Comparative genomics of the wheat fungal pathogen Pyrenophora tritici-repentis reveals chromosomal variations and genome plasticity
© 2018 The Author(s). Background: Pyrenophora tritici-repentis (Ptr) is a necrotrophic fungal pathogen that causes the major wheat disease, tan spot. We set out to provide essential genomics-based resources in order to better understand the pathogenicity mechanisms of this important pathogen. Result...
| Main Authors: | , , , , , , |
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| Format: | Journal Article |
| Published: |
Biomed Central Ltd
2018
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| Online Access: | http://hdl.handle.net/20.500.11937/66629 |
| _version_ | 1848761356360089600 |
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| author | Moolhuijzen, Paula See, Pao Theen Hane, James Shi, G. Liu, Z. Oliver, Richard Moffat, Caroline |
| author_facet | Moolhuijzen, Paula See, Pao Theen Hane, James Shi, G. Liu, Z. Oliver, Richard Moffat, Caroline |
| author_sort | Moolhuijzen, Paula |
| building | Curtin Institutional Repository |
| collection | Online Access |
| description | © 2018 The Author(s). Background: Pyrenophora tritici-repentis (Ptr) is a necrotrophic fungal pathogen that causes the major wheat disease, tan spot. We set out to provide essential genomics-based resources in order to better understand the pathogenicity mechanisms of this important pathogen. Results: Here, we present eight new Ptr isolate genomes, assembled and annotated; representing races 1, 2 and 5, and a new race. We report a high quality Ptr reference genome, sequenced by PacBio technology with Illumina paired-end data support and optical mapping. An estimated 98% of the genome coverage was mapped to 10 chromosomal groups, using a two-enzyme hybrid approach. The final reference genome was 40.9 Mb and contained a total of 13,797 annotated genes, supported by transcriptomic and proteogenomics data sets. Conclusions: Whole genome comparative analysis revealed major chromosomal segmental rearrangements and fusions, highlighting intraspecific genome plasticity in this species. Furthermore, the Ptr race classification was not supported at the whole genome level, as phylogenetic analysis did not cluster the ToxA producing isolates. This expansion of available Ptr genomics resources will directly facilitate research aimed at controlling tan spot disease. |
| first_indexed | 2025-11-14T10:30:22Z |
| format | Journal Article |
| id | curtin-20.500.11937-66629 |
| institution | Curtin University Malaysia |
| institution_category | Local University |
| last_indexed | 2025-11-14T10:30:22Z |
| publishDate | 2018 |
| publisher | Biomed Central Ltd |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | curtin-20.500.11937-666292019-01-11T06:54:51Z Comparative genomics of the wheat fungal pathogen Pyrenophora tritici-repentis reveals chromosomal variations and genome plasticity Moolhuijzen, Paula See, Pao Theen Hane, James Shi, G. Liu, Z. Oliver, Richard Moffat, Caroline © 2018 The Author(s). Background: Pyrenophora tritici-repentis (Ptr) is a necrotrophic fungal pathogen that causes the major wheat disease, tan spot. We set out to provide essential genomics-based resources in order to better understand the pathogenicity mechanisms of this important pathogen. Results: Here, we present eight new Ptr isolate genomes, assembled and annotated; representing races 1, 2 and 5, and a new race. We report a high quality Ptr reference genome, sequenced by PacBio technology with Illumina paired-end data support and optical mapping. An estimated 98% of the genome coverage was mapped to 10 chromosomal groups, using a two-enzyme hybrid approach. The final reference genome was 40.9 Mb and contained a total of 13,797 annotated genes, supported by transcriptomic and proteogenomics data sets. Conclusions: Whole genome comparative analysis revealed major chromosomal segmental rearrangements and fusions, highlighting intraspecific genome plasticity in this species. Furthermore, the Ptr race classification was not supported at the whole genome level, as phylogenetic analysis did not cluster the ToxA producing isolates. This expansion of available Ptr genomics resources will directly facilitate research aimed at controlling tan spot disease. 2018 Journal Article http://hdl.handle.net/20.500.11937/66629 10.1186/s12864-018-4680-3 http://creativecommons.org/licenses/by/4.0/ Biomed Central Ltd fulltext |
| spellingShingle | Moolhuijzen, Paula See, Pao Theen Hane, James Shi, G. Liu, Z. Oliver, Richard Moffat, Caroline Comparative genomics of the wheat fungal pathogen Pyrenophora tritici-repentis reveals chromosomal variations and genome plasticity |
| title | Comparative genomics of the wheat fungal pathogen Pyrenophora tritici-repentis reveals chromosomal variations and genome plasticity |
| title_full | Comparative genomics of the wheat fungal pathogen Pyrenophora tritici-repentis reveals chromosomal variations and genome plasticity |
| title_fullStr | Comparative genomics of the wheat fungal pathogen Pyrenophora tritici-repentis reveals chromosomal variations and genome plasticity |
| title_full_unstemmed | Comparative genomics of the wheat fungal pathogen Pyrenophora tritici-repentis reveals chromosomal variations and genome plasticity |
| title_short | Comparative genomics of the wheat fungal pathogen Pyrenophora tritici-repentis reveals chromosomal variations and genome plasticity |
| title_sort | comparative genomics of the wheat fungal pathogen pyrenophora tritici-repentis reveals chromosomal variations and genome plasticity |
| url | http://hdl.handle.net/20.500.11937/66629 |