Development and genetic mapping of microsatellite markers from whole genome shotgun sequences in Brassica oleracea

The availability of whole genome shotgun sequences (WGSs) in Brassica oleracea provides an unprecedented opportunity for development of microsatellite or simple sequence repeat (SSR) markers for genome analysis and genetic improvement in Brassica species. In this study, a total of 56,465 non-redunda...

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Bibliographic Details
Published in:Molecular breeding 2011-12, Vol.28 (4), p.585-596
Main Authors: Li, Haitao, Chen, Xun, Yang, Yuan, Xu, Jinsong, Gu, Jianxun, Fu, Jie, Qian, Xiaoju, Zhang, Shunchang, Wu, Jiangsheng, Liu, Kede
Format: Article
Language:English
Subjects:
agronomic traits
Agronomy
Biomedical and Life Sciences
Biotechnology
Brassica
Brassica oleracea
chromosome mapping
Gene mapping
Gene sequencing
Genetic analysis
Genetic improvement
Genetic markers
genome
Genomes
Genomics
Life Sciences
linkage groups
Mapping
Marker-assisted selection
Markers
microsatellite repeats
Microsatellites
Molecular biology
Nucleotide sequence
Original Paper
Plant biology
Plant Genetics and Genomics
Plant Pathology
Plant Physiology
Plant Sciences
Polymorphism
Rapeseed
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Summary:The availability of whole genome shotgun sequences (WGSs) in Brassica oleracea provides an unprecedented opportunity for development of microsatellite or simple sequence repeat (SSR) markers for genome analysis and genetic improvement in Brassica species. In this study, a total of 56,465 non-redundant SSRs were identified from the WGSs in B. oleracea, with dinucleotide repeats being the most abundant, followed by tri-, tetra- and pentanucleotide repeats. From these, 1,398 new SSR markers (designated as BoGMS) with repeat length ≥25 bp were developed and used to survey polymorphisms with a panel of six rapeseed varieties, which is the largest number of SSR markers developed for the C genome in a single study. Of these SSR markers, 752 (69.5%) showed polymorphism among the six varieties. Of these, 266 markers that showed clear scorable polymorphisms between B. napus varieties No. 2127 and ZY821 were integrated into an existing B. napus genetic linkage map. These new markers are preferentially distributed on the linkage groups in the C genome, and significantly increased the number of SSR markers in the C genome. These SSR markers will be very useful for gene mapping and marker-assisted selection of important agronomic traits in Brassica species.
ISSN:1380-3743
1572-9788
DOI:10.1007/s11032-010-9509-y