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Genome-Wide Association Study to Identify Marker-Trait Associations for Seed Color in Colored Wheat ( L.). | LitMetric

Genome-Wide Association Study to Identify Marker-Trait Associations for Seed Color in Colored Wheat ( L.).

Int J Mol Sci

Department of Plant Resources, College of Industrial Sciences, Kongju National University, 54 Daehak-ro, Yesan-eup 32439, Republic of Korea.

Published: March 2024

AI Article Synopsis

  • This study analyzed phenotypic traits related to seed color in a wheat population derived from 155 F plants, showing strong correlations among various seed color traits.
  • Genotyping revealed 3969 high-quality SNP markers, which were used to identify 11 significant marker-trait associations (MTAs) on chromosomes 2A, 2B, and 4B linked to seed coloration traits.
  • Gene expression analysis identified 16 genes with significant expression changes during seed development, providing insights into the molecular mechanisms behind seed color and suggesting areas for further research.

Article Abstract

This study conducted phenotypic evaluations on a wheat F population derived from 155 F plants. Traits related to seed color, including chlorophyll a, chlorophyll b, carotenoid, anthocyanin, *, *, and *, were assessed, revealing highly significant correlations among various traits. Genotyping using 81,587 SNP markers resulted in 3969 high-quality markers, revealing a genome-wide distribution with varying densities across chromosomes. A genome-wide association study using fixed and random model circulating probability unification (FarmCPU) and Bayesian-information and linkage-disequilibrium iteratively nested keyway (BLINK) identified 11 significant marker-trait associations (MTAs) associated with *, *, and *, and chromosomal distribution patterns revealed predominant locations on chromosomes 2A, 2B, and 4B. A comprehensive annotation uncovered 69 genes within the genomic vicinity of each MTA, providing potential functional insights. Gene expression analysis during seed development identified greater than 2-fold increases or decreases in expression in colored wheat for 16 of 69 genes. Among these, eight genes, including transcription factors and genes related to flavonoid and ubiquitination pathways, exhibited distinct expression patterns during seed development, providing further approaches for exploring seed coloration. This comprehensive exploration expands our understanding of the genetic basis of seed color and paves the way for informed discussions on the molecular intricacies contributing to this phenotypic trait.

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Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC11011601PMC
http://dx.doi.org/10.3390/ijms25073600DOI Listing

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