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.
%0 Journal Article
%1 lasky2015genomeenvironment
%A Lasky, Jesse R.
%A Upadhyaya, Hari D.
%A Ramu, Punna
%A Deshpande, Santosh
%A Hash, C. Tom
%A Bonnette, Jason
%A Juenger, Thomas E.
%A Hyma, Katie
%A Acharya, Charlotte
%A Mitchell, Sharon E.
%A Buckler, Edward S.
%A Brenton, Zachary
%A Kresovich, Stephen
%A Morris, Geoffrey P.
%D 2015
%I American Association for the Advancement of Science
%J Science Advances
%K GWAS environmental_variation genome_scan isolation_by_adaptation local_adaptation sorghum
%N 6
%R 10.1126/sciadv.1400218
%T Genome-environment associations in sorghum landraces predict adaptive traits
%V 1
%X 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.
@article{lasky2015genomeenvironment,
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.},
added-at = {2015-12-31T06:49:05.000+0100},
author = {Lasky, Jesse R. and Upadhyaya, Hari D. and Ramu, Punna and Deshpande, Santosh and Hash, C. Tom and Bonnette, Jason and Juenger, Thomas E. and Hyma, Katie and Acharya, Charlotte and Mitchell, Sharon E. and Buckler, Edward S. and Brenton, Zachary and Kresovich, Stephen and Morris, Geoffrey P.},
biburl = {https://www.bibsonomy.org/bibtex/28377f3b102517ddd7afd2472ef315311/peter.ralph},
doi = {10.1126/sciadv.1400218},
interhash = {d47b784773d4906e39b36db6c84b215b},
intrahash = {8377f3b102517ddd7afd2472ef315311},
journal = {Science Advances},
keywords = {GWAS environmental_variation genome_scan isolation_by_adaptation local_adaptation sorghum},
number = 6,
publisher = {American Association for the Advancement of Science},
timestamp = {2015-12-31T06:49:05.000+0100},
title = {Genome-environment associations in sorghum landraces predict adaptive traits},
volume = 1,
year = 2015
}