Genome-wide association study for fatty acid composition in Japanese Black cattle

Atsushi Ishii; Keita Yamaji; Yoshinobu Uemoto; Nanae Sasago; Eiji Kobayashi; Naohiko Kobayashi; Tamako Matsuhashi; Shin Maruyama; Hirokazu Matsumoto; Shinji Sasazaki; Hideyuki Mannen

doi:10.1111/asj.12063

Genome-wide association study for fatty acid composition in Japanese Black cattle

Atsushi Ishii, Keita Yamaji, Yoshinobu Uemoto, Nanae Sasago, Eiji Kobayashi, Naohiko Kobayashi, Tamako Matsuhashi, Shin Maruyama, Hirokazu Matsumoto, Shinji Sasazaki, Hideyuki Mannen

Research output: Contribution to journal › Article › peer-review

37 Citations (Scopus)

Abstract

Fatty acid composition is one of the important traits in beef. The aim of this study was to identify candidate genomic regions for fatty acid composition by genome-wide association study with 50K single nucleotide polymorphism (SNP) array in Japanese Black cattle. A total of 461 individuals and 40657 SNPs were used in this study. We applied genome-wide rapid association using mixed model and regression (GRAMMAR) and genomic control approaches to estimate the associations between genotypes and fatty acid composition. In addition, two SNPs in fatty acid synthase (FASN) (T1952A) and stearoyl-CoA desaturase (SCD) (V293A) genes were also genotyped. Association analysis revealed that 30 significant SNPs for several fatty acids (C14:0, C14:1, C16:1 and C18:1) were located in the BTA19FASN gene located within this region but the FASN mutation had no significant effect on any traits. We also detected one significant SNP for C18:1 on BTA23 and two SNPs for C16:0 on BTA25. The region around 17Mb on BTA26 harbored two significant SNPs for C14:1 and SNP in SCD in this region showed the strongest association with C14:1. This study demonstrated novel candidate regions in BTA19, 23 and 25 for fatty acid composition.

Original language	English
Pages (from-to)	675-682
Number of pages	8
Journal	Animal Science Journal
Volume	84
Issue number	10
DOIs	https://doi.org/10.1111/asj.12063
Publication status	Published - 2013 Oct 1
Externally published	Yes

Keywords

Fatty acid composition
GWAS
Japanese Black cattle

ASJC Scopus subject areas

Agricultural and Biological Sciences(all)

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10.1111/asj.12063

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title = "Genome-wide association study for fatty acid composition in Japanese Black cattle",

abstract = "Fatty acid composition is one of the important traits in beef. The aim of this study was to identify candidate genomic regions for fatty acid composition by genome-wide association study with 50K single nucleotide polymorphism (SNP) array in Japanese Black cattle. A total of 461 individuals and 40657 SNPs were used in this study. We applied genome-wide rapid association using mixed model and regression (GRAMMAR) and genomic control approaches to estimate the associations between genotypes and fatty acid composition. In addition, two SNPs in fatty acid synthase (FASN) (T1952A) and stearoyl-CoA desaturase (SCD) (V293A) genes were also genotyped. Association analysis revealed that 30 significant SNPs for several fatty acids (C14:0, C14:1, C16:1 and C18:1) were located in the BTA19FASN gene located within this region but the FASN mutation had no significant effect on any traits. We also detected one significant SNP for C18:1 on BTA23 and two SNPs for C16:0 on BTA25. The region around 17Mb on BTA26 harbored two significant SNPs for C14:1 and SNP in SCD in this region showed the strongest association with C14:1. This study demonstrated novel candidate regions in BTA19, 23 and 25 for fatty acid composition.",

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author = "Atsushi Ishii and Keita Yamaji and Yoshinobu Uemoto and Nanae Sasago and Eiji Kobayashi and Naohiko Kobayashi and Tamako Matsuhashi and Shin Maruyama and Hirokazu Matsumoto and Shinji Sasazaki and Hideyuki Mannen",

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AU - Ishii, Atsushi

AU - Yamaji, Keita

AU - Uemoto, Yoshinobu

AU - Sasago, Nanae

AU - Kobayashi, Eiji

AU - Kobayashi, Naohiko

AU - Matsuhashi, Tamako

AU - Maruyama, Shin

AU - Matsumoto, Hirokazu

AU - Sasazaki, Shinji

AU - Mannen, Hideyuki

PY - 2013/10/1

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AB - Fatty acid composition is one of the important traits in beef. The aim of this study was to identify candidate genomic regions for fatty acid composition by genome-wide association study with 50K single nucleotide polymorphism (SNP) array in Japanese Black cattle. A total of 461 individuals and 40657 SNPs were used in this study. We applied genome-wide rapid association using mixed model and regression (GRAMMAR) and genomic control approaches to estimate the associations between genotypes and fatty acid composition. In addition, two SNPs in fatty acid synthase (FASN) (T1952A) and stearoyl-CoA desaturase (SCD) (V293A) genes were also genotyped. Association analysis revealed that 30 significant SNPs for several fatty acids (C14:0, C14:1, C16:1 and C18:1) were located in the BTA19FASN gene located within this region but the FASN mutation had no significant effect on any traits. We also detected one significant SNP for C18:1 on BTA23 and two SNPs for C16:0 on BTA25. The region around 17Mb on BTA26 harbored two significant SNPs for C14:1 and SNP in SCD in this region showed the strongest association with C14:1. This study demonstrated novel candidate regions in BTA19, 23 and 25 for fatty acid composition.

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Genome-wide association study for fatty acid composition in Japanese Black cattle

Abstract

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