Environmental Association Analyses Identify Candidates for Abiotic Stress Tolerance in Glycine soja, the Wild Progenitor of Cultivated Soybeans
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Japan, Korea, China, Russia
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Data was derived from Song Q. et al's 2015 study genotyping SNPs from domesticated and wild soybean accessions
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Environmental Association Analyses Identify Candidates for Abiotic Stress Tolerance in Glycine soja, the Wild Progenitor of Cultivated Soybeans
Published Date
2016-09-26
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Kantar, Michael B
kant0063@umn.edu
kant0063@umn.edu
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Genomics Data
Genomics Data
Abstract
Understanding the genetics basis of adaption is a fundamental goal of biological research. The present study explores an ex situ conservation collection, the USDA germplasm collection, genotyped at 32,416 SNPs, to identify population structure and test for associations with bioclimatic and biophysical variables in Glycine soja, the wild progenitor of Glycine max (soybean). Candidate loci were detected that putatively contribute to adaptation to abiotic stresses.
Description
The sampled accessions in this study are derived from the SNPs genotyped by Song et al. (2015) and catalogued in the USDA soybean germplasm collection (http://soybase.org/snps/index.php). Accessions without latitudinal and longitudinal data were excluded, as were those with greater than 10% of data missing. Additionally, eight accessions from Taiwan and Northern Russia were excluded due to those being geographical outliers. A list of accessions used in the study can be found in the data files below. Environmental association was performed using data from public repositories of global bioclimatic (WorldClim) and biophysical variables (ISRIC), and a list of the variables retrieved per accession can be found in the data files below.
Referenced by
Anderson, J. E., Kono, T. J., Stupar, R. M., Kantar, M. B., & Morrell, P. L. (2016). Environmental association analyses identify candidates for abiotic stress tolerance in Glycine soja, the wild progenitor of cultivated soybeans. G3: Genes, Genomes, Genetics, 6(4), 835-843.
http://dx.doi.org/10.1534/g3.116.026914
Code used to analyze data:
https://github.com/MorrellLAB/Soja_Env_Association
http://dx.doi.org/10.1534/g3.116.026914
Code used to analyze data:
https://github.com/MorrellLAB/Soja_Env_Association
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United Soybean Board
Minnesota Varietal Development Fund
MnDRIVE 2014 Global Food Ventures Fellowship
Minnesota Varietal Development Fund
MnDRIVE 2014 Global Food Ventures Fellowship
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Anderson, J; Kono, Thomas J Y; Stupar, Robert M; Kantar, Michael B; Morrell, Peter L. (2016). Environmental Association Analyses Identify Candidates for Abiotic Stress Tolerance in Glycine soja, the Wild Progenitor of Cultivated Soybeans. Retrieved from the Data Repository for the University of Minnesota (DRUM), http://doi.org/10.13020/D64G6R.
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