运用四种线性模型对京海黄鸡上市体重进行全基因组关联分析

doi:10.11843/j.issn.0366-6964.2014.07.004

畜牧兽医学报 ›› 2014, Vol. 45 ›› Issue (7): 1053-1059.doi: 10.11843/j.issn.0366-6964.2014.07.004

运用四种线性模型对京海黄鸡上市体重进行全基因组关联分析

樊庆灿¹，王金玉^1*，张跟喜¹，唐莹¹，张涛¹，顾玉萍²，施会强²

（1.扬州大学动物科技学院，扬州 225009； 2.江苏京海禽业集团有限公司，南通 226103）

收稿日期:2014-01-25 出版日期:2014-07-23 发布日期:2014-07-23
通讯作者: 王金玉，教授，主要从事动物遗传育种研究，Tel：0514-87979075，E-mail：jywang@yzu.edu.cn
作者简介:樊庆灿(1986-)，男，山东菏泽人，博士生，主要从事动物遗传育种与繁殖研究，E-mail：378728593@qq.com
基金资助:
国家肉鸡产业技术体系（nycytx-42-G1-05）；江苏省研究生创新工程（CXLX12_0930）；江苏省高校自然科学基金（12KJB230003）

A Genome-wide Association Study of Market Weight Using Four Statistic Models in Jinghai Yellow Chicken

FAN Qing-can¹，WANG Jin-yu^1*，ZHANG Gen-xi¹，TANG Ying¹，ZHANG Tao¹，GU Yu-ping²，SHI Hui-qiang²

(1.College of Animal Science and Technology，Yangzhou University，Yangzhou 225009，China；2.Jiangsu Jinghai Poultry Industry Group CD.，LTD.，Nantong 226103，China)

Received:2014-01-25 Online:2014-07-23 Published:2014-07-23

摘要/Abstract

摘要：

旨在使用4种模型对京海黄鸡的16周龄体重进行全基因组关联分析（GWAS）。试验以京海黄鸡母鸡为试验材料，通过60KSNP芯片分型，并使用2种线性回归模型和广义线性模型（GLM）、混合线性模型（MLM）4种模型对基因型数据和京海黄鸡16周龄体重进行关联分析。结果表明，虽然4种模型识别出的显著SNPs（P<0.05）数目不同，但各有优缺点。此外，本研究共识别20个与京海黄鸡上市体重关联显著的SNPs（P<0.05）。这些SNPs主要分布于1、4、19、25和Z染色体上，其中，1号染色体50.6～53.6 Mb和Z染色体33.6～44.8 Mb区域是显著SNPs（P<0.05）分布较为集中的区域。另外还有部分显著SNPs（P<0.05）位于之前报道的影响鸡生长性状的QTL内。最后，本研究还找到了17个候选基因，同时还探讨了FAM184B、NCAPG和NLK的功能，所有的这些结果将促进鸡生长性状标记的研究。

Abstract:

The aim of this study was to conduct a genome-wide association study (GWAS) using four statistic models to identify the single nucleotide polymorphisms (SNP) associated with 16-week-old body weight of Jinghai Yellow chicken.60KSNP chips and four statistic models was applied to analyze the associations between different genotypes and body weight at the age of 16 weeks (BW16).The four models included two line regression models，generalized linear model (GLM) and mixed liner model (MLM).The result showed that although the numbers of significant SNPs (P<0.05) identified by the four models were different，each of them had its merits.Therefore，different models should be selected for different purpose in practice.Twenty significant SNPs (P<0.05) affecting on BW16 were identified.They located on chromosome 1，4，19，25 and Z，respectively.And the regions of 50.6-53.6 Mb on chromosome 1 and 33.6-44.8 Mb on chromosome Z were the concentrated areas containing more significant SNPs.Moreover，some of the significant SNPs (P<0.05) located in the quantitative trait loci (QTLs) in previous papers reported.Finally，17 candidate genes were identified and the functions of FAM184B，NCAPG and NLK were discussed.All these present results would benefit the researches of chicken molecular markers.

中图分类号:

S831.2

樊庆灿，王金玉，张跟喜，唐莹，张涛，顾玉萍，施会强. 运用四种线性模型对京海黄鸡上市体重进行全基因组关联分析[J]. 畜牧兽医学报, 2014, 45(7): 1053-1059.

FAN Qing-can，WANG Jin-yu，ZHANG Gen-xi，TANG Ying，ZHANG Tao，GU Yu-ping，SHI Hui-qiang. A Genome-wide Association Study of Market Weight Using Four Statistic Models in Jinghai Yellow Chicken[J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, 2014, 45(7): 1053-1059.

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运用四种线性模型对京海黄鸡上市体重进行全基因组关联分析

A Genome-wide Association Study of Market Weight Using Four Statistic Models in Jinghai Yellow Chicken

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