ArticleBMC genomics2020
Whole-genome sequencing of Puccinia striiformis f. sp. tritici mutant isolates identifies avirulence gene candidates.
Article in BMC genomics, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed, 35 citations in OpenAlex.
- Integrated Transcriptomic and Metabolomic Analysis Reveals Molecular Signatures Associated with Natural Degeneration ofCurrent issues in molecular biology · 2026Article
- Genomics Research on the Road of Studying Biology and Virulence of Cereal Rust Fungi.Molecular plant pathology · 2025Review
- Migration of wheat stripe rust from the primary oversummering region to neighboring regions in China.Communications biology · 2025Article
- Computational studies reveal structural characterization and novel families of Puccinia striiformis f. sp. tritici effectors.PLoS computational biology · 2025Article
- Association mapping with a diverse population of Puccinia graminis f. sp. tritici identified avirulence loci interacting with the barley Rpg1 stem rust resistance gene.BMC genomics · 2024Article
- Genomic analysis, trajectory tracking, and field surveys reveal sources and long-distance dispersal routes of wheat stripe rust pathogen in China.Plant communications · 2023Article
- Transcriptome analysis ofFrontiers in microbiology · 2023Article
- Fine Mapping of Stripe-Rust-Resistance GenePlants (Basel, Switzerland) · 2022Article
- Using genomics to understand the mechanisms of virulence and drug resistance in fungal pathogens.Biochemical Society transactions · 2022Review
- Identification of Secreted Protein Gene-Based SNP Markers Associated with Virulence Phenotypes ofInternational journal of molecular sciences · 2022Article
- The evolving battle between yellow rust and wheat: implications for global food security.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Review
- Whole genome resequencing and comparative genome analysis of three Puccinia striiformis f. sp. tritici pathotypes prevalent in India.PloS one · 2022Article
- Review
- Molecular Characterization of Wheat Stripe Rust Pathogen (International journal of molecular sciences · 2021Article
- Potential Infection Risks of the Wheat Stripe Rust and Stem Rust Pathogens on Barberry in Asia and Southeastern Europe.Plants (Basel, Switzerland) · 2021Article
- A Chromosome-Scale Assembly of the Wheat Leaf Rust PathogenFrontiers in microbiology · 2021Article
- Population Diversity, Dynamics, and Differentiation of Wheat Stripe Rust PathogenFrontiers in microbiology · 2021Article
- Article
- Role of Genetics, Genomics, and Breeding Approaches to Combat Stripe Rust of Wheat.Frontiers in nutrition · 2020Review
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5 authors at 2 institutions in 1 country.
Funding
Abstract
backgroundThe stripe rust pathogen, Puccinia striiformis f. sp. tritici (Pst), threats world wheat production. Resistance to Pst is often overcome by pathogen virulence changes, but the mechanisms of variation are not clearly understood. To determine the role of mutation in Pst virulence changes, in previous studies 30 mutant isolates were developed from a least virulent isolate using ethyl methanesulfonate (EMS) mutagenesis and phenotyped for virulence changes. The progenitor isolate was sequenced, assembled and annotated for establishing a high-quality reference genome. In the present study, the 30 mutant isolates were sequenced and compared to the wide-type isolate to determine the genomic variation and identify candidates for avirulence (Avr) genes.
resultsThe sequence reads of the 30 mutant isolates were mapped to the wild-type reference genome to identify genomic changes. After selecting EMS preferred mutations, 264,630 and 118,913 single nucleotide polymorphism (SNP) sites and 89,078 and 72,513 Indels (Insertion/deletion) were detected among the 30 mutant isolates compared to the primary scaffolds and haplotigs of the wild-type isolate, respectively. Deleterious variants including SNPs and Indels occurred in 1866 genes. Genome wide association analysis identified 754 genes associated with avirulence phenotypes. A total of 62 genes were found significantly associated to 16 avirulence genes after selection through six criteria for putative effectors and degree of association, including 48 genes encoding secreted proteins (SPs) and 14 non-SP genes but with high levels of association (P ≤ 0.001) to avirulence phenotypes. Eight of the SP genes were identified as avirulence-associated effectors with high-confidence as they met five or six criteria used to determine effectors.
conclusionsGenome sequence comparison of the mutant isolates with the progenitor isolate unraveled a large number of mutation sites along the genome and identified high-confidence effector genes as candidates for avirulence genes in Pst. Since the avirulence gene candidates were identified from associated SNPs and Indels caused by artificial mutagenesis, these avirulence gene candidates are valuable resources for elucidating the mechanisms of the pathogen pathogenicity, and will be studied to determine their functions in the interactions between the wheat host and the Pst pathogen.
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