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Data from: Development of a versatile resource from 1500 diverse genomes for post-genomics research

This data set contains 32 million annotated SNPs having an average SNP density of 30 SNPs per kb and 12 non-synonymous SNPs per gene model. These SNPs were identified from a genetically diverse, worldwide, collection of soybean germplasm representing wild, landrace, and improved cultivars. A combination of new and publicly available re-sequencing data was used in this analysis. The accession genotypes and their annotations are described in the manuscript titled: "Analysis and characterization of 1500 diverse genome sequences as a versatile resource for post-genomics research".

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FieldValue
Tags
soybean
SNPs
genomics
linkage disequilibrium
whole genome resequencing
genetic diversity
GRIN
np301
Modified
2022-06-03
Release Date
2020-08-03
Identifier
dcf591c7-bff4-45c5-ac9f-70bc11f9db30
Spatial / Geographical Coverage Area
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Publisher
Ag Data Commons
Spatial / Geographical Coverage Location
This data set derives from a genetically diverse, worldwide, collection of soybean accessions.
Temporal Coverage
June 9, 2014 to August 21, 2018
License
U.S. Public Domain
Data Dictionary

https://data.nal.usda.gov/dataset/data-analysis-and-characterization-150...
Contact Name
An, Yong-Qiang (Charles)
Contact Email
yong-qiang.an@usda.gov
Public Access Level
Public
Program Code
005:040 - Department of Agriculture - National Research
Bureau Code
005:18 - Agricultural Research Service
Extended Metadata: 
FieldValue
Authors
An, Yong-Qiang (Charles) (ORCID)
Zhang, Hengyou (ORCID)
Meyer, Rick J. (ORCID)
Peer Reviewed
No
Intended Use
This data set maybe used to explore the genetic diversity found within soybean germplasm and to look directly at points of annotation within any given gene model
Use Limitations
SNP calls and annotations are based on the soybean reference genome (G. max cv. Williams 82.a2 v1) from Phytozome v10
Funding Sources
Agricultural Research Service
5070-21000-042-00-D
United Soybean Board
USB #2020-162-0202
Bayer CropScience
Appl. No: 2019-01-058
Primary Article

Zhang, H., Jiang, H., Hu, Z., Song, Q., & An, Y.- qiang C. (2022). Development of a versatile resource for post-genomic research through consolidating and characterizing 1500 diverse wild and cultivated soybean genomes. BMC Genomics, 23(1). https://doi.org/10.1186/s12864-022-08326-w
Related Articles
Dataset DOI (digital object identifier)
10.15482/USDA.ADC/1519167
Product Type
Dataset
FieldValue
OSTI Identifier
ISO Topic(s)
biota
economy
farming
National Agricultural Library Thesaurus Term
nucleotide sequences
single nucleotide polymorphism
genes
models
soybeans
germplasm
landraces
cultivars
genotype
Ag Data Commons Keywords
  • Genomics & Genetics

Suggested Citations:

(original article) Zhang, H., Jiang, H., Hu, Z., Song, Q., & An, Y.- qiang C. (2022). Development of a versatile resource for post-genomic research through consolidating and characterizing 1500 diverse wild and cultivated soybean genomes. BMC Genomics, 23(1). https://doi.org/10.1186/s12864-022-08326-w

(dataset) An, Yong-Qiang (Charles); Zhang, Hengyou; Meyer, Rick J. (2020). Data from: Development of a versatile resource from 1500 diverse genomes for post-genomics research. Ag Data Commons. https://doi.org/10.15482/USDA.ADC/1519167. Accessed 2023-06-08.