家驴40K液相芯片开发及其初步应用  

Development and Preliminary Application of Domestic Donkey 40K Liquid Chip

作　　者：李聪 刘书琴 高峰 苏江天 王朝飞 拓少华 孙玉江[2] 党瑞华[1] LI Cong;LIU Shuqin;GAO Feng;SU Jiangtian;WANG Zhaofei;TUO Shaohua;SUN Yujiang;DANG Ruihua(College of Animal Science and Technology,Northwest A&F University,Yangling 712100,China;College of Animal Science and Technology,Qingdao Agricultural University,Qingdao 266109,China;Science and Technology Bureau of Ansai District,Yan’an 717400,China)

机构地区：[1]西北农林科技大学动物科技学院,杨凌712100 [2]青岛农业大学动物科技学院,青岛266109 [3]延安市安塞区科学技术局,延安717400

出　　处：《畜牧兽医学报》2024年第12期5538-5548,共11页ACTA VETERINARIA ET ZOOTECHNICA SINICA

基　　金：山东省农业重大应用技术创新项目(SD2019XM008);山东省现代农业产业技术体系驴创新团队建设专项基金(SDAIT-27);中央引导地方项目(K3030922098);陕西省创新能力支持计划项目(2018XY-021);陕西省科技厅“科学家+工程师”项目(2020)。

摘　　要：为加快我国家驴的分子选育进展,本研究收集国内外27个驴品种,共251头成年驴的全基因组重测序数据,结合国内外家驴重要性状遗传变异研究结果,设计了一款基于靶向测序基因型检测技术的家驴40K液相芯片。结果表明,家驴40K液相芯片中的变异位点(45893个SNPs和1个InDel)在家驴基因组范围内的平均间距为61.8 kb。利用该芯片对210头成年德州驴母驴进行基因分型测试,所有测试样本的位点检出率为98.4%~99.2%,位点平均测序深度为133×,共有42575个位点的次等位基因频率大于0.35。使用芯片对20张驴皮样本进行了品种鉴定,初步验证了芯片的可用性。综上,本研究开发的家驴40K液相芯片作为首款大规模家驴基因型检测工具,具有位点密度高、多态性好、检出率高、应用性强等优势,可用于家驴早期的分子标记辅助选择、品种鉴定等方面,进一步提高家驴的育种效率。To accelerate the progress of molecular breeding of Chinese donkeys,this study collected whole genome resequencing data from 251 adult donkeys across 27 donkey breeds and combined it with the results of genetic variation research on important traits of domestic donkeys at home and abroad,designed a 40K liquid chip based on targeted sequencing genotype detection technology for domestic donkeys.The results showed that the variation sites(45893 SNPs and 1 InDel)in the 40K liquid chip of the domestic donkey were distributed within the domestic donkey genome,with an average spacing of 61.8 kb.Genotyping test was performed on 210 adult Dezhou female donkeys,achieving a detection rate of 98.4%-99.2%across all samples.The average sequencing depth of the loci was 133×,and 42575 loci had minor allele frequency greater than 0.35.The chip was used for breed identification in 20 donkey-hide samples and preliminarily verified its usability.In summary,the 40K liquid chip developed in this study,the first large-scale genotype detection tool for domestic donkeys,has the advantages of high loci density,good polymorphism,high detection rate,and strong application.It can be used for early molecular marker-assisted selection and breed identification of domestic donkeys,further improving the breeding effic iency.

关 键 词：家驴 靶向测序基因型检测 液相芯片 育种 

分 类 号：S822.2[农业科学—畜牧学]