ArticleGigaScience2025
A telomere-to-telomere phased genome of an octoploid strawberry reveals a receptor kinase conferring anthracnose resistance.
Article in GigaScience, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed.
- YOLOv8n-DSLW: A Deployment-Oriented AI-Enabled Vision-Sensing Model for Tiny Strawberry Disease and Pest Detection in Greenhouse Images.Sensors (Basel, Switzerland) · 2026Article
- Haplotype‑resolved comparison of transcription factor superfamilies between wild and cultivated autotetraploid green jujube and prioritization of candidate transcription factors via machine learning.The plant genome · 2026Article
- Genomic and population analyses reveal asymmetric subgenome evolution and local adaptation in the polyploid Lycopus lucidus.Communications biology · 2026Article
- Rapid screening of genome edited strawberry (Fragaria ×ananassa) regenerants using high-resolution melting analysis followed by Amplicon sequencing.BMC research notes · 2026Article
- Jasmonate Modulates Strawberry Susceptibility to Anthracnose by Activating SnRK2.1 to Regulate the WRKY50-JAZ5 Module.Plant biotechnology journal · 2026Article
- Using genomic selection to examine subgenome dominance and epistasis in allopolyploid strawberry.The plant genome · 2026Article
- Recent progress in DNA marker-assisted selection for vegetable breeding in Japan.Breeding science · 2026Article
- T2TJournal of fungi (Basel, Switzerland) · 2026Article
- Whitening fruit by CRISPR/Cas9-mediated homoeolog-specific gene editing ofHorticulture research · 2026Article
- Haplotype-resolved chromosome-level genome assembly of Fragaria × ananassa Duch. cv. 'Yuexin'.Scientific data · 2025Article
- A haplotype-phased genome characterizes the genomic architecture and causal variants for RXf1 conferring resistance to Xanthomonas fragariae in strawberry (F. × ananassa).BMC genomics · 2025Article
- A telomere-to-telomere phased genome of an octoploid strawberry reveals a receptor kinase conferring anthracnose resistance.GigaScience · 2025Article
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Authors and funding
8 authors.
Funding
Abstract
backgroundCultivated strawberry (Fragaria xananassa Duch.), an allo-octoploid species arising from at least 3 diploid progenitors, poses a challenge for genomic analysis due to its high levels of heterozygosity and the complex nature of its polyploid genome.
resultsThis study developed the complete haplotype-phased genome sequence from a short-day strawberry, 'Florida Brilliance' without parental data, assembling 56 chromosomes from telomere to telomere. This assembly was achieved with high-fidelity long reads and high-throughput chromatic capture sequencing (Hi-C). The centromere core regions and 96,104 genes were annotated using long-read isoform RNA sequencing. Using the high quality of the haplotype-phased reference genome, FaFB1, we identified the causal mutation within the gene encoding Leaf Rust 10 Disease-Resistance Locus Receptor-like Protein Kinase (LRK10) that confers resistance to anthracnose fruit rot (AFR). This disease is caused by the Colletotrichum acutatum species complex and results in significant economic losses in strawberry production. Comparison of resistant and susceptible haplotype assemblies and full-length transcript data revealed a 29-bp insertion at the first exon of the susceptible allele, leading to a premature stop codon and loss of gene function. The functional role of LRK10 in resistance to AFR was validated using a simplified Agrobacterium-based transformation method for transient gene expression analysis in strawberry fruits. Transient knockdown and overexpression of LRK10 in fruit indicate a key role for LRK10 in AFR resistance in strawberry.
conclusionsThe FaFB1 assembly along with other resources will be valuable for the discovery of additional candidate genes associated with disease resistance and fruit quality, which will not only advance our understanding of genes and their functions but also facilitate advancements in genome editing in strawberry.
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