Comparative genomics of the wheat fungal pathogen Pyrenophora tritici-repentis reveals chromosomal variations and genome plasticity
MetadataShow full item record
© 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.
Showing items related by title, author, creator and subject.
Comparative genomics and prediction of conditionally dispensable sequences in legume–infecting Fusarium oxysporum formae speciales facilitates identification of candidate effectorsWilliams, A.; Sharma, M.; Thatcher, L.; Azam, S.; Hane, James; Sperschneider, J.; Kidd, B.; Anderson, J.; Ghosh, R.; Garg, G.; Lichtenzveig, J.; Kistler, H.; Shea, T.; Young, S.; Buck, S.; Kamphuis, L.; Saxena, R.; Pande, S.; Ma, L.; Varshney, R.; Singh, K. (2016)Background: Soil-borne fungi of the Fusarium oxysporum species complex cause devastating wilt disease on many crops including legumes that supply human dietary protein needs across many parts of the globe. We present and ...
Comparative genomics of a plant-pathogenic fungus, pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergenceManning, 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. (2013)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 ...
Transposable element genomic fissuring in Pyrenophora teres is associated with genome expansion and dynamics of host-pathogen genetic interactionsSyme, Robert; Martin, A.; Wyatt, N.; Lawrence, J.; Muria-Gonzalez, M.; Friesen, T.; Ellwood, Simon (2018)Syme, Martin, Wyatt, Lawrence, Muria-Gonzalez, Friesen and Ellwood. Pyrenophora teres, P. teres f. teres (PTT) and P. teres f. maculata (PTM) cause significant diseases in barley, but little is known about the large-scale ...