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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.)

Variant discovery in a QTL region on chromosome 3 associated with fatness in chickens

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Author(s):
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Moreira, G. C. M. [1] ; Godoy, T. F. [1] ; Boschiero, C. [1] ; Gheyas, A. [2, 3] ; Gasparin, G. [1] ; Andrade, S. C. S. [1] ; Paduan, M. [1] ; Montenegro, H. [4] ; Burt, D. W. [2, 3] ; Ledur, M. C. [5] ; Coutinho, L. L. [1]
Total Authors: 11
Affiliation:
[1] Univ Sao Paulo, ESALQ, Dept Zootecnia, BR-13418900 Piracicaba, SP - Brazil
[2] Roslin Inst, Dept Genet & Genom, Roslin EH25 9PS, Midlothian - Scotland
[3] Royal Dick Sch Vet Studies, Roslin EH25 9PS, Midlothian - Scotland
[4] Univ Sao Paulo, ESALQ, Dept Genet, BR-13418900 Piracicaba, SP - Brazil
[5] Embrapa Suinos & Aves, BR-89700000 Concordia, SC - Brazil
Total Affiliations: 5
Document type: Journal article
Source: ANIMAL GENETICS; v. 46, n. 2, p. 141-147, APR 2015.
Web of Science Citations: 9
Abstract

Abdominal fat content is an economically important trait in commercially bred chickens. Although many quantitative trait loci (QTL) related to fat deposition have been detected, the resolution for these regions is low and functional variants are still unknown. The current study was conducted aiming at increasing resolution for a region previously shown to have a QTL associated with fat deposition, to detect novel variants from this region and to annotate those variants to delineate potentially functional ones as candidates for future studies. To achieve this, 18 chickens from a parental generation used in a reciprocal cross between broiler and layer lines were sequenced using the Illumina next-generation platform with an initial coverage of 18X/chicken. The discovery of genetic variants was performed in a QTL region located on chromosome 3 between microsatellite markers LEI0161 and ADL0371 (33595706-42632651bp). A total of 136054 unique SNPs and 15496 unique INDELs were detected in this region, and after quality filtering, 123985 SNPs and 11298 INDELs were retained. Of these variants, 386 SNPs and 15 INDELs were located in coding regions of genes related to important metabolic pathways. Loss-of-function variants were identified in several genes, and six of those, namely LOC771163, EGLN1, GNPAT, FAM120B, THBS2 and GGPS1, were related to fat deposition. Therefore, these loss-of-function variants are candidate mutations for conducting further studies on this important trait in chickens. (AU)

FAPESP's process: 12/15294-7 - IDENTIFICATION OF POLYMORPHISMS IN A REGION OF THE CHICKEN CHROMOSOME 2 ASSOCIATED WITH MUSCLE DEPOSITION
Grantee:Thaís Fernanda Godoy
Support type: Scholarships in Brazil - Master
FAPESP's process: 12/14965-5 - Identification of polymorphisms in a region of chicken chromosome 3 associated with the performance of the fat deposition
Grantee:Gabriel Costa Monteiro Moreira
Support type: Scholarships in Brazil - Master