Genetic polymorphism association analysis of SNPs on the species conservation genes of Tan sheep and Hu sheep

Hehua Eer,Xiulan Xie,Lina Ma,Yingkang Li,Xiaoming Ma,Caijuan Yue,Jifeng Ma,Xiaojun Liang,Qing Ma,Wei Ding

doi:10.1007/s11250-019-02063-1

Hehua Eer, Xiulan Xie + Show 8 more

Open Access

https://doi.org/10.1007/s11250-019-02063-1

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Abstract

For further understanding the genetic control mechanisms of growth and development in Tan sheep, and culturing good traits on meat performance, which is very important to both in developing local species and improving economic efficaciously. In our study, we recruited a total of 250 Tan sheep and 174 healthy Hu sheep to detect 32 SNPs in GH, GHR, NPY, Leptin, H-FABP, MSTN, and CAST by using direct sequencing techniques, in order to explore genetic marking loci which were an association with growth characters. From the results, we found different SNPs with an obvious difference for the growth traits. In the different genetic model analysis, we found SNP12, SNP29, SNP41, SNP8, SNP34, SNP35, SNP9, SNP10, SNP36, SNP45, and SNP39 were a significantly negative association with the two kinds of sheep. And SNP46, SNP42, and SNP69 with the positive association between the different trait in sheep were analyzed. From the LD and haplotype analysis, we found three blocks with the positive association in growth traits between Tan sheep and Hu sheep. The block of SNP29, SNP32, SNP34, SNP35, SNP36, SNP39, SNP41, SNP42, SNP45, and SNP46 with the genotype “AATCTACTTA” is the most significantly association with the traits. In summary, the study initially explored the genes for growth and reproduction between Tan sheep and Hu sheep and found some statistically significant results which demonstrate that there are genetic differences. These differential molecular markers may provide a scientific theoretical basis for the preferred species of Tan sheep which with good meat performance and better utilization of species resources.

Highlights

As an important part of the animal husbandry industry, the sheep industry produces raw materials for the wool spinning industry, and provides people with delicious lamb
Under the allele genetic model through the χ2 test, we found the SNP12 (OR = 0.56, p = 0.000096), SNP29 (OR = 0.55, p = 0.000076), SNP41 (OR = 0.57, p = 0.0047), SNP8 (OR = 0.199, p = 2.3 × 10−8), SNP34 (OR = 0.54, p = 0.000057), SNP35 (OR = 0.53, p = 0.000039), SNP9 (OR = 0.194, p = 1.172 × 10−8), SNP10 (OR = 0.47, p = 0.000011), SNP36(OR = 0.53, p = 0.000039), SNP45 (OR = 0.54, p = 0.000057), and SNP39 (OR = 0.55, p = 0.000076) were significantly negatively correlated with growth trait differences between the two kinds of sheep
After the χ2 test in other methods such as codominant, dominant, and recessive, we further analyzed the differences between the two kinds of sheep and found SNP12, SNP29, SNP34, SNP35, SNP9, SNP10, SNP36, SNP45, SNP39, and SNP69 as significant association with the characters of the two groups (Table 2)

Summary

Introduction

As an important part of the animal husbandry industry, the sheep industry produces raw materials for the wool spinning industry, and provides people with delicious lamb. The character of Tan sheep suede is a combination of light, thin, soft, warm, beautiful, and pleasing (Xu et al 2011) which listed as one of the “Five Treasures” in Ningxia. As a unique product of Ningxia, Tan sheep is the result of the unique ecological environment in Ningxia (Xu et al 2015) and listed as the secondtier protected animal by Chinese government (Tao et al 2017). Grassland in Ningxia is characterized by drought, sparse rain, and low grass production.

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