A new PacBio genome sequence of an Australian Pyrenophora tritici-repentis race 1 isolate
Objectives: The necrotrophic fungal pathogen Pyrenophora tritici-repentis (Ptr) is the causal agent of tan spot a major disease of wheat. We have generated a new genome resource for an Australian Ptr race 1 isolate V1 to support comparative 'omics analyses. In particular, the V1 PacBio Bioscien...
| Main Authors: | , , |
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| Format: | Journal Article |
| Language: | English |
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BioMed Central
2019
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| Online Access: | http://hdl.handle.net/20.500.11937/87570 |
| _version_ | 1848764927927386112 |
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| author | Moolhuijzen, Paula See, Pao Theen Moffat, Caroline |
| author_facet | Moolhuijzen, Paula See, Pao Theen Moffat, Caroline |
| author_sort | Moolhuijzen, Paula |
| building | Curtin Institutional Repository |
| collection | Online Access |
| description | Objectives: The necrotrophic fungal pathogen Pyrenophora tritici-repentis (Ptr) is the causal agent of tan spot a major disease of wheat. We have generated a new genome resource for an Australian Ptr race 1 isolate V1 to support comparative 'omics analyses. In particular, the V1 PacBio Biosciences long-read sequence assembly was generated to confirm the stability of large-scale genome rearrangements of the Australian race 1 isolate M4 when compared to the North American race 1 isolate Pt-1C-BFP.
Results: Over 1.3 million reads were sequenced by PacBio Sequel small-molecule real-time sequencing (SRMT) cell to yield 11.4 Gb for the genome assembly of V1 (285X coverage), with median and maximum read lengths of 8959 bp and 72,292 bp respectively. The V1 genome was assembled into 33 contiguous sequences with a of total length 40.4 Mb and GC content of 50.44%. A total of 14,050 protein coding genes were predicted and annotated for V1. Of these 11,519 genes were orthologous to both Pt-1C-BFP and M4. Whole genome alignment of the Australian long-read assemblies (V1 to M4) confirmed previously identified large-scale genome rearrangements between M4 and Pt-1C-BFP and presented small scale variations, which included a sequence break within a race-specific region for ToxA, a well-known necrotrophic effector gene. |
| first_indexed | 2025-11-14T11:27:08Z |
| format | Journal Article |
| id | curtin-20.500.11937-87570 |
| institution | Curtin University Malaysia |
| institution_category | Local University |
| language | eng |
| last_indexed | 2025-11-14T11:27:08Z |
| publishDate | 2019 |
| publisher | BioMed Central |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | curtin-20.500.11937-875702022-03-03T00:47:10Z A new PacBio genome sequence of an Australian Pyrenophora tritici-repentis race 1 isolate Moolhuijzen, Paula See, Pao Theen Moffat, Caroline Comparative analysis Genome assembly PacBio sequel Pyrenophora tritici-repentis Tan spot ToxA Yellow spot Ascomycota Australia Chromosome Mapping Fungal Proteins Gene Expression Regulation, Fungal Genome, Fungal High-Throughput Nucleotide Sequencing Host-Pathogen Interactions Mycotoxins Open Reading Frames Plant Diseases Triticum Objectives: The necrotrophic fungal pathogen Pyrenophora tritici-repentis (Ptr) is the causal agent of tan spot a major disease of wheat. We have generated a new genome resource for an Australian Ptr race 1 isolate V1 to support comparative 'omics analyses. In particular, the V1 PacBio Biosciences long-read sequence assembly was generated to confirm the stability of large-scale genome rearrangements of the Australian race 1 isolate M4 when compared to the North American race 1 isolate Pt-1C-BFP. Results: Over 1.3 million reads were sequenced by PacBio Sequel small-molecule real-time sequencing (SRMT) cell to yield 11.4 Gb for the genome assembly of V1 (285X coverage), with median and maximum read lengths of 8959 bp and 72,292 bp respectively. The V1 genome was assembled into 33 contiguous sequences with a of total length 40.4 Mb and GC content of 50.44%. A total of 14,050 protein coding genes were predicted and annotated for V1. Of these 11,519 genes were orthologous to both Pt-1C-BFP and M4. Whole genome alignment of the Australian long-read assemblies (V1 to M4) confirmed previously identified large-scale genome rearrangements between M4 and Pt-1C-BFP and presented small scale variations, which included a sequence break within a race-specific region for ToxA, a well-known necrotrophic effector gene. 2019 Journal Article http://hdl.handle.net/20.500.11937/87570 10.1186/s13104-019-4681-6 eng http://creativecommons.org/licenses/by/4.0/ BioMed Central fulltext |
| spellingShingle | Comparative analysis Genome assembly PacBio sequel Pyrenophora tritici-repentis Tan spot ToxA Yellow spot Ascomycota Australia Chromosome Mapping Fungal Proteins Gene Expression Regulation, Fungal Genome, Fungal High-Throughput Nucleotide Sequencing Host-Pathogen Interactions Mycotoxins Open Reading Frames Plant Diseases Triticum Moolhuijzen, Paula See, Pao Theen Moffat, Caroline A new PacBio genome sequence of an Australian Pyrenophora tritici-repentis race 1 isolate |
| title | A new PacBio genome sequence of an Australian Pyrenophora tritici-repentis race 1 isolate |
| title_full | A new PacBio genome sequence of an Australian Pyrenophora tritici-repentis race 1 isolate |
| title_fullStr | A new PacBio genome sequence of an Australian Pyrenophora tritici-repentis race 1 isolate |
| title_full_unstemmed | A new PacBio genome sequence of an Australian Pyrenophora tritici-repentis race 1 isolate |
| title_short | A new PacBio genome sequence of an Australian Pyrenophora tritici-repentis race 1 isolate |
| title_sort | new pacbio genome sequence of an australian pyrenophora tritici-repentis race 1 isolate |
| topic | Comparative analysis Genome assembly PacBio sequel Pyrenophora tritici-repentis Tan spot ToxA Yellow spot Ascomycota Australia Chromosome Mapping Fungal Proteins Gene Expression Regulation, Fungal Genome, Fungal High-Throughput Nucleotide Sequencing Host-Pathogen Interactions Mycotoxins Open Reading Frames Plant Diseases Triticum |
| url | http://hdl.handle.net/20.500.11937/87570 |