title: Molecular diversity and population structure of Chinese green foxtail [Setaria viridis (L.) Beauv.] revealed by microsatellite analysis.
abstract: Green foxtail (Setaria viridis) is a new model plant for the genomic investigation of C4 photosynthesis biology. As the ancestor of foxtail millet (Setaria italica), an ancient cereal of great importance in arid regions of the world, green foxtail is crucial for the study of domestication and evolution of this ancient crop. In the present study, 288 green foxtail accessions, which were collected from all geographical regions of China, were analysed using 77 simple sequence repeats (SSRs) that cover the whole genome. A high degree of molecular diversity was detected in these accessions, with an average of 33.5 alleles per locus. Two clusters, which were inconsistent with the distribution of eco-geographical regions in China, were inferred from STRUCTURE, Neighbor-Joining, and principal component analysis, indicating a partially mixed distribution of Chinese green foxtails. The higher subpopulation diversity was from accessions mainly collected from North China. A low level of linkage disequilibrium was observed in the green foxtail genome. Furthermore, a combined analysis of green foxtail and foxtail millet landraces was conducted, and the origin and domestication of foxtail millet was inferred in North China.
authors: National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI), Institute of Crop Science, the Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, China.
authors: Guanqing
authors: G
authors: Jia
authors: Shenkui
authors: S
authors: Shi
authors: Chunfang
authors: C
authors: Wang
authors: Zhengang
authors: Z
authors: Niu
authors: Yang
authors: Y
authors: Chai
authors: Hui
authors: H
authors: Zhi
authors: Xianmin
authors: X
authors: Diao
mesh_terms: D000483:Alleles; D002681:China; D016000:Cluster Analysis; D003198:Computer Simulation; D017343:Genes, Plant; D005838:Genotype; D015810:Linkage Disequilibrium; D018895:Microsatellite Repeats; D008957:Models, Genetic; D016133:Polymerase Chain Reaction; D011110:Polymorphism, Genetic; D032983:Setaria Plant / Q000235:genetics*
keywords: Genetic diversity; Setaria viridis.; germplasm; green foxtail
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