Comparative genomics of a plant-pathogenic fungus, pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergence
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...
| Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , , |
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| Format: | Journal Article |
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Genetics Society of America
2013
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| Online Access: | http://hdl.handle.net/20.500.11937/25606 |
| _version_ | 1848751755950555136 |
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| author | Manning, V. Pandelova, I. Dhillon, B. Wilhelm, L. Goodwin, S. Berlin, A. Figueroa, M. Freitag, M. Hane, James Henrissat, B. Holman, W. Kodira, C. Martin, J. Oliver, Richard Robbertse, B. Schackwitz, W. Schwartz, D. Spatafora, J. Turgeon, B. Yandava, C. Young, S. Zhou, S. Zeng, Q. Grigoriev, I. Ma, L. Ciuffetti, L. |
| author_facet | Manning, V. Pandelova, I. Dhillon, B. Wilhelm, L. Goodwin, S. Berlin, A. Figueroa, M. Freitag, M. Hane, James Henrissat, B. Holman, W. Kodira, C. Martin, J. Oliver, Richard Robbertse, B. Schackwitz, W. Schwartz, D. Spatafora, J. Turgeon, B. Yandava, C. Young, S. Zhou, S. Zeng, Q. Grigoriev, I. Ma, L. Ciuffetti, L. |
| author_sort | Manning, V. |
| building | Curtin Institutional Repository |
| collection | Online Access |
| description | 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. |
| first_indexed | 2025-11-14T07:57:46Z |
| format | Journal Article |
| id | curtin-20.500.11937-25606 |
| institution | Curtin University Malaysia |
| institution_category | Local University |
| last_indexed | 2025-11-14T07:57:46Z |
| publishDate | 2013 |
| publisher | Genetics Society of America |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | curtin-20.500.11937-256062018-07-11T03:25:47Z Comparative genomics of a plant-pathogenic fungus, pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergence Manning, V. Pandelova, I. Dhillon, B. Wilhelm, L. Goodwin, S. Berlin, A. Figueroa, M. Freitag, M. Hane, James Henrissat, B. Holman, W. Kodira, C. Martin, J. Oliver, Richard Robbertse, B. Schackwitz, W. Schwartz, D. Spatafora, J. Turgeon, B. Yandava, C. Young, S. Zhou, S. Zeng, Q. Grigoriev, I. Ma, L. Ciuffetti, L. copy number variation histone H3 transduplication ToxB wheat (Triticum aestivum) anastomosis ToxA 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. 2013 Journal Article http://hdl.handle.net/20.500.11937/25606 10.1534/g3.112.004044 http://creativecommons.org/licenses/by/3.0/ Genetics Society of America fulltext |
| spellingShingle | copy number variation histone H3 transduplication ToxB wheat (Triticum aestivum) anastomosis ToxA Manning, V. Pandelova, I. Dhillon, B. Wilhelm, L. Goodwin, S. Berlin, A. Figueroa, M. Freitag, M. Hane, James Henrissat, B. Holman, W. Kodira, C. Martin, J. Oliver, Richard Robbertse, B. Schackwitz, W. Schwartz, D. Spatafora, J. Turgeon, B. Yandava, C. Young, S. Zhou, S. Zeng, Q. Grigoriev, I. Ma, L. Ciuffetti, L. Comparative genomics of a plant-pathogenic fungus, pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergence |
| title | Comparative genomics of a plant-pathogenic fungus, pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergence |
| title_full | Comparative genomics of a plant-pathogenic fungus, pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergence |
| title_fullStr | Comparative genomics of a plant-pathogenic fungus, pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergence |
| title_full_unstemmed | Comparative genomics of a plant-pathogenic fungus, pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergence |
| title_short | Comparative genomics of a plant-pathogenic fungus, pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergence |
| title_sort | comparative genomics of a plant-pathogenic fungus, pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergence |
| topic | copy number variation histone H3 transduplication ToxB wheat (Triticum aestivum) anastomosis ToxA |
| url | http://hdl.handle.net/20.500.11937/25606 |