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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.)

Genome-Wide Detection of CNVs and Their Association with Meat Tenderness in Nelore Cattle

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Author(s):
da Silva, Vinicius Henrique [1] ; De Almeida Regitano, Luciana Correia [2] ; Geistlinger, Ludwig [3] ; Pertille, Fabio [1] ; Giachetto, Poliana Fernanda [4] ; Brassaloti, Ricardo Augusto [1] ; Morosini, Natalia Silva [1] ; Zimmer, Ralf [3] ; Coutinho, Luiz Lehmann [1]
Total Authors: 9
Affiliation:
[1] Univ Sao Paulo, Luiz de Queiroz Coll Agr ESALQ, Dept Anim Sci, Anim Biotechnol Lab, Piracicaba, SP - Brazil
[2] Embrapa Pecuaria Sudeste, Sao Carlos, SP - Brazil
[3] Univ Munich, Dept Informat, Inst Bioinformat, Amalienstr 17, D-80333 Munich - Germany
[4] Embrapa Informat Agr, Campinas, SP - Brazil
Total Affiliations: 4
Document type: Journal article
Source: PLoS One; v. 11, n. 6 JUN 27 2016.
Web of Science Citations: 14
Abstract

Brazil is one of the largest beef producers and exporters in the world with the Nelore breed representing the vast majority of Brazilian cattle (Bos taurus indicus). Despite the great adaptability of the Nelore breed to tropical climate, meat tenderness (MT) remains to be improved. Several factors including genetic composition can influence MT. In this article, we report a genome-wide analysis of copy number variation (CNV) inferred from Illumina (R) High Density SNP-chip data for a Nelore population of 723 males. We detected >2,600 CNV regions (CNVRs) representing approximate to 6.5% of the genome. Comparing our results with previous studies revealed an overlap in approximate to 1400 CNVRs (>50%). A total of 1,155 CNVRs (43.6%) overlapped 2,750 genes. They were enriched for processes involving guanosine triphosphate (GTP), previously reported to influence skeletal muscle physiology and morphology. Nelore CNVRs also overlapped QTLs for MT reported in other breeds (8.9%, 236 CNVRs) and from a previous study with this population (4.1%, 109 CNVRs). Two CNVRs were also proximal to glutathione metabolism genes that were previously associated with MT. Genome-wide association study of CN state with estimated breeding values derived from meat shear force identified 6 regions, including a region on BTA3 that contains genes of the cAMP and cGMP pathway. Ten CNVRs that overlapped regions associated with MT were successfully validated by qPCR. Our results represent the first comprehensive CNV study in Bos taurus indicus cattle and identify regions in which copy number changes are potentially of importance for the MT phenotype. (AU)

FAPESP's process: 12/23717-5 - Identification of CNVs in the Nelore genome and its association with meat tenderness
Grantee:Vinicius Henrique da Silva
Support type: Scholarships in Brazil - Master
FAPESP's process: 12/23638-8 - Molecular basis of meat quality in Nelore beef cattle
Grantee:Luciana Correia de Almeida Regitano
Support type: Research Projects - Thematic Grants
FAPESP's process: 14/01438-2 - Metabolic pathways and meat tenderness: from CNVs to gene expression in Nelore cattle breed
Grantee:Vinicius Henrique da Silva
Support type: Scholarships abroad - Research Internship - Master's degree