Highly efficient genotyping of rice biparental populations by GoldenGate   assays based on parental resequencing

doi:10.1007/s00122-013-2218-2

CORC > 北京大学 > 生命科学学院

	Highly efficient genotyping of rice biparental populations by GoldenGate assays based on parental resequencing
	Chen, Wei ; Chen, Haodong ; Zheng, Tianqing ; Yu, Renbo ; Terzaghi, William Bryan ; Li, Zhikang ; Deng, Xing Wang ; Xu, Jianlong ; He, Hang
刊名	theoretical and applied genetics
	2014
关键词	ORYZA-SATIVA L. RANDOM INTROGRESSION LINES SEGREGATION DISTORTION GENOMIC REDUCTION AGRONOMIC TRAITS CULTIVATED RICE SNP DISCOVERY POLYMORPHISM MARKERS SET
DOI	10.1007/s00122-013-2218-2
英文摘要	Key message A new time- and cost-effective strategy was developed for medium-density SNP genotyping of rice biparental populations, using GoldenGate assays based on parental resequencing. Since the advent of molecular markers, crop researchers and breeders have dedicated huge amounts of effort to detecting quantitative trait loci (QTL) in biparental populations for genetic analysis and marker-assisted selection (MAS). In this study, we developed a new time- and cost-effective strategy for genotyping a population of progeny from a rice cross using medium-density single nucleotide polymorphisms (SNPs). Using this strategy, 728,362 "high quality" SNPs were identified by resequencing Teqing and Lemont, the parents of the population. We selected 384 informative SNPs that were evenly distributed across the genome for genotyping the biparental population using the Illumina GoldenGate assay. 335 (87.2 %) validated SNPs were used for further genetic analyses. After removing segregation distortion markers, 321 SNPs were used for linkage map construction and QTL mapping. This strategy generated SNP markers distributed more evenly across the genome than previous SSR assays. Taking the GW5 gene that controls grain shape as an example, our strategy provided higher accuracy (0.8 Mb) and significance (LOD 5.5 and 10.1) in QTL mapping than SSR analysis. Our study thus provides a rapid and efficient strategy for genetic studies and QTL mapping using SNP genotyping assays.; http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000330723900004&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=8e1609b174ce4e31116a60747a720701 ; Agronomy; Plant Sciences; Genetics & Heredity; Horticulture; SCI(E); EI; PubMed; 2; ARTICLE; xujlcaas@126.com; hehang@pku.edu.cn; 2; 297-307; 127
语种	英语
内容类型	期刊论文
源URL	[http://ir.pku.edu.cn/handle/20.500.11897/162461]
专题	生命科学学院
推荐引用方式 GB/T 7714	Chen, Wei,Chen, Haodong,Zheng, Tianqing,et al. Highly efficient genotyping of rice biparental populations by GoldenGate assays based on parental resequencing[J]. theoretical and applied genetics,2014.
APA	Chen, Wei.,Chen, Haodong.,Zheng, Tianqing.,Yu, Renbo.,Terzaghi, William Bryan.,...&He, Hang.(2014).Highly efficient genotyping of rice biparental populations by GoldenGate assays based on parental resequencing.theoretical and applied genetics.
MLA	Chen, Wei,et al."Highly efficient genotyping of rice biparental populations by GoldenGate assays based on parental resequencing".theoretical and applied genetics (2014).