Population genetics of Setaria viridis, a new model system

• DOI: 10.1111/mec.12907
• Publication Date: 2014-09-04T21:58:29Z
• Authors: Pu Huang; Maximilian Feldman; Stephan Schroder; Bochra A. Bahri; Xianmin Diao; Hui Zhi; Matt Estep; Ivan Baxter; Katrien M. Devos; Elizabeth A. Kellogg
• Keywords: Setaria viridis; Foxtail; Population Genetics; Demographic history; Population bottleneck

An extensive survey of the standing genetic variation in natural populations is among priority steps developing a species into model system. In recent years, green foxtail (Setaria viridis), along with its domesticated form millet (S. italica), has rapidly become promising new system for C4 grasses and bioenergy crops, due to rapid life cycle, large amount seed production small diploid genome, other characters. However, remarkably little known about diversity this species. study, we worldwide sample more than 200 S. viridis accessions, using genotyping-by-sequencing technique. Two distinct groups third group resembling italica were identified, considerable admixture three groups. We find North American correlates both geography climate representative total This pattern may reflect several introduction/dispersal events America. also modelled demographic history show signal population decline one subgroup. Finally, linkage disequilibrium decay (<45 kb) our slow subgroups. These results together provide an in-depth understanding on broad geographic scale. They key guidelines on-going future work including germplasm preservation, local adaptation, crossing designs genomewide association studies.