Journal Article

Exploration of the genetic diversity of Avena Fatua L. (wild oat) through genotyping-by-sequencing and SDS-PAGE

Seo, Hyemin, Lee, Kyung Jun, Won, Hari, Ha, Bo-Keun, Han, Seahee, Lee, Shin Ae, Jeong, Jun Seong, Jo, Jihoon

2025

Overview

Background The consumption of oats has rapidly increased due to their exceptional nutritional value. However, concerns over genetic erosion have emerged as oat breeding programs rely on a highly limited genetic pool. This study aimed to expand the genetic diversity pool of oats by collecting wild oat ( Avena fatua L.) populations in South Korea and assessing their genetic diversity and seed storage protein patterns. Results A total of 237 A. fatua individuals were collected in 2022 from eight regions in the southwestern coastal areas of South Korea. Genetic diversity and seed storage protein patterns were analyzed using genotyping-by-sequencing (GBS) and sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE). The GBS analysis identified 20,836 single-nucleotide polymorphisms (SNPs). An analysis of molecular variance (AMOVA) based on regional populations revealed that 40.9% of the genetic variation was attributed to differences among populations, while 59.1% was within populations, indicating high genetic differentiation within regional populations. Subsequent population structure analysis and discriminant analysis of principal components (DAPC) both stated the formation of two distinct genetic groups, with an AMOVA value of 70.9% between the groups, suggesting a high level of genetic variation. Pairwise F ST analysis was conducted to compare the genetic differentiation between two populations, revealing that Jindo and Jangheung exhibited the highest level of genetic differentiation ( F ST = 0.795) among the geographic groups. Seed storage proteins were analyzed using SDS-PAGE, and the patterns were grouped using k-means clustering. A comparison between the groups based on protein patterns and those based on genetic variation revealed no significant correlation. Conclusion This study provides data on the genetic diversity of A. fatua , a wild relative of cultivated oats, aimed at expanding the genetic pool of oats for future breeding programs. These findings are expected to be a foundational resource for oat breeding and genetic improvement efforts.

• Publisher: BioMed Central,BioMed Central Ltd,Springer Nature B.V,BMC
• Subject: Agricultural production / Agricultural research / Agriculture / Avena - genetics / Avena Fatua / Biological diversity / Biomedical and Life Sciences / Cluster analysis / Clustering / Coastal zone / Crops / Cultivation / Differentiation / Discriminant analysis / DNA sequencing / DNA, Plant - metabolism / Electrophoresis / Electrophoresis, Polyacrylamide Gel / Environmental conditions / Enzymes / Flowers & plants / GBS / Gel electrophoresis / Genes, Plant / Genetic analysis / Genetic aspects / Genetic diversity / genetic erosion / Genetic improvement / Genetic Variation / Genome, Plant / Genomes / Genotype / Genotyping / genotyping by sequencing / Genotyping Techniques / Germplasm / Grain cultivation / Life Sciences / Methods / Nucleotide sequencing / Nucleotides / Nutritive value / Oats / Plant breeding / Plant Sciences / Polyacrylamide / polyacrylamide gel electrophoresis / Polymorphism / Polymorphism, Single Nucleotide / Population genetics / Population structure / Populations / Proteins / Republic of Korea / SDS-PAGE / seed storage / Seed storage protein / Seed Storage Proteins - genetics / Seeds / Seeds - metabolism / Single nucleotide polymorphisms / Single-nucleotide polymorphism / Sodium dodecyl sulfate / Sodium Dodecyl Sulfate - chemistry / Sodium lauryl sulfate / South Korea / Storage proteins / Structural analysis / Tree Biology / variance / Vector quantization / wild oats / Wild plants, Edible / wild relatives