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Exploring the sorghum race level diversity utilizing 272 sorghum accessions genomic resources

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Relation http://oar.icrisat.org/12081/
https://www.frontiersin.org/articles/10.3389/fpls.2023.1143512/full
https://doi.org/10.3389/fpls.2023.1143512
 
Title Exploring the sorghum race level diversity utilizing 272 sorghum accessions genomic resources
 
Creator Ruperao, P
Gandham, P
Odeny, D A
Mayes, S
Selvanayagam, S
Thirunavukkarasu, N
Das, R R
Srikanda, M
Gandhi, H
Habyarimana, E
Manyasa, E
Nebie, B
Deshpande, S P
Rathore, A
 
Subject Sorghum
Genetics and Genomics
 
Description Due to evolutionary divergence, sorghum race populations exhibit significant genetic and morphological variation. A k-mer-based sorghum race sequence comparison identified the conserved k-mers of all 272 accessions from sorghum
and the race-specific genetic signatures identified the gene variability in 10,321 genes (PAVs). To understand sorghum race structure, diversity and domestication, a deep learning-based variant calling approach was employed
in a set of genotypic data derived from a diverse panel of 272 sorghum accessions. The data resulted in 1.7 million high-quality genome-wide SNPs and identified selective signature (both positive and negative) regions through a
genome-wide scan with different (iHS and XP-EHH) statistical methods. We discovered 2,370 genes associated with selection signatures including 179 selective sweep regions distributed over 10 chromosomes. Co-localization of these regions undergoing selective pressure with previously reported QTLs and genes revealed that the signatures of selection could be related to the domestication of important agronomic traits such as biomass and plant height. The developed k-mer signatures will be useful in the future to identify the
sorghum race and for trait and SNP markers for assisting in plant breeding programs.
 
Publisher Frontiers Media
 
Date 2023-03-17
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
Rights cc_attribution
 
Identifier http://oar.icrisat.org/12081/1/Frontiers%20Plant%20Sci..pdf
Ruperao, P and Gandham, P and Odeny, D A and Mayes, S and Selvanayagam, S and Thirunavukkarasu, N and Das, R R and Srikanda, M and Gandhi, H and Habyarimana, E and Manyasa, E and Nebie, B and Deshpande, S P and Rathore, A (2023) Exploring the sorghum race level diversity utilizing 272 sorghum accessions genomic resources. Frontiers in Plant Science, 14. 01-15. ISSN 1664-462X