Rapid Development of Microsatellite Markers for Callosobruchus chinensis Using Illumina Paired-End Sequencing

doi:10.1371/journal.pone.0095458

CORC > 中国农业科学院 > 作物科学研究所

	Rapid Development of Microsatellite Markers for Callosobruchus chinensis Using Illumina Paired-End Sequencing
	Duan, Can-xing; Li, Dan-dan; Sun, Su-li; Wang, Xiao-ming; Zhu, Zhen-dong
刊名	PLOS ONE
	2014
卷号	9 期号:5 页码:-
ISSN号	1932-6203
DOI	10.1371/journal.pone.0095458
通讯作者	Duan, Can-xing
英文摘要	Background: The adzuki bean weevil, Callosobruchus chinensis L., is one of the most destructive pests of stored legume seeds such as mungbean, cowpea, and adzuki bean, which usually cause considerable loss in the quantity and quality of stored seeds during transportation and storage. However, a lack of genetic information of this pest results in a series of genetic questions remain largely unknown, including population genetic structure, kinship, biotype abundance, and so on. Co-dominant microsatellite markers offer a great resolving power to determine these events. Here, we report rapid microsatellite isolation from C. chinensis via high-throughput sequencing.Principal Findings: In this study, 94,560,852 quality-filtered and trimmed reads were obtained for the assembly of genome using Illumina paired-end sequencing technology. In total, the genome with total length of 497,124,785 bp, comprising 403,113 high quality contigs was generated with de novo assembly. More than 6800 SSR loci were detected and a suit of 6303 primer pair sequences were designed and 500 of them were randomly selected for validation. Of these, 196 pair of primers, i.e. 39.2%, produced reproducible amplicons that were polymorphic among 8 C. chinensis genotypes collected from different geographical regions. Twenty out of 196 polymorphic SSR markers were used to analyze the genetic diversity of 18 C. chinensis populations. The results showed the twenty SSR loci were highly polymorphic among these populations.Conclusions: This study presents a first report of genome sequencing and de novo assembly for C. chinensis and demonstrates the feasibility of generating a large scale of sequence information and SSR loci isolation by Illumina paired-end sequencing. Our results provide a valuable resource for C. chinensis research. These novel markers are valuable for future genetic mapping, trait association, genetic structure and kinship among C. chinensis.
学科主题	Multidisciplinary Sciences ; MULTIDISCIPLINARY SCIENCES
语种	英语
出版者	PUBLIC LIBRARY SCIENCE
WOS记录号	WOS:000339614800008
内容类型	期刊论文
源URL	[http://111.203.20.206/handle/2HMLN22E/4886]
专题	作物科学研究所
作者单位	Chinese Acad Agr Sci, Inst Crop Sci, Natl Key Facil Crop Gene Resources & Genet Improv, Beijing 100193, Peoples R China
推荐引用方式 GB/T 7714	Duan, Can-xing,Li, Dan-dan,Sun, Su-li,et al. Rapid Development of Microsatellite Markers for Callosobruchus chinensis Using Illumina Paired-End Sequencing[J]. PLOS ONE,2014,9(5):-.
APA	Duan, Can-xing,Li, Dan-dan,Sun, Su-li,Wang, Xiao-ming,&Zhu, Zhen-dong.(2014).Rapid Development of Microsatellite Markers for Callosobruchus chinensis Using Illumina Paired-End Sequencing.PLOS ONE,9(5),-.
MLA	Duan, Can-xing,et al."Rapid Development of Microsatellite Markers for Callosobruchus chinensis Using Illumina Paired-End Sequencing".PLOS ONE 9.5(2014):-.