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Comparative Genomics of a Plant-Pathogenic Fungus, Pyrenophora tritici-repentis, Reveals Transduplication and the Impact of Repeat Elements on Pathogenicity and Population Divergence 公开 Deposited

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https://ir.library.oregonstate.edu/concern/articles/mw22v618w

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  • Pyrenophora tritici-repentis is a necrotrophic fungus causal to the disease tan spot of wheat, whose contribution to crop loss has increased significantly during the last few decades. Pathogenicity by this fungus is attributed to the production of host-selective toxins ( HST), which are recognized by their host in a genotype-specific manner. To better understand the mechanisms that have led to the increase in disease incidence related to this pathogen, we sequenced the genomes of three P. tritici-repentis isolates. A pathogenic isolate that produces two known HSTs was used to assemble a reference nuclear genome of approximately 40 Mb composed of 11 chromosomes that encode 12,141 predicted genes. Comparison of the reference genome with those of a pathogenic isolate that produces a third HST, and a nonpathogenic isolate, showed the nonpathogen genome to be more diverged than those of the two pathogens. Examination of gene-coding regions has provided candidate pathogen-specific proteins and revealed gene families that may play a role in a necrotrophic lifestyle. Analysis of transposable elements suggests that their presence in the genome of pathogenic isolates contributes to the creation of novel genes, effector diversification, possible horizontal gene transfer events, identified copy number variation, and the first example of transduplication by DNA transposable elements in fungi. Overall, comparative analysis of these genomes provides evidence that pathogenicity in this species arose through an influx of transposable elements, which created a genetically flexible landscape that can easily respond to environmental changes.
  • This is the publisher’s final pdf. The published article is copyrighted by The Genetics Society of America and can be found at: http://www.genetics-gsa.org/
  • Keywords: ToxB, Anastomosis, Wheat (Triticum aestivum), Copy number variation, ToxA, Histone H3 transduplication
  • Keywords: ToxB, Anastomosis, Wheat (Triticum aestivum), Copy number variation, ToxA, Histone H3 transduplication
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  • Manning, V. A., Henrissat, B., Holman, W. H., Kodira, C. D., Martin, J., Oliver, R. P., . . . Hane, J. K. (2013). Comparative genomics of a plant-pathogenic fungus, pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergence. G3 (Bethesda, Md.), 3(1), 41.
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  • 3
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  • Funding for M. Figueroa was provided by the National Science Foundation under a Minority Postdoctoral Research Fellowship (0706881) awarded in 2007. Sequencing of the reference strain was funded by the National Research Initiative of the U.S. Department of Agriculture Cooperative State Research, Education and Extension Service, grant number (2006-55600-16619), and reviewed through the U.S. Department of Agriculture/National Science Foundation Microbial Genome Sequencing Project. Illumina sequencing work was conducted by the U.S. Department of Energy Joint Genome Institute and supported by the Office of Science of the U.S. Department of Energy (under Contract No. DE-AC02- 05CH11231).
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