Data/hora: 17/06/2024 16:50:22

Biblioteca(s): | Embrapa Agricultura Digital.
Data corrente: | 01/02/2018
Data da última atualização: | 30/12/2020
Autoria: | KASARAPU, P.; PORTO-NETO, L. R.; FORTES, M. R. S.; LEHNERT, S. A.; MUDADU, M. de A.; COUTINHO, L.; REGITANO, L. C. de A.; GEORGE, A.; REVERTER, A.
Afiliação: | PARTHAN KASARAPU, CSIRO; LAERCIO RIBEIRO PORTO-NETO, CSIRO; MARINA R. S. FORTES, University of Queensland; SIGRID A. LEHNER, CSIRO; MAURICIO DE ALVARENGA MUDADU, CNPTIA; LUIZ COUTINHO, Esalq/USP; LUCIANA CORREIA DE ALMEIDA REGITANO, CPPSE; ANDREW GEORGE, CSIRO; ANTONIO REVERTER, CSIRO.
Título: | The Bos taurus-Bos indicus balance in fertility and milk related genes.
Ano de publicação: | 2017
Fonte/Imprenta: | Plos One, v. 12, n. 8, p. 1-20, 2017.
DOI: | https://doi.org/10.1371/journal.pone.0181930
Idioma: | Inglês
Notas: | Artigo e0181930. Na publicação: Mauricio A. Mudadu, Luciana Regitano.
Conteúdo: | Numerical approaches to high-density single nucleotide polymorphism (SNP) data are often employed independently to address individual questions. We linked independent approaches in a bioinformatics pipeline for further insight. The pipeline driven by heterozygosity and Hardy-Weinberg equilibrium (HWE) analyses was applied to characterize Bos taurus and Bos indicus ancestry. We infer a gene co-heterozygosity network that regulates bovine fertility, from data on 18,363 cattle with genotypes for 729,068 SNP. Hierarchical clustering separated populations according to Bos taurus and Bos indicus ancestry. The weights of the first principal component were subjected to Normal mixture modelling allowing the estimation of a gene's contribution to the Bos taurus-Bos indicus axis. We used deviation from HWE, contribution to Bos indicus content and association to fertility traits to select 1,284 genes. With this set, we developed a co-heterozygosity network where the group of genes annotated as fertility-related had significantly higher Bos indicus content compared to other functional classes of genes, while the group of genes associated with milk production had significantly higher Bos taurus content. The network analysis resulted in capturing novel gene associations of relevance to bovine domestication events. We report transcription factors that are likely to regulate genes associated with cattle domestication and tropical adaptation. Our pipeline can be generalized to any scenarios where population structure requires scrutiny at the molecular level, particularly in the presence of a priori set of genes known to impact a phenotype of evolutionary interest such as fertility.
Palavras-Chave: | Bioinformática; Hardy-Weinberg equilibrium; Polimorfismo de nucleotídeo único.
Thesagro: | Bos indicus; Bos taurus.
Thesaurus Nal: | Bioinformatics; Single nucleotide polymorphism.
Categoria do assunto: | --
URL: | http://ainfo.cnptia.embrapa.br/digital/bitstream/item/171999/1/AP-Bostaurus-PlosOne.pdf
Registro original: | Embrapa Agricultura Digital (CNPTIA)
Exemplares: | CNPTIA - (19607-1) - UPC - AP - DD -  -  -  - DIS