玉山黑猪两种头型遗传机制的初步解析

doi:10.11843/j.issn.0366-6964.2018.08.003

畜牧兽医学报 ›› 2018, Vol. 49 ›› Issue (8): 1585-1593.doi: 10.11843/j.issn.0366-6964.2018.08.003

玉山黑猪两种头型遗传机制的初步解析

王成斌¹, 王小鹏¹, 郑小明², 陈浩¹, 张俊杰¹, 郭源梅¹, 丁能水^1*

1. 江西农业大学省部共建猪遗传改良与养殖技术国家重点实验室, 南昌 330045;
2. 国家级玉江猪(玉山黑猪)保种场, 玉山 334700

收稿日期:2017-11-14 出版日期:2018-08-23 发布日期:2018-08-23
通讯作者: 丁能水,研究员,E-mail:dingyd2005@hotmail.com
作者简介:王成斌(1990-),男,吉林安图人,博士生,主要从事动物遗传育种研究,Tel:0791-83813080,E-mail:cbwangjxau@outlook.com;王小鹏(1989-),男,湖北荆门人,博士生,主要从事动物遗传育种研究,Tel:0791-83813080,E-mail:xiaopengwang2017@hotmail.com。
基金资助:
江西省生猪产业技术体系（JXARS-01）

A Study of the Genetic Mechanisms for Two Head Types in Yushan Black Pigs

WANG Cheng-bin¹, WANG Xiao-peng¹, ZHENG Xiao-ming², CHEN Hao¹, ZHANG Jun-jie¹, GUO Yuan-mei¹, DING Neng-shui^1*

1. State Key Laboratory of Pig Genetic Improvement and Production Technology, Jiangxi Agricultural University, Nanchang 330045, China;
2. National Conservation Farm of Yushan Black Pigs, Yushan 334700, China

Received:2017-11-14 Online:2018-08-23 Published:2018-08-23

摘要/Abstract

摘要：

旨在检测"马脸"型和"狮子头"型玉山黑猪在基因组上的遗传分化信号，结合全基因组关联分析（GWAS），鉴别影响玉山黑猪两种头型的候选基因并探寻其可能的形成机理。本研究选取玉山黑猪国家保种场的24头"马脸"型个体和12头"狮子头"型个体，利用Illumina猪60K SNP芯片对这些个体进行扫描和基因分型。基于60K SNP芯片数据，检测"马脸"型和"狮子头"型两个类群间的遗传分化系数（Fst）。同时，进行病例-对照的GWAS分析和连锁不平衡（LD）分析，根据Fst、GWAS和LD分析结果确定重要候选基因。结果表明，两个群体间最强的遗传分化信号位于猪10号染色体，GWAS同样在该区域检测到显著的关联位点。LD及单倍型分析将置信区间锁定在该染色体11.76~12.05 Mb的一段290 kb的区域。本研究基于猪60K芯片数据，通过遗传分化分析、全基因组关联分析和连锁不平衡分析等手段，初步推测RAB3GAP2和IASR2为影响玉山黑猪头型的候选基因，该结果为进一步解析中国地方猪不同头型的形成机制奠定了基础。

Abstract:

The aim of this study was to identify candidate genes affecting the two head types(long-pointed head and short head) in Yushan Black pigs through conducting a genome-wide association study(GWAS) and a genome-wide scan for the selection signatures. Twenty-four pigs with long-pointed head and 12 pigs with short head were selected from the national conservation farm of Yushan Black pigs and were genotyped using Porcine SNP 60K BeadChips. The Fst value of each SNP was calculated to detect signatures of genetic differentiation between the two groups of pigs. Meanwhile, case-control GWAS and linkage disequilibrium(LD) analysis were performed to define confidence intervals and candidate genes based on Fst. The results showed that the most significant signature of genetic differentiation was located on Sus Scrofa chromosome(SSC) 10, and a genome-wide significant locus within the same region was also detected by GWAS. The most likely interval of this locus was defined by the LD block analysis, about 290 kb (from 11.76 to 12.05 Mb) on SSC10. By applying genetic differentiation analysis, genome-wide association study and linkage disequilibrium (LD) analysis, we speculated that candidate genes for head types were RAB3GAP2 and IASR2 in Yushan Black pigs. The findings will contribute to reveal the genetic basis of phenotypic changes in head types in Chinese indigenous pigs.

中图分类号:

S828.2

王成斌, 王小鹏, 郑小明, 陈浩, 张俊杰, 郭源梅, 丁能水. 玉山黑猪两种头型遗传机制的初步解析[J]. 畜牧兽医学报, 2018, 49(8): 1585-1593.

WANG Cheng-bin, WANG Xiao-peng, ZHENG Xiao-ming, CHEN Hao, ZHANG Jun-jie, GUO Yuan-mei, DING Neng-shui. A Study of the Genetic Mechanisms for Two Head Types in Yushan Black Pigs[J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, 2018, 49(8): 1585-1593.

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玉山黑猪两种头型遗传机制的初步解析

A Study of the Genetic Mechanisms for Two Head Types in Yushan Black Pigs

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