Spinach Bolting GWAS and Genomic Prediction with 295 USDA Accessions

A 2026 study by Hanan Alkabkabi identified genomic regions associated with bolting in spinach. The dataset contains results from a genome-wide association study (GWAS) and genomic prediction analysis on a panel of 295 United States Department of Agriculture (USDA) accessions, using 16,563 high-quality SNPs. It reports seven significant loci, a major-effect locus on chromosome 6 explaining 21.18% of phenotypic variance, and genomic prediction accuracy.

Use Cases

• Identifying candidate genes for bolting based on GWAS-identified loci like SOV6g004520 and SOV6g004560.
• Assessing genomic prediction accuracy for molecular breeding using the reported rrBLUP model results.
• Analyzing the genetic architecture of a complex trait based on the bimodal distribution of bolting phenotypes in the panel.

Strengths

• The GWAS analysis identified a major-effect locus on chromosome 6 with a lead SNP explaining 21.18% of phenotypic variance.
• The study used a multi-model GWAS approach on a panel of 295 USDA accessions, providing a robust genetic resource.
• Genomic prediction analysis indicated a peak accuracy of r ≈ 0.39, with a subset of six SNPs achieving equivalent accuracy to the whole-genome panel.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment for certain analyses.
• The dataset is very small at 48.1 KB, indicating it contains summary results rather than raw genomic data.

Provenance

Source

figshare, author Hanan Alkabkabi.

Collection Method

Whole-genome resequencing and multi-model GWAS on a panel of USDA spinach accessions.

Time Range

Study published in 2026.

Freshness

Last updated 2026-04-20 05:22:50.

Geography

United States Department of Agriculture (USDA) accessions; specific geographic origin not detailed.