Genome-wide association study reveals candidate loci for resistance to anthracnose in blueberry

Abstract

Anthracnose, caused by Colletotrichum gloeosporioides, poses a significant threat to blueberries, necessitating a deeper understanding of the genetic mechanisms underlying resistance to develop efficient breeding strategies. Here, we conducted a genome-wide association study on 355 advanced selections of southern highbush blueberry from the University of Florida Blueberry Breeding and Genomics Program. Visual scores and image analyses were used for assessing disease severity. The population was genotyped using Capture-Seq, detecting 38,379 single nucleotide polymorphisms. The study revealed a moderate narrow-sense heritability estimate (∼0.5) for anthracnose resistance in blueberries. Minor additive loci contributing to anthracnose resistance were identified on chromosomes 2, 3, 5, 6, 9, 10, and 12, using 2 different phenotyping approaches. Visual and image-based phenotyping captured complementary aspects of anthracnose resistance, identifying distinct, non-overlapping SNP associations. Candidate gene mining flanking significant associations unveiled key defense-related proteins, such as serine/threonine protein kinases, pentatricopeptide repeat-containing proteins, E3 ubiquitin ligases that have been well-known for their roles in plant defense signaling pathways. Our findings highlight the complex and quantitative resistance mechanism for anthracnose in blueberry, providing insights for breeding strategies and sustainable disease management.

Code and data availability

The article describes image-based and visual anthracnose phenotyping of blueberry, but no public dataset, image collection, or author analysis code repository for this paper's measurements is deposited. The only public URL mentioned (SFP-team/berrycv-workflow) is explicitly tied to a different trait (wax bloom) from a

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