ArticlePloS one2015
Genome-Wide Analysis of Simple Sequence Repeats and Efficient Development of Polymorphic SSR Markers Based on Whole Genome Re-Sequencing of Multiple Isolates of the Wheat Stripe Rust Fungus.
Article in PloS one, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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11 citing papers in PubMed, 39 citations in OpenAlex.
- The development and validation of a genotyping-by-target sequencing chip for fungal population genetic analysis.Stress biology · 2026Article
- Genome-Wide Microsatellites inAnimals : an open access journal from MDPI · 2024Article
- Diversity of Northwestern and North Caucasian Populations of Puccinia striiformis f. sp. tritici by Virulence and Microsatellite Loci in 2022.Doklady biological sciences : proceedings of the Academy of Sciences of the USSR, Biological sciences sections · 2024Article
- The Development of a Fluorescent Microsatellite Marker Assay for the Pitaya Canker Pathogen (Genes · 2024Article
- Variation in SSRs at different genomic regions and implications for the evolution and identification of Armillaria gallica.PloS one · 2024Article
- Development of Simple Sequence Repeat Markers and Genetic Diversity Evaluation ofJournal of fungi (Basel, Switzerland) · 2023Article
- Development of EST-SSR primers and genetic diversity analysis of the southern blight pathogenFrontiers in microbiology · 2023Article
- Polymorphic Microsatellite Development, Genetic Diversity, Population Differentiation and Sexual State of Phytophthora capsici on Commercial Peppers in Three Provinces of Southwest China.Applied and environmental microbiology · 2022Article
- Alternate Hosts ofPathogens (Basel, Switzerland) · 2020Review
- Inheritance and Linkage of Virulence Genes in Chinese Predominant Race CYR32 of the Wheat Stripe Rust PathogenFrontiers in plant science · 2018Article
- De Novo Sequencing and Characterization of the Transcriptome of Dwarf Polish Wheat (Triticum polonicum L.).International journal of genomics · 2016Article
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Authors and funding
8 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The biotrophic parasitic fungus Puccinia striiformis f. sp. tritici (Pst) causes stripe rust, a devastating disease of wheat, endangering global food security. Because the Pst population is highly dynamic, it is difficult to develop wheat cultivars with durable and highly effective resistance. Simple sequence repeats (SSRs) are widely used as molecular markers in genetic studies to determine population structure in many organisms. However, only a small number of SSR markers have been developed for Pst. In this study, a total of 4,792 SSR loci were identified using the whole genome sequences of six isolates from different regions of the world, with a marker density of one SSR per 22.95 kb. The majority of the SSRs were di- and tri-nucleotide repeats. A database containing 1,113 SSR markers were established. Through in silico comparison, the previously reported SSR markers were found mainly in exons, whereas the SSR markers in the database were mostly in intergenic regions. Furthermore, 105 polymorphic SSR markers were confirmed in silico by their identical positions and nucleotide variations with INDELs identified among the six isolates. When 104 in silico polymorphic SSR markers were used to genotype 21 Pst isolates, 84 produced the target bands, and 82 of them were polymorphic and revealed the genetic relationships among the isolates. The results show that whole genome re-sequencing of multiple isolates provides an ideal resource for developing SSR markers, and the newly developed SSR markers are useful for genetic and population studies of the wheat stripe rust fungus.
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