing technologies to increase the biologic knowledge and the genetic improvement of quality, efficiency and sustainability of Nelore beef cattle production. The following topics will be developed in the project: a) genetic quantitative studies of traits related to enteric methane emission and their genetic associations with feed efficiency traits; b) studies about the accuracy of imputation to the complete DNA sequence from animals genotyped with commercial chips with different SNP numbers and using various methods; c) studies of Nelore genome characterization using sequence data; d) genome wide association studies for economic important traits using genome complete sequence as well as fine mapping candidate genes aiming to identify causal and deleterious mutations for economic traits; e) genomic selection studies for quality, efficiency and sustainability of production traits using sequence data; f) gene expression analysis (transcriptome) for feed efficiency. (AU)

Articles published in Agência FAPESP Newsletter about the research grant:
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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.; VARGAS, GIOVANA; BRITO, LUIZ F.; SCHENKEL, FLAVIO S.; ALBUQUERQUE, LUCIA G.; CARVALHEIRO, ROBERTO. Genetic and genomic analyses of testicular hypoplasia in Nellore cattle. PLoS One, v. 14, n. 1, . (17/10630-2)
ALVES, JACKELINE SANTOS; DIAZ, IARA DEL PILAR SOLAR; DA CRUZ, VALDECY APARECIDA ROCHA; BASTOS, MARISA SILVA; DE OLIVEIRA, LOUISE SARMENTO MARTINS; DE ALBUQUERQUE, LUCIA GALVAO; DE CAMARGO, GREGORIO MIGUEL FERREIRA; COSTA, RAPHAEL BERMAL. The effect of mitochondrial DNA polymorphisms on cattle reproduction. MOLECULAR BIOLOGY REPORTS, v. 48, n. 1, . (18/20026-8, 17/10630-2, 09/16118-5)
FERNANDES JUNIOR, GERARDO ALVES; DE OLIVEIRA, HENRIQUE NUNES; CARVALHEIRO, ROBERTO; CARDOSO, DIERCLES FRANCISCO; FONSECA, LARISSA FERNANDA SIMIELLI; VENTURA, RICARDO VIEIRA; DE ALBUQUERQUE, LUCIA GALVAO. Whole-genome sequencing provides new insights into genetic mechanisms of tropical adaptation in Nellore (Bos primigenius indicus). SCIENTIFIC REPORTS, v. 10, n. 1, . (17/10630-2, 19/12434-1, 18/20026-8, 09/16118-5, 18/10109-3)
BENFICA, LORENA FERREIRA; SAKAMOTO, LEANDRO SANNOMIYA; BRAGA MAGALHAES, ANA FABRICIA; VARGAS DE OLIVEIRA, MATHEUS HENRIQUE; DE ALBUQUERQUE, LUCIA GALVAO; CAVALHEIRO, ROBERTO; BRANCO, RENATA HELENA; DOS SANTOS GONCALVES CYRILLO, JOSLAINE NOELY; ZERLOTTI MERCADANTE, MARIA EUGENIA. Genetic association among feeding behavior, feed efficiency, and growth traits in growing indicine cattle. JOURNAL OF ANIMAL SCIENCE, v. 98, n. 11, . (17/10630-2, 18/04313-7, 17/50339-5, 18/17313-5)
CARVALHEIRO, ROBERTO; COSTILLA, ROY; NEVES, HAROLDO H. R.; ALBUQUERQUE, LUCIA G.; MOORE, STEPHEN; HAYES, BEN J.. Unraveling genetic sensitivity of beef cattle to environmental variation under tropical conditions. GENETICS SELECTION EVOLUTION, v. 51, . (17/18415-3, 17/10630-2)
FERNANDES JUNIOR, GERARDO A.; CARVALHEIRO, ROBERTO; DE OLIVEIRA, HENRIQUE N.; SARGOLZAEI, MEHDI; COSTILLA, ROY; VENTURA, RICARDO V.; FONSECA, LARISSA F. S.; NEVES, HAROLDO H. R.; HAYES, BEN J.; DE ALBUQUERQUE, LUCIA G.. Imputation accuracy to whole-genome sequence in Nellore cattle. GENETICS SELECTION EVOLUTION, v. 53, n. 1, . (17/10630-2, 19/12434-1, 09/16118-5, 18/10109-3, 18/20026-8)
ALVES, A. A. C.; ESPIGOLAN, R.; BRESOLIN, T.; COSTA, R. M.; FERNANDES JUNIOR, G. A.; VENTURA, R. V.; CARVALHEIRO, R.; ALBUQUERQUE, L. G.. Genome-enabled prediction of reproductive traits in Nellore cattle using parametric models and machine learning methods. ANIMAL GENETICS, v. 52, n. 1, . (17/10630-2, 09/16118-5, 18/20026-8, 16/24227-2)
MAGALHAES MUNIZ, MARIA MALANE; SIMIELLI FONSECA, LARISSA FERNANDA; DOS SANTOS SILVA, DANIELLY BERALDO; DE OLIVEIRA, HINAYAH ROJAS; BALDI, FERNANDO; CHARDULO, ARTUR LOYOLA; FERRO, JESUS APARECIDO; CANOVAS, ANGELA; DE ALBUQUERQUE, LUCIA GALVAO. Identification of novel mRNA isoforms associated with meat tenderness using RNA sequencing data in beef cattle. MEAT SCIENCE, v. 173, . (18/20026-8, 11/21241-0, 18/11154-2, 09/16118-5, 17/10630-2)
MARIN-GARZON, N. A.; MAGALHAES, A. F. B.; SCHMIDT, P. I.; SERNA, M.; FONSECA, L. F. S.; SALATTA, B. M.; FREZARIM, G. B.; FERNANDES-JUNIOR, G. A.; BRESOLIN, T.; CARVALHEIRO, R.; et al. Genome-wide scan reveals genomic regions and candidate genes underlying direct and maternal effects of preweaning calf mortality in Nellore cattle. Genomics, v. 113, n. 3, p. 1386-1395, . (17/10630-2, 18/20026-8)
SILVA, DANIELLY B. S.; FONSECA, LARISSA F. S.; PINHEIRO, DANIEL G.; MAGALHAES, ANA F. B.; MUNIZ, MARIA M. M.; FERRO, JESUS A.; BALDI, FERNANDO; CHARDULO, LUIS A. L.; SCHNABEL, ROBERT D.; TAYLOR, JEREMY F.; et al. Spliced genes in muscle from Nelore Cattle and their association with carcass and meat quality. SCIENTIFIC REPORTS, v. 10, n. 1, . (17/10630-2, 15/16850-9, 09/16118-5, 16/22894-1, 18/20026-8)
TORO OSPINA, ALEJANDRA MARIA; AGUILAR, IGNACIO; VARGAS DE OLIVEIRA, MATHEUS HENRIQUE; CRUZ DOS SANTOS CORREIA, LUIZ EDUARDO; VERCESI FILHO, ANIBAL EUGENIO; ALBUQUERQUE, LUCIA GALVAO; II DE VASCONCELOS SILVA, JOSINEUDSON AUGUSTO. Assessing the accuracy of imputation in the Gyr breed using different SNP panels. GENOME, v. 64, n. 10, p. 893-899, . (15/06686-7, 17/10630-2)
SAKAMOTO, LEANDRO SANNOMIYA; SOUZA, LUANA LELIS; GIANVECCHIO, SARAH BERNARDES; DE OLIVEIRA, MATHEUS HENRIQUE VARGAS; SILVA, JOSINEUDSON AUGUSTO I. I. DE VASCONCELOS; CANESIN, ROBERTA CARRILHO; BRANCO, RENATA HELENA; BACCAN, MELISSA; BERNDT, ALEXANDRE; DE ALBUQUERQUE, LUCIA GALVAO; et al. Phenotypic association among performance, feed efficiency and methane emission traits in Nellore cattle. PLoS One, v. 16, n. 10, . (17/50339-5, 17/10630-2, 19/11738-7, 18/17313-5)

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