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Anim Biosci > Accepted Articles
https://doi.org/10.5713/ab.21.0577    [Accepted] Published online June 24, 2022.
Genome-wide association analysis of nine reproduction and morphological traits in three goat breeds from Southern China
Xiaoyan Sun1  , Jing Jiang1  , Gaofu Wang1,2  , Peng Zhou1,2  , Jie Li1,2  , Cancan Chen1,2  , Liangjia Liu1,2  , Nianfu Li3  , Yuanyou Xia3  , Hangxing Ren1,2,* 
1Chongqing Academy of Animal Sciences, Chongqing, 402460, China
2Chongqing Engineering Research Center for Goats, Chongqing, 402460, China
3Youyang County Livestock Industry Development Center, Chongqing, 409800, China
Correspondence:  Hangxing Ren,Email: rhxe@163.com
Received: 29 December 2021   • Revised: 31 March 2022   • Accepted: 18 May 2022
Abstract
Objective
This study aimed in investigating the significant SNPs and genes associated with nine reproduction and morphological traits in three breed populations of Chinese goats.
Methods
The genome-wide association of nine reproduction and morphological traits (litter size, nipple number, wattle, skin color, coat color, black dorsal line, beard, beard length, and hind leg hair) were analyzed in three Chinese native goat breeds(n = 336) using an Illumina GoatSNP54K Beadchip.
Results
A total of 17 genome-wide or chromosome-wide significant SNPs associated with one reproduction trait (litter size) and six morphological traits (wattle, coat color, black dorsal line, beard, beard length, and hind leg hair) were identified in three Chinese native goat breeds, and the candidate genes were annotated. The significant SNPs and corresponding putative candidate genes for each trait are as follows: two SNPs located on chromosomes 6 (CSN3) and 24 (TCF4) for litter size trait; two SNPs located on chromosome 9 (KATNA1) and 1 (UBASH3A) for wattle trait; three SNPs located on chromosome 26 (SORCS3 ), 24 (DYM) and 20 (PDE4D) for coat color trait; two SNPs located on chromosome 18 (TCF25) and 15 (CLMP) for black dorsal line trait; four SNPs located on chromosome 8, 2 (PAX3), 5 (PIK3C2G) and 28 (PLA2G12B and OIT3) for beard trait; one SNP located on chromosome 18 (KCNG4) for beard length trait; three SNPs located on chromosome 17 (GLRB and GRIA2), 28 (PGBD5) and 4 for hind leg hair trait. In contrast, there were no SNPs identified for nipple number and skin color.

Conclusion

The significant SNPs or genes identified in this study provided novel insights into the genetic mechanism underlying important reproduction and morphological traits of three local goat breeds in Southern China as well as further potential applications for breeding goats in the future.
Keywords: Genome-wide Association Study; Goat; Reproduction Traits; Morphological Traits


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