ArticleG3 (Bethesda, Md.)2013
Resequencing and comparative genomics of Stagonospora nodorum: sectional gene absence and effector discovery.
Article in G3 (Bethesda, Md.), 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed, 64 citations in OpenAlex.
- EffectorFisher: association of disease phenotype with pangenomic protein-isoform profiles for improved prediction of fungal pathogenicity effectors.Scientific reports · 2026Article
- Secretome Analysis for a New Strain of the Blackleg FungusJournal of fungi (Basel, Switzerland) · 2023Article
- Genetics and breeding for resistance against four leaf spot diseases in wheat (Frontiers in plant science · 2023Review
- The novel avirulence effector AlAvr1 from Ascochyta lentis mediates host cultivar specificity of ascochyta blight in lentil.Molecular plant pathology · 2022Article
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- Whole-genome sequencing of Puccinia striiformis f. sp. tritici mutant isolates identifies avirulence gene candidates.BMC genomics · 2020Article
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- Local adaptation drives the diversification of effectors in the fungal wheat pathogen Parastagonospora nodorum in the United States.PLoS genetics · 2019Article
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- Proteomics Analysis Reveals That Caspase-Like and Metacaspase-Like Activities Are Dispensable for Activation of Proteases Involved in Early Response to Biotic Stress inInternational journal of molecular sciences · 2018Article
- A New Reference Genome Shows the One-Speed Genome Structure of the Barley Pathogen Ramularia collo-cygni.Genome biology and evolution · 2018Article
- Pan-Parastagonospora Comparative Genome Analysis-Effector Prediction and Genome Evolution.Genome biology and evolution · 2018Article
- Comparative genomics of the wheat fungal pathogen Pyrenophora tritici-repentis reveals chromosomal variations and genome plasticity.BMC genomics · 2018Article
- Gene Presence-Absence Polymorphism in Castrating Anther-Smut Fungi: Recent Gene Gains and Phylogeographic Structure.Genome biology and evolution · 2018Article
- Reference Quality Genome Assemblies of ThreeG3 (Bethesda, Md.) · 2018Article
- Secretome Analysis from the Ectomycorrhizal AscomyceteFrontiers in microbiology · 2018Article
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- Drivers of genetic diversity in secondary metabolic gene clusters within a fungal species.PLoS biology · 2017Article
- Distinct Trajectories of Massive Recent Gene Gains and Losses in Populations of a Microbial Eukaryotic Pathogen.Molecular biology and evolution · 2017Article
Corrections and comments
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Authors and funding
4 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Stagonospora nodorum is an important wheat (Triticum aestivum) pathogen in many parts of the world, causing major yield losses. It was the first species in the large fungal Dothideomycete class to be genome sequenced. The reference genome sequence (SN15) has been instrumental in the discovery of genes encoding necrotrophic effectors that induce disease symptoms in specific host genotypes. Here we present the genome sequence of two further S. nodorum strains (Sn4 and Sn79) that differ in their effector repertoire from the reference. Sn79 is avirulent on wheat and produces no apparent effectors when infiltrated onto many cultivars and mapping population parents. Sn4 is pathogenic on wheat and has virulences not found in SN15. The new strains, sequenced with short-read Illumina chemistry, are compared with SN15 by a combination of mapping and de novo assembly approaches. Each of the genomes contains a large number of strain-specific genes, many of which have no meaningful similarity to any known gene. Large contiguous sections of the reference genome are absent in the two newly sequenced strains. We refer to these differences as "sectional gene absences." The presence of genes in pathogenic strains and absence in Sn79 is added to computationally predicted properties of known proteins to produce a list of likely effector candidates. Transposon insertion was observed in the mitochondrial genomes of virulent strains where the avirulent strain retained the likely ancestral sequence. The study suggests that short-read enabled comparative genomics is an effective way to both identify new S. nodorum effector candidates and to illuminate evolutionary processes in this species.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.