2款猪液相芯片性能比较分析
Comparative Analysis of the Performance of Two Pig Liquid Chips
王俊戈 1崔晟頔 1陈子旸 1申琦 1余杨 1陈栋 1赵真坚 1王书杰 1吴平先 1郭宗义 1王金勇 1唐国庆1
作者信息
- 1. 四川农业大学动物科技学院,猪禽种业全国重点实验室,农业农村部畜禽生物组学重点实验室,畜禽遗传资源发掘与创新利用四川省重点实验室,四川 成都 610000
- 折叠
摘要
目的:比较30K液相芯片和50K液相芯片的性能.方法:该研究收集共322头纯种大白猪和杜洛克猪的生长性能测定记录,使用30K液相芯片和50K液相芯片对其中177头进行基因组分型,用358头大白猪、长白猪和杜洛克猪的重测序数据作为填充参考群体进行填充,分析2款芯片的填充效果,利用2款芯片的原始和填充数据对日增重、日采食量和饲料转化率进行全基因组关联分析,并对比3个性状的GWAS结果.结果:30K液相芯片的参考填充准确率高于50K液相芯片,50K液相芯片的自填充GWAS分析结果优于30K液相芯片,而参考填充GWAS分析效果,50K液相芯片发现位点较多,但整体情况30K液相芯片较好.结论:30K液相芯片在分析过程中具有整体上的优势.
Abstract
Objective:This study aimed to compare the performance of the 30K liquid chip and the 50K liquid chip.Method:A total of 322 purebred Duroc and Landrace pigs were collected and their growth performance records were obtained.Among them,177 pigs were genotyped using the 30K liquid chip and the 50K liquid chip.The sequencing data of 358 Duroc,Large White,and Landrace pigs were used as reference populations for imputation.The imputation effects of the two chips were analyzed,and the whole-genome association analysis was performed on daily weight gain,daily feed intake,and feed conversion ratio using the original and imputed data from the two chips.The GWAS results of the three traits were compared.Results:The reference-imputation accuracy of the 30K liquid chip was higher than that of the 50K liquid chip.The self-imputation GWAS analysis results of the 50K liquid chip were better than those of the 30K liquid chip.However,in terms of reference-imputation GWAS analysis,the 50K liquid chip discovered more markers,but overall,the 30K liquid chip performed better.Conclusion:The 30K liquid chip has overall advantages in the analysis process.
关键词
猪/液相芯片/基因型填充/基因组关联分析Key words
pig/liquid chip/genotype imputation/genome association analysis引用本文复制引用
基金项目
国家生猪技术创新中心先导科技项目(NCTIP-XD/B01)
四川省科技厅项目(2020YFN0024)
四川省科技厅项目(2021ZDZX0008)
四川省科技厅项目(2021YFYZ0030)
四川省猪创新团队(sccxtd-2022-08)
出版年
2024
国家科技期刊平台
NSTL
维普
万方数据