Comparative analysis of transcriptomes of Ophiostoma novo-ulmi ssp. americana colonizing resistant or sensitive genotypes of American elm
| dc.contributor.author | Nigg, Martha | |
| dc.contributor.author | de Oliveira, Thais C. | |
| dc.contributor.author | Sarmiento-Villamil, Jorge L. | |
| dc.contributor.author | de la Bastide, Paul Y. | |
| dc.contributor.author | Hintz, William E. | |
| dc.contributor.author | Sherif, Sherif M. | |
| dc.contributor.author | Shukla, Mukund | |
| dc.contributor.author | Bernier, Louis | |
| dc.contributor.author | Saxena, Praveen K. | |
| dc.date.accessioned | 2022-11-13T14:32:43Z | |
| dc.date.available | 2022-11-13T14:32:43Z | |
| dc.date.copyright | 2022 | en_US |
| dc.date.issued | 2022 | |
| dc.description.abstract | The Ascomycete Ophiostoma novo-ulmi threatens elm populations worldwide. The molecular mechanisms underlying its pathogenicity and virulence are still largely uncharacterized. As part of a collaborative study of the O. novo-ulmi-elm interactome, we analyzed the O. novo-ulmi ssp. americana transcriptomes obtained by deep sequencing of messenger RNAs recovered from Ulmus americana saplings from one resistant (Valley Forge, VF) and one susceptible (S) elm genotypes at 0 and 96 h post-inoculation (hpi). Transcripts were identified for 6424 of the 8640 protein-coding genes annotated in the O. novo-ulmi nuclear genome. A total of 1439 genes expressed in planta had orthologs in the PHI-base curated database of genes involved in host-pathogen interactions, whereas 472 genes were considered differentially expressed (DEG) in S elms (370 genes) and VF elms (102 genes) at 96 hpi. Gene ontology (GO) terms for processes and activities associated with transport and transmembrane transport accounted for half (27/55) of GO terms that were significantly enriched in fungal genes upregulated in S elms, whereas the 22 GO terms enriched in genes overexpressed in VF elms included nine GO terms associated with metabolism, catabolism and transport of carbohydrates. Weighted gene co-expression network analysis identified three modules that were significantly associated with higher gene expression in S elms. The three modules accounted for 727 genes expressed in planta and included 103 DEGs upregulated in S elms. Knockdown- and knockout mutants were obtained for eight O. novo-ulmi genes. Although mutants remained virulent towards U. americana saplings, we identified a large repertoire of additional candidate O. novo-ulmi pathogenicity genes for functional validation by loss-of-function approaches. | en_US |
| dc.description.reviewstatus | Reviewed | en_US |
| dc.description.scholarlevel | Faculty | en_US |
| dc.description.sponsorship | This research was funded by Gosling Foundation, Guelph, ON, Canada, grant number: 050294, and by Genome Canada, Genome British Columbia and Génome Québec within the framework of project bioSAFE (Biosurveillance of Alien Forest Enemies, project number: 10106). | en_US |
| dc.identifier.citation | Nigg, M., de Oliveira, T., Sarmiento-Villamil, J., de la Bastide, P., Hintz, W., . . . Saxena, P. (2022). “Comparative analysis of transcriptomes of Ophiostoma novoulmi ssp. americana colonizing resistant or sensitive genotypes of American elm.” Journal of Fungi, 8(6), 637. https://doi.org/10.3390/jof8060637 | en_US |
| dc.identifier.uri | https://doi.org/10.3390/jof8060637 | |
| dc.identifier.uri | http://hdl.handle.net/1828/14454 | |
| dc.language.iso | en | en_US |
| dc.publisher | Journal of Fungi | en_US |
| dc.subject | Dutch elm disease | |
| dc.subject | Ophiostoma novo-ulmi | |
| dc.subject | RNA-Seq | |
| dc.subject | pathogenicity | |
| dc.subject | virulence | |
| dc.subject | mutants | |
| dc.subject | Centre for Forest Biology | |
| dc.subject.department | Department of Biology | |
| dc.title | Comparative analysis of transcriptomes of Ophiostoma novo-ulmi ssp. americana colonizing resistant or sensitive genotypes of American elm | en_US |
| dc.type | Article | en_US |