Transcriptome of apple cv. Ametyst in Rvi6-effective and Rvi6-breaking Venturia inaequalis interactions identifies defense candidates
- 1Institute of Experimental Botany, Czech Academy of Sciences
Abstract
Background: Rvi6, introgressed from Malus floribunda 821, is the most widely deployed apple scab resistance gene, but Venturia inaequalis races overcoming it are widespread. Transcriptomic differences between Rvi6-effective and Rvi6-breaking interactions in one host genotype remain unresolved. Aims: To compare these interactions in cv. Ametyst and nominate genes for subsequent validation. Methods: Own-rooted Ametyst plants were mock-inoculated or inoculated with an Rvi6-avirulent isolate (Rin; incompatible) or an Rvi6-virulent isolate (Rola; compatible) and harvested at 4 days post-inoculation (21 mRNA libraries). Expression was quantified using GDDH13 reference-based and de novo Trinity strategies, followed by DESeq2, WGCNA and GSEA. Results: Rin vs Rola yielded 1,339 candidate genes (more than two-fold change, FDR < 0.01) in the reference-based analysis. Curation of Rin-induced defense candidates retained 151 genes, 92 of which concentrated in a single co-expression module. Thirty-one also passed the Rin-vs-Rola thresholded test and were prioritized for genetic validation. Conclusions: The incompatible interaction was associated with a coherent defense program and the compatible interaction with a distinct transcriptional state. With one isolate per class, isolate identity and Rvi6 virulence cannot be separated.
Related
- Transcriptome-Guided Identification of Two GPCR Candidates Contributing to Trap Formation in Arthrobotrys oligospora
- Transcriptome analysis identifies candidate genes for southern root-knot nematode resistance in cultivated peach
- Axonal transcriptome remodeling during PGE2 induced sensitization identifies Tnfrsf12a/FN14 as a regulator of sensory neuron excitability
- Transcriptome profiling identifies the chromatoid body as a dynamic center for RNA surveillance and transcript sorting during spermatogenesis
- Nascent transcription profiling identifies H3K36 methylation as a custodian of the somatic transcriptome
BibTeX
@misc{kertbundit2026transcriptome,
title = {{Transcriptome of apple cv. Ametyst in Rvi6-effective and Rvi6-breaking Venturia inaequalis interactions identifies defense candidates}},
author = {S. Kertbundit and D. Tyc and R. Cerny and H. Storchova and M. Juricek},
howpublished = {bioRxiv},
year = {2026},
month = sep,
doi = {10.64898/2026.09.15.751701},
url = {https://www.biorxiv.org/content/10.64898/2026.09.15.751701v1},
note = {CC BY},
}
RIS
TY - UNPB
TI - Transcriptome of apple cv. Ametyst in Rvi6-effective and Rvi6-breaking Venturia inaequalis interactions identifies defense candidates
AU - S. Kertbundit
AU - D. Tyc
AU - R. Cerny
AU - H. Storchova
AU - M. Juricek
PY - 2026
DA - 2026/09/15
PB - bioRxiv
DO - 10.64898/2026.09.15.751701
UR - https://www.biorxiv.org/content/10.64898/2026.09.15.751701v1
AB - Background: Rvi6, introgressed from Malus floribunda 821, is the most widely deployed apple scab resistance gene, but Venturia inaequalis races overcoming it are widespread. Transcriptomic differences between Rvi6-effective and Rvi6-breaking interactions in one host genotype remain unresolved. Aims: To compare these interactions in cv. Ametyst and nominate genes for subsequent validation. Methods: Own-rooted Ametyst plants were mock-inoculated or inoculated with an Rvi6-avirulent isolate (Rin; incompatible) or an Rvi6-virulent isolate (Rola; compatible) and harvested at 4 days post-inoculation (21 mRNA libraries). Expression was quantified using GDDH13 reference-based and de novo Trinity strategies, followed by DESeq2, WGCNA and GSEA. Results: Rin vs Rola yielded 1,339 candidate genes (more than two-fold change, FDR < 0.01) in the reference-based analysis. Curation of Rin-induced defense candidates retained 151 genes, 92 of which concentrated in a single co-expression module. Thirty-one also passed the Rin-vs-Rola thresholded test and were prioritized for genetic validation. Conclusions: The incompatible interaction was associated with a coherent defense program and the compatible interaction with a distinct transcriptional state. With one isolate per class, isolate identity and Rvi6 virulence cannot be separated.
ER -