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ARS Home Plains Area Lubbock, Texas Cropping Systems Research Laboratory Plant Stress and Germplasm Development Research Research Publications at this Location





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Title:   Author  item
                                            Jiao, Yinpingitem
                                            Burke, Johnitem
                                            Chopra, Ratanitem
                                            Burow, Gloriaitem
                                            Chen, Junpingitem
                                            WANG, BO - Cold Spring Harbor Laboratoryitem
                                            Hayes, Chaditem
                                            Emendack, Yvesitem
                                            Ware, Doreenitem
                                            Xin, Zhanguo
  Submitted to: The Plant Cell
                                    Publication Type: Peer Reviewed Journal
                                    Publication Acceptance Date: 6/23/2016
                                    Publication  Date: 6/27/2016
                                    Citation: Jiao, Y., Burke, J.J., Chopra, R., Burow, G.B., Chen, J., Wang, B., Hayes, C.M., Emendack, Y., Ware, D., Xin, Z. 2016. A sorghum mutant resource as an efficient platform for gene discovery in grasses. The Plant Cell. 28:1551-1562.Interpretive Summary: Sorghum (Sorghum bicolor L. Moench) is a versatile crop that can be used for food, animal feed, and bioenergy. We developed a pedigreed mutant library using ethyl methanesulfonate (EMS) treated seeds of BTx623, the elite inbred line used to generate the reference genome sequence. Conventionally, the EMS-induced mutations are identified by techniques that can detect single-nucleotide mismatches in heteroduplexes of individual PCR amplicons. We applied whole-genome sequencing to 256 phenotyped mutant lines of sorghum to 16x coverage. Comparisons with the reference sequence revealed >1.8 million canonical EMS-induced G/C to A/T mutations, 22% of which were in genic regions, affecting >95% of genes in the sorghum genome. The vast majority (97.5%) of the induced mutations were distinct from natural variations. By applying the mutation database to phenotype analysis, we identified four causal gene mutations affecting drought tolerance, two mutations affecting heat tolerance, and two mutations affecting seed size that corresponded to previously reported seed size QTLs. Our results demonstrate that this collection of sequenced mutant lines can be used to efficiently discover new traits and their underlying causal mutations, thereby accelerating sorghum breeding. The sequenced mutant lines provide an efficient platform for rapid discovery of causal gene mutations underlying traits that have potential to be directly used in sorghum improvement.
                                Technical Abstract: Ethyl methanesulfonate (EMS) efficiently generates high-density mutations in genomes. Conventionally, these mutations are identified by techniques that can detect single-nucleotide mismatches in heteroduplexes of individual PCR amplicons. We applied whole-genome sequencing to 256 phenotyped mutant lines of sorghum (Sorghum bicolor L. Moench) to 16x coverage. Comparisons with the reference sequence revealed >1.8 million canonical EMS-induced G/C to A/T mutations, 22% of which were in genic regions, affecting >95% of genes in the sorghum genome. The vast majority (97.5%) of the induced mutations were distinct from natural variations. By applying the mutation database to phenotype analysis, we identified four causal gene mutations affecting drought tolerance, two mutations affecting heat tolerance, and two mutations affecting seed size that corresponded to previously reported seed size QTLs. Our results demonstrate that this collection of sequenced mutant lines can be used to efficiently discover new traits and their underlying causal mutations, thereby accelerating sorghum breeding.


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