Genome-environment associations in sorghum landraces predict adaptive traits

Lasky, J R and Upadhyaya, H D and Ramu, P and Deshpande, S and Hash, C T and Bonnette, J and Juenger, T E and Hyma, K and Acharya, C and Mitchell, S E and Buckler, E S and Brenton, Z and Kresovich, S and Morris, G P (2015) Genome-environment associations in sorghum landraces predict adaptive traits. Science Advances, 1 (6). pp. 1-13. ISSN 2375-2548

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Abstract

Improving environmental adaptation in crops is essential for food security under global change, but phenotyping adaptive traits remains a major bottleneck. If associations between single-nucleotide polymorphism (SNP) alleles and environment of origin in crop landraces reflect adaptation, then these could be used to predict phenotypic variation for adaptive traits. We tested this proposition in the global food crop Sorghum bicolor, characterizing 1943 georeferenced landraces at 404,627 SNPs and quantifying allelic associations with bioclimatic and soil gradients. Environment explained a substantial portion of SNP variation, independent of geographical distance, and genic SNPs were enriched for environmental associations. Further, environment-associated SNPs predicted genotype-by-environment interactions under experimental drought stress and aluminum toxicity. Our results suggest that genomic signatures of environmental adaptation may be useful for crop improvement, enhancing germplasm identification and marker-assisted selection. Together, genome-environment associations and phenotypic analyses may reveal the basis of environmental adaptation.

Item Type: Article
Divisions: RP-Dryland Cereals
CRP: CGIAR Research Program on Dryland Cereals
Uncontrolled Keywords: Plant breeding; Plasticity; Quantitative trait loci; Genotyping-by-sequencing; Domestication; Genomic selection; Water stress; Local adaptation; Genome scan; Climate
Subjects: Mandate crops > Sorghum
Depositing User: Mr Ramesh K
Date Deposited: 09 Jul 2015 08:57
Last Modified: 07 Nov 2016 05:20
URI: http://oar.icrisat.org/id/eprint/8845
Official URL: http://dx.doi.org/10.1126/sciadv.1400218
Projects: UNSPECIFIED
Funders: UNSPECIFIED
Acknowledgement: UNSPECIFIED
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