Skip to Main Content
U.S. Forest Service
Caring for the land and serving people

United States Department of Agriculture

Home > Search > Publication Information

  1. Share via EmailShare on FacebookShare on LinkedInShare on Twitter
    Dislike this pubLike this pub
    Author(s): Baojun Wu; Jill Gaskell; Benjamin W. Held; Cristina Toapanta; Thu Vuong; Steven Ahrendt; Anna Lipzen; Jiwei Zhang; Jonathan S. Schilling; Emma Master; Igor V Grigoriev; Robert A. Blanchette; Dan Cullen; David S. Hibbett
    Date: 2018
    Source: Applied and Environmental Microbiology. 84(16): 1-19.
    Publication Series: Scientific Journal (JRNL)
    Station: Forest Products Laboratory
    PDF: Download Publication  (548.0 KB)


    Wood-decaying fungi tend to have characteristic substrate ranges that partly define their ecological niche. Fomitopsis pinicola is a brown rot species of Polyporales that is reported on 82 species of softwoods and 42 species of hardwoods. We analyzed the gene expression levels and RNA editing profiles of F. pinicola from submerged cultures with ground wood powder (sampled at 5 days) or solid wood wafers (sampled at 10 and 30 days), using aspen, pine, and spruce substrates (aspen was used only in submerged cultures). Fomitopsis pinicola expressed similar sets of wood-degrading enzymes typical of brown rot fungi across all culture conditions and time points. Nevertheless, differential gene expression and RNA editing were observed across all pairwise comparisons of substrates and time points. Genes exhibiting differential expression and RNA editing encode diverse enzymes with known or potential function in brown rot decay, including laccase, benzoquinone reductase, aryl alcohol oxidase, cytochrome P450s, and various glycoside hydrolases. There was no overlap between differentially expressed and differentially edited genes, suggesting that these may provide F. pinicola with independent mechanisms for responding to different conditions. Comparing transcriptomes from submerged cultures and wood wafers, we found that culture conditions had a greater impact on global expression profiles than substrate wood species. In contrast, the suites of genes subject to RNA editing were much less affected by culture conditions. These findings highlight the need for standardization of culture conditions in studies of gene expression in wood-decaying fungi.

    Publication Notes

    • We recommend that you also print this page and attach it to the printout of the article, to retain the full citation information.
    • This article was written and prepared by U.S. Government employees on official time, and is therefore in the public domain.


    Wu, Baojun; Gaskell, Jill; Held, Benjamin W.; Toapanta, Cristina; Vuong, Thu; Ahrendt, Steven; Lipzen, Anna; Zhang, Jiwei; Schilling, Jonathan S.; Master, Emma; Grigoriev, Igor V.; Blanchette, Robert A.; Cullen, Dan; Hibbett, David S. 2018. Substrate-specific differential gene expression and RNA editing in the brown rot fungus Fomitopsis pinicola . Applied and Environmental Microbiology. 84(16): 1-19.


    Google Scholar


    Basidiomycetes, decay, lignocellulose, RNA editing, transcriptome

    Related Search

    XML: View XML
Show More
Show Fewer
Jump to Top of Page