Population genetics of Setaria viridis, a new model system

doi:10.1111/mec.12907

	Population genetics of Setaria viridis, a new model system
	Huang, Pu 1; Feldman, Maximilian 1; Schroder, Stephan 2; Bahri, Bochra A.2,3; Diao, Xianmin 4; Zhi, Hui 4; Estep, Matt 5; Baxter, Ivan 6; Devos, Katrien M.2; Kellogg, Elizabeth A.1
刊名	MOLECULAR ECOLOGY
	2014
卷号	23 期号:20 页码:4912-4925
关键词	genotyping-by-sequencing model system Phylogeography Setaria viridis
ISSN号	0962-1083
DOI	10.1111/mec.12907
通讯作者	Huang, Pu
英文摘要	An extensive survey of the standing genetic variation in natural populations is among the priority steps in developing a species into a model system. In recent years, green foxtail (Setariaviridis), along with its domesticated form foxtail millet (S.italica), has rapidly become a promising new model system for C-4 grasses and bioenergy crops, due to its rapid life cycle, large amount of seed production and small diploid genome, among other characters. However, remarkably little is known about the genetic diversity in natural populations of this species. In this study, we survey the genetic diversity of a worldwide sample of more than 200 S.viridis accessions, using the genotyping-by-sequencing technique. Two distinct genetic groups in S.viridis and a third group resembling S.italica were identified, with considerable admixture among the three groups. We find the genetic variation of North American S.viridis correlates with both geography and climate and is representative of the total genetic diversity in this species. This pattern may reflect several introduction/dispersal events of S.viridis into North America. We also modelled demographic history and show signal of recent population decline in one subgroup. Finally, we show linkage disequilibrium decay is rapid (<45kb) in our total sample and slow in genetic subgroups. These results together provide an in-depth understanding of the pattern of genetic diversity of this new model species on a broad geographic scale. They also provide key guidelines for on-going and future work including germplasm preservation, local adaptation, crossing designs and genomewide association studies.
学科主题	Biochemistry & Molecular Biology ; Ecology ; Evolutionary Biology
语种	英语
出版者	WILEY-BLACKWELL
WOS记录号	WOS:000343869100002
内容类型	期刊论文
源URL	[http://111.203.20.206/handle/2HMLN22E/4834]
专题	作物科学研究所_种质资源保存与研究中心
作者单位	1.Donald Danforth Plant Sci Ctr, St Louis, MO 63132 USA 2.Univ Georgia, Inst Plant Breeding Genet & Genom, Dept Crop & Soil Sci, Dept Plant Biol, Athens, GA 30602 USA 3.Natl Agron Inst Tunis, Dept Plant Protect & Postharvest Dis, Tunis 1082, Tunisia 4.Chinese Acad Agr Sci, Inst Crop Sci, Beijing 100081, Peoples R China 5.Appalachian State Univ, Dept Biol, Boone, NC 28608 USA 6.ARS, Plant Genet Res Unit, USDA, Donald Danforth Plant Sci Ctr, St Louis, MO 63132 USA
推荐引用方式 GB/T 7714	Huang, Pu,Feldman, Maximilian,Schroder, Stephan,et al. Population genetics of Setaria viridis, a new model system[J]. MOLECULAR ECOLOGY,2014,23(20):4912-4925.
APA	Huang, Pu.,Feldman, Maximilian.,Schroder, Stephan.,Bahri, Bochra A..,Diao, Xianmin.,...&Kellogg, Elizabeth A..(2014).Population genetics of Setaria viridis, a new model system.MOLECULAR ECOLOGY,23(20),4912-4925.
MLA	Huang, Pu,et al."Population genetics of Setaria viridis, a new model system".MOLECULAR ECOLOGY 23.20(2014):4912-4925.