Bibliographic Details
| Title: |
Development of highly polymorphic simple sequence repeat markers using genome-wide microsatellite variant analysis in Foxtail millet [Setaria italica (L.) P. Beauv.]. |
| Authors: |
Shuo Zhang1 zhangxiyue_leo@foxmail.com, Chanjuan Tang1 1406044224@qq.com, Qiang Zhao2 zqiang@ncgr.ac.cn, Jing Li1,3 jingli522638@163.com, Lifang Yang1 yanglifang1223@126.com, Lufeng Qie1,3 qielufeng@126.com, Xingke Fan1,3 xingkefan@126.com, Lin Li1,3 lliiin_010@163.com, Ning Zhang4 zhangning7156@gmail.com, Meicheng Zhao1 zmc.1983@163.com, Xiaotong Liu1 xiaotong_liu@aliyun.com, Yang Chai1 caasmillet@sina.cn, Xue Zhang1,3 zhangxue19881017@qq.com, Hailong Wang1,3 whldyhm@sina.com, Yingtao Li1,3 lyt814362@126.com, Wen Li1,5 liwen880705@126.com, Hui Zhi1 zhihui@caas.cn, Guanqing Jia1 jiaguanqing@caas.cn, Xianmin Diao1,3 diaoxianmin@caas.cn |
| Source: |
BMC Genomics. 2014, Vol. 15 Issue 1, p1-22. 22p. 2 Diagrams, 2 Charts, 3 Graphs. |
| Subject Terms: |
*FOXTAIL millet, *CROP genetics, *CROPS, *DROUGHT tolerance, *PHOTOSYNTHESIS, *ALLELES in plants |
| Abstract: |
Background Foxtail millet (Setaria italica (L.) Beauv.) is an important gramineous grain-food and forage crop. It is grown worldwide for human and livestock consumption. Its small genome and diploid nature have led to foxtail millet fast becoming a novel model for investigating plant architecture, drought tolerance and C4 photosynthesis of grain and bioenergy crops. Therefore, cost-effective, reliable and highly polymorphic molecular markers covering the entire genome are required for diversity, mapping and functional genomics studies in this model species. Result A total of 5,020 highly repetitive microsatellite motifs were isolated from the released genome of the genotype 'Yugu1' by sequence scanning. Based on sequence comparison between S. italica and S. viridis, a set of 788 SSR primer pairs were designed. Of these primers, 733 produced reproducible amplicons and were polymorphic among 28 Setaria genotypes selected from diverse geographical locations. The number of alleles detected by these SSR markers ranged from 2 to 16, with an average polymorphism information content of 0.67. The result obtained by neighbor-joining cluster analysis of 28 Setaria genotypes, based on Nei's genetic distance of the SSR data, showed that these SSR markers are highly polymorphic and effective. Conclusions A large set of highly polymorphic SSR markers were successfully and efficiently developed based on genomic sequence comparison between different genotypes of the genus Setaria. The large number of new SSR markers and their placement on the physical map represent a valuable resource for studying diversity, constructing genetic maps, functional gene mapping, QTL exploration and molecular breeding in foxtail millet and its closely related species. [ABSTRACT FROM AUTHOR] |
|
Copyright of BMC Genomics is the property of BioMed Central and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.) |
| Database: |
Academic Search Complete |
