Comparative Analysis of Transcriptomes of Ophiostoma novo-ulmi ssp. americana Colonizing Resistant or Sensitive Genotypes of American Elm
| dc.contributor.author | Nigg, Martha | en |
| dc.contributor.author | de Oliveira, Thais C. | en |
| dc.contributor.author | Sarmiento-Villamil, Jorge L. | en |
| dc.contributor.author | de la Bastide, Paul Y. | en |
| dc.contributor.author | Hintz, Will E. | en |
| dc.contributor.author | Sherif, Sherif M. | en |
| dc.contributor.author | Shukla, Mukund | en |
| dc.contributor.author | Bernier, Louis | en |
| dc.contributor.author | Saxena, Praveen K. | en |
| dc.date.accessioned | 2022-06-23T18:50:22Z | en |
| dc.date.available | 2022-06-23T18:50:22Z | en |
| dc.date.issued | 2022-06-16 | en |
| dc.date.updated | 2022-06-23T12:11:27Z | en |
| dc.description.abstract | The Ascomycete <i>Ophiostoma novo-ulmi</i> threatens elm populations worldwide. The molecular mechanisms underlying its pathogenicity and virulence are still largely uncharacterized. As part of a collaborative study of the <i>O. novo-ulmi</i>-elm interactome, we analyzed the <i>O. novo-ulmi</i> ssp. <i>americana</i> transcriptomes obtained by deep sequencing of messenger RNAs recovered from <i>Ulmus americana</i> 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 <i>O. novo-ulmi</i> 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 <i>O. novo-ulmi</i> genes. Although mutants remained virulent towards <i>U. americana</i> saplings, we identified a large repertoire of additional candidate <i>O. novo-ulmi</i> pathogenicity genes for functional validation by loss-of-function approaches. | en |
| dc.description.version | Published version | en |
| dc.format.mimetype | application/pdf | en |
| dc.identifier.citation | Nigg, M.; de Oliveira, T.C.; Sarmiento-Villamil, J.L.; de la Bastide, P.Y.; Hintz, W.E.; Sherif, S.M.; Shukla, M.; Bernier, L.; Saxena, P.K. Comparative Analysis of Transcriptomes of Ophiostoma novo-ulmi ssp. americana Colonizing Resistant or Sensitive Genotypes of American Elm. J. Fungi 2022, 8, 637. | en |
| dc.identifier.doi | https://doi.org/10.3390/jof8060637 | en |
| dc.identifier.uri | http://hdl.handle.net/10919/110904 | en |
| dc.language.iso | en | en |
| dc.publisher | MDPI | en |
| dc.rights | Creative Commons Attribution 4.0 International | en |
| dc.rights.uri | http://creativecommons.org/licenses/by/4.0/ | en |
| dc.subject | Dutch elm disease | en |
| dc.subject | Ophiostoma novo-ulmi | en |
| dc.subject | RNA-Seq | en |
| dc.subject | pathogenicity | en |
| dc.subject | virulence | en |
| dc.subject | mutants | en |
| dc.title | Comparative Analysis of Transcriptomes of Ophiostoma novo-ulmi ssp. americana Colonizing Resistant or Sensitive Genotypes of American Elm | en |
| dc.title.serial | Journal of Fungi | en |
| dc.type | Article - Refereed | en |
| dc.type.dcmitype | Text | en |