Between Dec 19, 2024 and Jan 2, 2025, datasets can be submitted to DRUM but will not be processed until after the break. Staff will not be available to answer email during this period, and will not be able to provide DOIs until after Jan 2. If you are in need of a DOI during this period, consider Dryad or OpenICPSR. Submission responses to the UDC may also be delayed during this time.
 

Environmental Association Analyses Identify Candidates for Abiotic Stress Tolerance in Glycine soja, the Wild Progenitor of Cultivated Soybeans

Anderson, J
Kono, Thomas J Y
Stupar, Robert M
Kantar, Michael B
Morrell, Peter L
2016-09-26
Thumbnail Image

Persistent link to this item

http://doi.org/10.13020/D64G6R
 https://hdl.handle.net/11299/182430
Statistics
View Statistics

Keywords

Collection period

Date completed

Date updated

Time period coverage

Geographic coverage

Japan, Korea, China, Russia

Source information

Data was derived from Song Q. et al's 2015 study genotyping SNPs from domesticated and wild soybean accessions

Journal Title

Journal ISSN

Volume Title

Title

Environmental Association Analyses Identify Candidates for Abiotic Stress Tolerance in Glycine soja, the Wild Progenitor of Cultivated Soybeans

Published Date

2016-09-26

Authors

Group

Author Contact

Kantar, Michael B
kant0063@umn.edu

Type

Dataset
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

Related to

Replaces

item.page.isreplacedby

License

Attribution 3.0 United States
 http://creativecommons.org/licenses/by/3.0/us/

Publisher

Collections

Data Repository for U of M (DRUM)

Funding information

United Soybean Board
Minnesota Varietal Development Fund
MnDRIVE 2014 Global Food Ventures Fellowship

item.page.sponsorshipfunderid

item.page.sponsorshipfundingagency

item.page.sponsorshipgrant

Previously Published Citation

Other identifiers

Suggested citation

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.

View/Download File

File View/Open
Description
Size
soybean_accessions.txt
Data for 533 accessions used in study
(21.83 KB)

bioclimatic_biophysical_variables.txt
Bioclimatic and biophysical data
(171.79 KB)

readme.txt
Description of data
(3.54 KB)

Content distributed via the University Digital Conservancy may be subject to additional license and use restrictions applied by the depositor. By using these files, users agree to the Terms of Use. Materials in the UDC may contain content that is disturbing and/or harmful. For more information, please see our statement on harmful content in digital repositories.