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Population genomic and genome-wide association studies of agroclimatic traits in sorghum

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Relation http://oar.icrisat.org/6357/
http://dx.doi.org/10.1073/pnas.1215985110
10.1073/pnas.1215985110
 
Title Population genomic and genome-wide association studies of agroclimatic traits in sorghum
 
Creator Morris, G P
Ramu, P
Desphande, S
Hash, C T
Shah, T
Upadhyaya, H D
Riera-Lizarazu, O
Brown, P J
Acharjee, C B
Mitchell, S E
Harriman, J
Glaubitz, J C
Buckler, E S
Kresovich, S
 
Subject Sorghum
 
Description Accelerating crop improvement in sorghum, a staple food for people in semiarid regions across the developing world, is key to ensuring global food security in the context of climate change. To facilitate gene discovery and molecular breeding in sorghum, we have characterized ∼265,000 single nucleotide polymorphisms (SNPs) in 971 worldwide accessions that have adapted to diverse agroclimatic conditions. Using this genome-wide SNPmap,we have characterized population structure with respect to geographic origin and morphological type and identified patterns of ancient crop diffusion to diverse agroclimatic regions across Africa and Asia. To better understand the genomic patterns of diversification in sorghum, we quantified variation in nucleotide diversity, linkage disequilibrium, and
recombination rates across the genome. Analyzing nucleotide diversity in landraces, we find evidence of selective sweeps around starch metabolism genes, whereas in landrace-derived introgression lines, we find introgressions around known height and maturity loci. To identify additional loci underlying variation in major agroclimatic traits, we performed genome-wide association studies (GWAS) on
plant height components and inflorescence architecture. GWAS maps several classical loci for plant height, candidate genes for inflorescence architecture. Finally, we trace the independent spread of multiple haplotypes carrying alleles for short stature or long inflorescence branches. This genome-wide map of SNP variation in sorghum provides
a basis for crop improvement through marker-assisted breeding and genomic selection.
 
Publisher National Academy of Sciences
 
Date 2013
 
Type Article
PeerReviewed
 
Format application/pdf
application/pdf
 
Language en
en
 
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Identifier http://oar.icrisat.org/6357/1/Sorghum_BREAD_manuscript_2nd_draft.pdf
http://oar.icrisat.org/6357/7/PNAS_110_02_453-458_2013.pdf
Morris, G P and Ramu, P and Desphande, S and Hash, C T and Shah, T and Upadhyaya, H D and Riera-Lizarazu, O and Brown, P J and Acharjee, C B and Mitchell, S E and Harriman, J and Glaubitz, J C and Buckler, E S and Kresovich, S (2013) Population genomic and genome-wide association studies of agroclimatic traits in sorghum. Proceedings of the National Academy of Sciences, 110 (2). pp. 453-458. ISSN 1091-6490