A High-Density SNP Genotyping Array for Rice Biology and Molecular   Breeding

doi:10.1093/mp/sst135

CORC > 北京大学 > 生命科学学院

	A High-Density SNP Genotyping Array for Rice Biology and Molecular Breeding
	Chen, Haodong ; Xie, Weibo ; He, Hang ; Yu, Huihui ; Chen, Wei ; Li, Jing ; Yu, Renbo ; Yao, Yue ; Zhang, Wenhui ; He, Yuqing ; Tang, Xiaoyan ; Zhou, Fasong ; Deng, Xing Wang ; Zhang, Qifa
刊名	分子植物
	2014
关键词	single nucleotide polymorphisms (SNPs) array rice molecular breeding GENOME-WIDE ASSOCIATION ORYZA-SATIVA L. SINGLE-NUCLEOTIDE POLYMORPHISMS VARIATION REVEALS GENETIC-ANALYSIS DRAFT SEQUENCE SEEDLING STAGE POPULATION PLATFORM YIELD
DOI	10.1093/mp/sst135
英文摘要	A high-density single nucleotide polymorphism (SNP) array is critically important for geneticists and molecular breeders. With the accumulation of huge amounts of genomic re-sequencing data and available technologies for accurate SNP detection, it is possible to design high-density and high-quality rice SNP arrays. Here we report the development of a high-density rice SNP array and its utility. SNP probes were designed by screening more than 10 000 000 SNP loci extracted from the re-sequencing data of 801 rice varieties and an array named RiceSNP50 was produced on the Illumina Infinium platform. The array contained 51 478 evenly distributed markers, 68% of which were within genic regions. Several hundred rice plants with parent/F1 relationships were used to generate a high-quality cluster file for accurate SNP calling. Application tests showed that this array had high genotyping accuracy, and could be used for different objectives. For example, a core collection of elite rice varieties was clustered with fine resolution. Genome-wide association studies (GWAS) analysis correctly identified a characterized QTL. Further, this array was successfully used for variety verification and trait introgression. As an accurate high-throughput genotyping tool, RiceSNP50 will play an important role in both functional genomics studies and molecular breeding.; Biochemistry & Molecular Biology; Plant Sciences; SCI(E); PubMed; 中国科技核心期刊(ISTIC); 中国科学引文数据库(CSCD); 10; ARTICLE; txy@frontier-ag.com; zhoufasong@sinochem.com; xingwang.deng@yale.edu; qifazh@mail.hzau.edu.cn; 3; 541-553; 7
语种	英语
内容类型	期刊论文
源URL	[http://ir.pku.edu.cn/handle/20.500.11897/162468]
专题	生命科学学院
推荐引用方式 GB/T 7714	Chen, Haodong,Xie, Weibo,He, Hang,et al. A High-Density SNP Genotyping Array for Rice Biology and Molecular Breeding[J]. 分子植物,2014.
APA	Chen, Haodong.,Xie, Weibo.,He, Hang.,Yu, Huihui.,Chen, Wei.,...&Zhang, Qifa.(2014).A High-Density SNP Genotyping Array for Rice Biology and Molecular Breeding.分子植物.
MLA	Chen, Haodong,et al."A High-Density SNP Genotyping Array for Rice Biology and Molecular Breeding".分子植物 (2014).