Copy Number Variations (CNVs) are DNA sequences of 50 bp up to several Mb long, which can vary in number of copies in comparison with a reference genome. CNVs can be used in association studies to disclose genetic basis of quantitative traits phenotypic variation. Up to date, no genome-wide association study (GWAS) with CNVs and quantitative traits in such a large Brown Swiss population (i.e. with 1116 samples) has been described. The purpose of this study was to perform a GWAS using CNVs with functional, health and productive traits and to asses the impact on farming and breeding practices. The CNV – association studies were performed with the Golden Helix SVS 8.4.4 software using a correlation-trend test model. Genes within significant associated CNVs for each trait were annotated with a GO analysis using the DAVID Bioinformatics Resources 6.7. A total of 56 CNVs were significantly associated with one or more of the eight evaluated traits. The greatest association signals were given by three CNVs on chromosome 12 for the fat yield trait and on BTA23 for udder traits. The associated CNVs overlap with 23 different genes annotated on the Bos taurus genome assembly (UMD3.1).

A genome wide association study between CNVs and quantitative traits in Brown Swiss cattle / R.T.M.M. Prinsen, A.M. Rossoni, B. Gredler, A. Bieber, A. Bagnato, M.G. Strillacci. - In: LIVESTOCK SCIENCE. - ISSN 1871-1413. - 202(2017), pp. 7-12.

A genome wide association study between CNVs and quantitative traits in Brown Swiss cattle

R.T.M.M. Prinsen
Primo
;
A.M. Rossoni
Secondo
;
A. Bagnato
Penultimo
;
M.G. Strillacci
Ultimo
2017

Abstract

Copy Number Variations (CNVs) are DNA sequences of 50 bp up to several Mb long, which can vary in number of copies in comparison with a reference genome. CNVs can be used in association studies to disclose genetic basis of quantitative traits phenotypic variation. Up to date, no genome-wide association study (GWAS) with CNVs and quantitative traits in such a large Brown Swiss population (i.e. with 1116 samples) has been described. The purpose of this study was to perform a GWAS using CNVs with functional, health and productive traits and to asses the impact on farming and breeding practices. The CNV – association studies were performed with the Golden Helix SVS 8.4.4 software using a correlation-trend test model. Genes within significant associated CNVs for each trait were annotated with a GO analysis using the DAVID Bioinformatics Resources 6.7. A total of 56 CNVs were significantly associated with one or more of the eight evaluated traits. The greatest association signals were given by three CNVs on chromosome 12 for the fat yield trait and on BTA23 for udder traits. The associated CNVs overlap with 23 different genes annotated on the Bos taurus genome assembly (UMD3.1).
Brown Swiss; CNV; GWAS; Animal Science and Zoology; Veterinary (all)
Settore AGR/17 - Zootecnica Generale e Miglioramento Genetico
From sequence to Consequence - Tools for the exploitation of livestock genomes
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Utilizza questo identificativo per citare o creare un link a questo documento: http://hdl.handle.net/2434/532806
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