Genetic Mutation Analysis of High and Low IgY Chickens by Capture Sequencing
Genetic Mutation Analysis of High and Low IgY Chickens by Capture Sequencing
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DOI：
10.3390/ani9050272
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发表时间：
2019-05-01
期刊：
影响因子：
3
通讯作者：
Zhao, Guiping
中科院分区：
文献类型：
--
作者：
Wang, Qiao;Wang, Fei;Zhao, Guiping
本研究在前期全基因组关联研究（GWAS）的基础上，采用捕获测序法对高IgY水平和低IgY水平的白色来亨鸡和北京油鸡的单核苷酸多态性（SNPs）进行了分析。高、低IgY鸡表现出明显的遗传变异。在所有四个鸡群中总共发现了超过30，000个SNP，其中1045个是导致氨基酸改变的非同义突变。总共鉴定了23，309个Indel。在仅在京油鸡中发现的1169个Indel中，与参考基因组相比，高IgY鸡和低IgY鸡之间共有702个Indel。共检测到1016个白色来航鸡特异性Indel，其中188个为高IgY特异性Indel，134个为低IgY特异性Indel，694个为高IgY和低IgY鸡株共有的Indel。许多基因突变位于重要免疫调节基因的调控区，包括TAP 1、TAP 2和BF 1。我们的研究结果提供了对鸡微染色体遗传突变的深入了解。
Based on the results of our previous genome-wide association study (GWAS), a comprehensive analysis on single nucleotide polymorphisms (SNPs) was performed on White Leghorn and Beijing-You chickens with high and low IgY levels in defined genomic regions using the capture-sequencing approach. High and low IgY chickens showed substantial genetic variations. In total, more than 30,000 SNPs were found in all four chicken groups, among which 1045 were non-synonymous mutations resulting in amino acids alterations. In total, 23,309 Indels were identified. Among the 1169 Indels that were found only in Beijing-You chickens, 702 were shared between high and low IgY chickens compared with the reference genome. There were 1016 Indels specific to the White Leghorn chickens, among which 188 were high IgY-specific, 134 were low IgY-specific and 694 were shared between the high and low IgY chicken lines. Many genetic mutations were located in the regulatory regions of important immunomodulatory genes, including TAP1, TAP2 and BF1. Our findings provide an in-depth understanding of genetic mutations in chicken microchromosomes.