浙江农业学报 ›› 2022, Vol. 34 ›› Issue (1): 17-23.DOI: 10.3969/j.issn.1004-1524.2022.01.03

• 动物科学 • 上一篇    下一篇

CAST基因多态性与生物信息学分析

许金根1(), 靳二辉1, 王重龙2, 顾有方1,*(), 李庆岗2,*()   

  1. 1.安徽科技学院 动物科学学院,动物营养调控与健康安徽省重点实验室,安徽 凤阳 233100
    2.安徽省农业科学院 畜牧兽医研究所,安徽 合肥 230031
  • 收稿日期:2020-10-02 出版日期:2022-01-25 发布日期:2022-02-05
  • 通讯作者: 顾有方,李庆岗
  • 作者简介:李庆岗,E-mail: LQG3375@163.com
    * 顾有方,E-mail: youfanggu@163.com;
    许金根(1984—),男,安徽肥西人,博士,副教授,主要从事动物遗传育种研究。E-mail: xujingen123@163.com
  • 基金资助:
    安徽省科技攻关项目(1704a07020093);安徽省科技重大专项(17030701008)

Polymorphism and bioinformatics analysis of pig CAST gene

XU Jingen1(), JIN Erhui1, WANG Chonglong2, GU Youfang1,*(), LI Qinggang2,*()   

  1. 1. College of Animal Science, Anhui Science and Technology University, Anhui Province Key Laboratory of Animal Nutritional Regulation and Health, Fengyang 233100, Anhui, China
    2. Institute of Animal Sciences and Veterinary Medicine, Anhui Academy of Agricultural Sciences, Hefei 230031, China
  • Received:2020-10-02 Online:2022-01-25 Published:2022-02-05
  • Contact: GU Youfang,LI Qinggang

摘要:

本研究旨在检测巴克夏猪、霍寿黑猪及其杂交F1CAST基因多态性,并利用生物信息学分析碱基变异对mRNA二级结构以及CAST Ⅲ型蛋白的影响。结果表明,巴克夏猪、霍寿黑猪、巴克夏猪×霍寿黑猪都存在AA、AC和CC基因型,等位基因A的频率都高于等位基因C。该突变在3个猪群中均处于Hardy-Weinberg平衡状态(P>0.05),呈中度多态(0.25<PIC<0.5)。生物信息学预测结果显示,c.1980A>C使猪CAST基因mRNA序列的二级结构发生一定变化,并且最小自由能增大。p.Arg660Ser导致猪CAST Ⅲ型蛋白的部分理化性质略有改变,包括分子式、分子量、等电点、不稳定系数、总平均亲水性、正电荷(Arg和Lys)数等。p.Arg660Ser突变未改变猪CAST Ⅲ型蛋白的二级结构,突变前后都是无规卷曲和α-螺旋占的比例较高。p.Arg660Ser突变不位于猪CAST Ⅲ型蛋白的保守结构域上,但可导致催化相邻位p.663Ser磷酸化的蛋白激酶数减少。综上,c.1980A>C突变可能对猪CAST基因的转录效率和功能产生一定影响。

关键词: 猪, CAST基因, 多态性, 生物信息学分析

Abstract:

The aim of this study was to detect the CAST gene polymorphism of Berkshire pig, Huoshou black pig and their hybrid F1 generation, and to analyze the effect of base variation on the mRNA secondary structure and CAST type Ⅲ protein by bioinformatics. The results showed that there were AA, AC and CC genotypes in Berkshire pig, Huoshou black pig and Berkshire × Huoshou black pig, and the frequency of allele A was higher than that of allele C. The mutation was in Hardy-Weinberg equilibrium in all three pig populations (P>0.05), and with moderate polymorphism (0.25<PIC<0.5). Bioinformatics prediction showed that c. 1980A>C slightly changed the secondary structure of porcine CAST gene mRNA sequence, and increased the minimum free energy. The p. Arg660Ser mutation resulted in a slight change in some physicochemical properties of the porcine CAST type Ⅲ protein, including molecular formula, molecular weight, isoelectric point, instability index, grand average of hydropathicity, positively charged residues (Arg and Lys) number. The secondary structure of porcine CAST type Ⅲ protein was not changed by the missense mutation, and the proportion of random coil and α-helix were higher before and after mutation. The p. Arg660Ser mutation was not located in the conserved domain of the porcine CAST type Ⅲ protein, but could lead to a decrease in the number of protein kinases that catalyzed the phosphorylation of adjacent p. 663Ser. In summary, the c.1980A>C mutation might have a certain impact on the transcription efficiency and function of the pig CAST gene.

Key words: pig, CAST gene, polymorphism, bioinformatics analysis

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