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A genome‑wide association and meta‑analysis: Genome-wide association study (GWAS) results

Metadata Updated: June 25, 2024

Seed size is an important trait for yield and commercial value in dry-grain cowpea. Seed size varies widely among different cowpea accessions, and the genetic basis of such variation is not yet well understood. To better decipher the genetic basis of seed size, a genome-wide association study (GWAS) and meta-analysis were conducted on a panel of 368 cowpea diverse accessions from 51 countries. Four traits, including seed weight, length, width and density were evaluated across three locations. Using 51,128 single nucleotide polymorphisms covering the cowpea genome, 17 loci were identified for these traits. One locus was common to weight, width and length, suggesting pleiotropy. By integrating synteny-based analysis with common bean, six candidate genes (Vigun05g036000, Vigun05g039600, Vigun05g204200, Vigun08g217000, Vigun11g187000, and Vigun11g191300) which are implicated in multiple functional categories related to seed size such as endosperm development, embryo development, and cell elongation were identified. These results suggest that a combination of GWAS meta-analysis with synteny comparison in a related plant is an efficient approach to identify candidate gene (s) for complex traits in cowpea. The identified loci and candidate genes provide useful information for improving cowpea varieties and for molecular investigation of seed size.

Access & Use Information

Public: This dataset is intended for public access and use. License: No license information was provided. If this work was prepared by an officer or employee of the United States government as part of that person's official duties it is considered a U.S. Government Work.

Downloads & Resources

References

https://data.usaid.gov/api/views/5j5e-uum9/files/5a74883d-2fd2-494b-b92e-7bdc7eac9cc4
https://data.usaid.gov/api/views/wmek-4p42/files/13eaaa99-91bc-4494-bc49-af6477acbbad

Dates

Metadata Created Date January 28, 2023
Metadata Updated Date June 25, 2024

Metadata Source

Harvested from USAID JSON

Additional Metadata

Resource Type Dataset
Metadata Created Date January 28, 2023
Metadata Updated Date June 25, 2024
Publisher data.usaid.gov
Maintainer
Identifier https://data.usaid.gov/api/views/wmek-4p42
Data First Published 2020-09-04
Data Last Modified 2024-06-25
Category Agriculture
Public Access Level public
Bureau Code 184:15
Metadata Context https://project-open-data.cio.gov/v1.1/schema/catalog.jsonld
Metadata Catalog ID https://data.usaid.gov/data.json
Schema Version https://project-open-data.cio.gov/v1.1/schema
Catalog Describedby https://project-open-data.cio.gov/v1.1/schema/catalog.json
Harvest Object Id 34246ad8-7169-47b6-8861-ec07a058c4ae
Harvest Source Id 0aeddf52-9cb0-4ab6-bc1f-b53172fe5348
Harvest Source Title USAID JSON
Homepage URL https://data.usaid.gov/d/wmek-4p42
Program Code 184:029
Related Documents https://data.usaid.gov/api/views/5j5e-uum9/files/5a74883d-2fd2-494b-b92e-7bdc7eac9cc4, https://data.usaid.gov/api/views/wmek-4p42/files/13eaaa99-91bc-4494-bc49-af6477acbbad
Source Datajson Identifier True
Source Hash d7a579eed5d203c6858c5b1de8268d7d2dfd45203e0b65cc837161ed813a793e
Source Schema Version 1.1

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