TY - JOUR
T1 - A genome resource for green millet Setaria viridis enables discovery of agronomically valuable loci
AU - Mamidi, Sujan
AU - Healey, Adam
AU - Huang, Pu
AU - Grimwood, Jane
AU - Jenkins, Jerry
AU - Barry, Kerrie
AU - Sreedasyam, Avinash
AU - Shu, Shengqiang
AU - Lovell, John T.
AU - Feldman, Maximilian
AU - Wu, Jinxia
AU - Yu, Yunqing
AU - Chen, Cindy
AU - Johnson, Jenifer
AU - Sakakibara, Hitoshi
AU - Kiba, Takatoshi
AU - Sakurai, Tetsuya
AU - Tavares, Rachel
AU - Nusinow, Dmitri A.
AU - Baxter, Ivan
AU - Schmutz, Jeremy
AU - Brutnell, Thomas P.
AU - Kellogg, Elizabeth A.
N1 - Publisher Copyright:
© 2020, The Author(s).
PY - 2020/10/1
Y1 - 2020/10/1
N2 - Wild and weedy relatives of domesticated crops harbor genetic variants that can advance agricultural biotechnology. Here we provide a genome resource for the wild plant green millet (Setaria viridis), a model species for studies of C4 grasses, and use the resource to probe domestication genes in the close crop relative foxtail millet (Setaria italica). We produced a platinum-quality genome assembly of S. viridis and de novo assemblies for 598 wild accessions and exploited these assemblies to identify loci underlying three traits: response to climate, a ‘loss of shattering’ trait that permits mechanical harvest and leaf angle, a predictor of yield in many grass crops. With CRISPR–Cas9 genome editing, we validated Less Shattering1 (SvLes1) as a gene whose product controls seed shattering. In S. italica, this gene was rendered nonfunctional by a retrotransposon insertion in the domesticated loss-of-shattering allele SiLes1-TE (transposable element). This resource will enhance the utility of S. viridis for dissection of complex traits and biotechnological improvement of panicoid crops.
AB - Wild and weedy relatives of domesticated crops harbor genetic variants that can advance agricultural biotechnology. Here we provide a genome resource for the wild plant green millet (Setaria viridis), a model species for studies of C4 grasses, and use the resource to probe domestication genes in the close crop relative foxtail millet (Setaria italica). We produced a platinum-quality genome assembly of S. viridis and de novo assemblies for 598 wild accessions and exploited these assemblies to identify loci underlying three traits: response to climate, a ‘loss of shattering’ trait that permits mechanical harvest and leaf angle, a predictor of yield in many grass crops. With CRISPR–Cas9 genome editing, we validated Less Shattering1 (SvLes1) as a gene whose product controls seed shattering. In S. italica, this gene was rendered nonfunctional by a retrotransposon insertion in the domesticated loss-of-shattering allele SiLes1-TE (transposable element). This resource will enhance the utility of S. viridis for dissection of complex traits and biotechnological improvement of panicoid crops.
UR - http://www.scopus.com/inward/record.url?scp=85091997313&partnerID=8YFLogxK
U2 - 10.1038/s41587-020-0681-2
DO - 10.1038/s41587-020-0681-2
M3 - Article
C2 - 33020633
AN - SCOPUS:85091997313
SN - 1087-0156
VL - 38
SP - 1203
EP - 1210
JO - Nature Biotechnology
JF - Nature Biotechnology
IS - 10
ER -