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A genome‑wide association and meta‑analysis: Cowpea seed size phenotypes

Metadata Updated: June 8, 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

Dates

Metadata Created Date January 29, 2023
Metadata Updated Date June 8, 2024

Metadata Source

Harvested from USAID JSON

Additional Metadata

Resource Type Dataset
Metadata Created Date January 29, 2023
Metadata Updated Date June 8, 2024
Publisher data.usaid.gov
Maintainer
Identifier https://data.usaid.gov/api/views/3eun-sngv
Data First Published 2020-09-04
Data Last Modified 2024-06-07
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 be07851b-334e-41c1-9c7f-8e42651a9fb8
Harvest Source Id 0aeddf52-9cb0-4ab6-bc1f-b53172fe5348
Harvest Source Title USAID JSON
Homepage URL https://data.usaid.gov/d/3eun-sngv
Program Code 184:029
Related Documents https://data.usaid.gov/api/views/5j5e-uum9/files/5a74883d-2fd2-494b-b92e-7bdc7eac9cc4
Source Datajson Identifier True
Source Hash 8ab7aea239a7c5a871565b6394067c93ad577deda76a7f5bbcca111cb37adb6b
Source Schema Version 1.1

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