Foxtail Millet Functional SNP Chip Data for 192 Accessions

59 functionally verified SNPs from 30 key genes are integrated into a liquid-phase genotyping chip for foxtail millet. The chip was validated on 192 accessions, achieving a 98.53% average call rate and revealing associations for traits like fertility and seed color. This dataset supports genetic diversity analysis, distinguishing modern cultivars from landraces.

Use Cases

• Analyze genotype-phenotype associations for traits like fertility, leaf color, leaf sheath color, and seed color using the 59 SNP markers.
• Conduct population structure analysis to delineate modern cultivars from landraces and admixed groups among the 192 accessions.
• Validate the high call rate (98.53%) of the GBTS-based genotyping chip across the panel of foxtail millet samples.
• Study the distribution of SNPs from 30 key genes governing agronomic traits like selenium accumulation and stress tolerance.

Strengths

• Validated on a panel of 192 foxtail millet accessions, providing a substantial sample for analysis.
• Integrates 59 functionally verified SNPs from 30 key genes, offering targeted genetic markers.
• Achieved a high average call rate of 98.53%, indicating reliable genotyping data.
• Demonstrated robust genotype-phenotype associations for multiple agronomic traits.

Limitations

• The dataset is small in file size (73.8 KB), suggesting limited scope or a summary dataset rather than raw sequencing reads.
• Contains data from a single validation panel of 192 accessions, which may not capture the full genetic diversity of foxtail millet.
• Specific column names and data structure within the XLSX file are unknown, which may complicate direct analysis.

Provenance

Source

Figshare, authored by Xi Zhang.

Collection Method

Developed using Genotyping by Target Sequencing (GBTS) technology to create a customized liquid-phase functional SNP chip.

Freshness

Last updated March 24, 2026.