Construction of a core collection and SNP fingerprinting database for Chinese chive (<i>Allium tuberosum</i>) through Hyper-seq based population genetic analysis.

ABSTRACT: Chinese chive (Allium tuberosum Rottler ex Sprengel), an autotetraploid vegetable cultivated in Asia for over 3,000 years, possesses apomictic characteristics. However, issues like intricate genetic admixture and unclear phylogenetic relationships pose challenges for effective germplasm preservation and breeding advancements. In this research, we systematically assessed population structure, constructed a core collection, and developed a DNA fingerprinting system utilizing Hyper-seq sequencing data. Our Hyper-seq-based genotyping revealed 291,547 single nucleotide polymorphisms (SNPs) and 116,223 insertions/deletions (InDels). Population genetic analysis indicated that the 100 A. tuberosum accessions can be categorized into two distinct genetic subgroups. These subgroups part

SUBMITTER: Zhang H 

PROVIDER: S-EPMC12307429 | biostudies-literature | 2025

REPOSITORIES: biostudies-literature