ArticleBMC biology2021
The stem rust fungus Puccinia graminis f. sp. tritici induces centromeric small RNAs during late infection that are associated with genome-wide DNA methylation.
Article in BMC biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 32 citations in OpenAlex.
- Haplotype-phased genomes of the barley leaf rust pathogen reveal evidence of repeat element expansion and somatic hybridization.G3 (Bethesda, Md.) · 2026Article
- Genomic and Effector-Based Insights Into Austropuccinia psidii-Host Interactions Informing RNAi and Resistance Development.Molecular plant pathology · 2026Review
- Host adaptation and genome evolution of the broad host range fungal rust pathogen, Austropuccinia psidii.G3 (Bethesda, Md.) · 2026Article
- Fungi as models of centromere innovation: from DNA sequence to 3-dimensional arrangement.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2025Review
- Long-read genomics reveal extensive nuclear-specific evolution and allele-specific expression in a dikaryotic fungus.Genome research · 2025Article
- Genomics Research on the Road of Studying Biology and Virulence of Cereal Rust Fungi.Molecular plant pathology · 2025Review
- A portable, nanopore-based genotyping platform for near real-time detection of Puccinia graminis f. sp. tritici lineages and fungicide sensitivity.BMC genomics · 2025Article
- Challenges and Opportunities Arising from Host-International journal of molecular sciences · 2024Review
- Genome biology and evolution of mating-type loci in four cereal rust fungi.PLoS genetics · 2024Article
- Dual host-pathogen small RNA sequencing during wheat stem rust infection.BMC research notes · 2023Article
- RNA-Based Control of Fungal Pathogens in Plants.International journal of molecular sciences · 2023Review
- Nuclear genome organization in fungi: from gene folding to Rabl chromosomes.FEMS microbiology reviews · 2023Article
- Exogenous double-stranded RNA inhibits the infection physiology of rust fungi to reduce symptoms in planta.Molecular plant pathology · 2023Article
- A beneficial fungal root endophyte triggers systemic RNA silencing and DNA methylation of a host reporter gene.RNA biology · 2023Article
- Fungal Secondary Metabolites and Small RNAs Enhance Pathogenicity during Plant-Fungal Pathogen Interactions.Journal of fungi (Basel, Switzerland) · 2022Review
- Physical separation of haplotypes in dikaryons allows benchmarking of phasing accuracy in Nanopore and HiFi assemblies with Hi-C data.Genome biology · 2022Article
- Austropuccinia psidii, causing myrtle rust, has a gigabase-sized genome shaped by transposable elements.G3 (Bethesda, Md.) · 2021Article
- The Evolutionary Significance of RNAi in the Fungal Kingdom.International journal of molecular sciences · 2020Review
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Authors and funding
16 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundSilencing of transposable elements (TEs) is essential for maintaining genome stability. Plants use small RNAs (sRNAs) to direct DNA methylation to TEs (RNA-directed DNA methylation; RdDM). Similar mechanisms of epigenetic silencing in the fungal kingdom have remained elusive.
resultsWe use sRNA sequencing and methylation data to gain insight into epigenetics in the dikaryotic fungus Puccinia graminis f. sp. tritici (Pgt), which causes the devastating stem rust disease on wheat. We use Hi-C data to define the Pgt centromeres and show that they are repeat-rich regions (~250 kb) that are highly diverse in sequence between haplotypes and, like in plants, are enriched for young TEs. DNA cytosine methylation is particularly active at centromeres but also associated with genome-wide control of young TE insertions. Strikingly, over 90% of Pgt sRNAs and several RNAi genes are differentially expressed during infection. Pgt induces waves of functionally diversified sRNAs during infection. The early wave sRNAs are predominantly 21 nts with a 5' uracil derived from genes. In contrast, the late wave sRNAs are mainly 22-nt sRNAs with a 5' adenine and are strongly induced from centromeric regions. TEs that overlap with late wave sRNAs are more likely to be methylated, both inside and outside the centromeres, and methylated TEs exhibit a silencing effect on nearby genes.
conclusionsWe conclude that rust fungi use an epigenetic silencing pathway that might have similarity with RdDM in plants. The Pgt RNAi machinery and sRNAs are under tight temporal control throughout infection and might ensure genome stability during sporulation.
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