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(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

Selection signatures in Canchim beef cattle

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Author(s):
Urbinati, Ismael [1] ; Stafuzza, Nedenia Bonvino [1] ; Oliveira, Marcos Tulio [2] ; Seleguim Chud, Tatiane Cristina [1] ; Higa, Roberto Hiroshi [3] ; de Almeida Regitano, Luciana Correia [4] ; de Alencar, Mauricio Mello [4] ; Buzanskas, Marcos Eli [1] ; Munari, Danisio Prado [1]
Total Authors: 9
Affiliation:
[1] Univ Estadual Paulista, Fac Ciencias Agr & Vet, Dept Ciencias Exatas, BR-14884900 Jaboticabal, SP - Brazil
[2] Univ Estadual Paulista, Fac Ciencias Agr & Vet, Dept Tecnol, BR-14884900 Jaboticabal, SP - Brazil
[3] Embrapa Agr Informat, BR-13083886 Campinas, SP - Brazil
[4] Embrapa Southeast Livestock, BR-13560970 Sao Carlos, SP - Brazil
Total Affiliations: 4
Document type: Journal article
Source: JOURNAL OF ANIMAL SCIENCE AND BIOTECHNOLOGY; v. 7, MAY 5 2016.
Web of Science Citations: 8
Abstract

Background: Recent technological advances in genomics have allowed the genotyping of cattle through single nucleotide polymorphism (SNP) panels. High-density SNP panels possess greater genome coverage and are useful for the identification of conserved regions of the genome due to selection, known as selection signatures (SS). The SS are detectable by different methods, such as the extended haplotype homozygosity (EHH); and the integrated haplotype score (iHS), which is derived from the EHH. The aim of this study was to identify SS regions in Canchim cattle (composite breed), genotyped with high-density SNP panel. Results: A total of 687,655 SNP markers and 396 samples remained for SS analysis after the genotype quality control. The iHS statistic for each marker was transformed into piHS for better interpretation of the results. Chromosomes BTA5 and BTA14 showed piHS > 5, with 39 and nine statistically significant SNPs (P < 0.00001), respectively. For the candidate selection regions, iHS values were computed across the genome and averaged within non-overlapping windows of 500 Kb. We have identified genes that play an important role in metabolism, melanin biosynthesis (pigmentation), and embryonic and bone development. Conclusions: The observation of SS indicates that the selection processes performed in Canchim, as well as in the founder breeds (i.e. Charolais), are maintaining specific genomic regions, particularly on BTA5 and BTA14. These selection signatures regions could be associated with Canchim characterization. (AU)

FAPESP's process: 13/19335-2 - Study of admixture level in Canchim breed and ma genetic group animals using high density single nucleotide polymorphism markers
Grantee:Marcos Eli Buzanskas
Support type: Scholarships in Brazil - Post-Doctorate
FAPESP's process: 14/02253-6 - Investigating the metabolic alterations caused by the transgenic expression of the mitochondrial alternative oxidase of Ciona intestinalis in Drosophila melanogaster
Grantee:Marcos Túlio de Oliveira
Support type: Research Grants - Young Investigators Grants
FAPESP's process: 13/09050-0 - Selection signatures in Canchim beef cattle
Grantee:Ismael Urbinati
Support type: Scholarships in Brazil - Master
FAPESP's process: 15/08939-0 - Identification of copy number variations in Girolando cattle
Grantee:Tatiane Cristina Seleguim Chud
Support type: Scholarships in Brazil - Doctorate