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Whole‑genome resequencing of Sorghum bicolor and S. bicolor × S. halepense lines provides new insights for improving plant agroecological characteristics

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Relation http://oar.icrisat.org/12178/
https://www.nature.com/articles/s41598-022-09433-0
https://doi.org/10.1038/s41598-022-09433-0
 
Title Whole‑genome resequencing of Sorghum bicolor and S. bicolor × S. halepense lines provides new insights for improving plant
agroecological characteristics
 
Creator Habyarimana, E
Gorthy, S
Baloch, F S
Ercisli, S
Chung, G
 
Subject Semi-Arid Tropics
Sorghum
Genetics and Genomics
 
Description Sorghum (Sorghum bicolor L. (Moench)) is the world’s fifth economically most important cereal and is a staple particularly in the semi-arid tropics of Africa and Asia. Genetic gains in this crop can benefit from wild relatives such as Sorghum halepense. Genome sequences including those from this wild species can boost the study of genome-wide and intraspecific variation for dissecting the genetic basis and improving important traits in sorghum. The whole-genome resequencing carried out in this work on a panel of 172 populations of S. bicolor and S. bicolor × S. halepense (SbxSh) advanced lines generated a total of 567,046,841 SNPs, 91,825,474 indels, 1,532,171 SVs, and 4,973,961 CNVs. Clearly, SbxSh accumulated more variants and mutations with powerful effects on genetic differentiation. A total of 5,548 genes private to SbxSh mapped to biological process GO enrichment terms; 34 of these genes mapped to root system development (GO: 0022622). Two of the root specific genes i.e., ROOT PRIMORDIUM DEFECTIVE 1 (RPD1; GeneID: 8054879) and RETARDED ROOT GROWTH (RRG, GeneID: 8072111), were found to exert direct effect on root growth and development. This is the first report on whole-genome resequencing of a sorghum panel that includes S. halepense genome. Mining the
private variants and genes of this wild species can provide insights capable of boosting sorghum genetic improvement, particularly the perenniality trait that is compliant with agroecological practices, sustainable agriculture, and climate change resilience.
 
Publisher Nature Publishing Group
 
Date 2022-04-01
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
Rights cc_attribution
 
Identifier http://oar.icrisat.org/12178/1/Scientific%20Reports_12_01-14_2022.pdf
Habyarimana, E and Gorthy, S and Baloch, F S and Ercisli, S and Chung, G (2022) Whole‑genome resequencing of Sorghum bicolor and S. bicolor × S. halepense lines provides new insights for improving plant agroecological characteristics. Scientific Reports (TSI), 12. 01-14. ISSN 2045-2322