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dc.contributor.authorMoolhuijzen, Paula
dc.contributor.authorSee, Pao Theen
dc.contributor.authorMoffat, Caroline
dc.identifier.citationMoolhuijzen, P. and See, P.T. and Moffat, C.S. 2021. The first genome assembly of fungal pathogen Pyrenophora tritici-repentis race 1 isolate using Oxford Nanopore MinION sequencing. BMC Research Notes. 14 (1): Article No. 334.

Objectives: The assembly of fungal genomes using short-reads is challenged by long repetitive and low GC regions. However, long-read sequencing technologies, such as PacBio and Oxford Nanopore, are able to overcome many problematic regions, thereby providing an opportunity to improve fragmented genome assemblies derived from short reads only. Here, a necrotrophic fungal pathogen Pyrenophora tritici-repentis (Ptr) isolate 134 (Ptr134), which causes tan spot disease on wheat, was sequenced on a MinION using Oxford Nanopore Technologies (ONT), to improve on a previous Illumina short-read genome assembly and provide a more complete genome resource for pan-genomic analyses of Ptr.

Results: The genome of Ptr134 sequenced on a MinION using ONT was assembled into 28 contiguous sequences with a total length of 40.79 Mb and GC content of 50.81%. The long-read assembly provided 6.79 Mb of new sequence and 2846 extra annotated protein coding genes as compared to the previous short-read assembly. This improved genome sequence represents near complete chromosomes, an important resource for large scale and pan genomic comparative analyses.

dc.subjectComparative analysis
dc.subjectGenome assembly
dc.subjectOxford Nanopore
dc.subjectPyrenophora tritici-repentis
dc.subjectTan spot
dc.subjectYellow spot
dc.subjectGenome, Fungal
dc.subjectHigh-Throughput Nucleotide Sequencing
dc.titleThe first genome assembly of fungal pathogen Pyrenophora tritici-repentis race 1 isolate using Oxford Nanopore MinION sequencing
dc.typeJournal Article
dcterms.source.titleBMC Research Notes
curtin.departmentSchool of Molecular and Life Sciences (MLS)
curtin.accessStatusOpen access
curtin.facultyFaculty of Science and Engineering
curtin.contributor.orcidMoolhuijzen, Paula [0000-0002-3502-7612]
curtin.contributor.orcidMoffat, Caroline [0000-0002-6360-1933]
curtin.contributor.researcheridMoffat, Caroline [I-1058-2014]
curtin.contributor.scopusauthoridMoolhuijzen, Paula [14525407700]
curtin.contributor.scopusauthoridSee, Pao Theen [56231274400]
curtin.contributor.scopusauthoridMoffat, Caroline [25936541300]

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