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Title: Evolution of substrate-specific gene expression and RNA editing in brown rot wood-decaying fungi

Source: The ISME Journal. 13(6): 1391-1403.

Author(s)Wu, Baojun ; Gaskell, Jill ; Zhang, Jiwei ; Toapanta, Christina ; Ahrendt, Steven ; Grigoriev, Igor V; Blanchette, Robert A.; Schilling, Jonathan S.; Master, Emma ; Cullen, Daniel ; Hibbett, David S.

Publication Year: 2019  View PDF »

Category: Journal Articles
Associated Research Project(s):   FPL-4712-4B

Abstract: Fungi that decay wood have characteristic associations with certain tree species, but the mechanistic bases for these associations are poorly understood. We studied substrate-specific gene expression and RNA editing in six species of wood-decaying fungi from the ‘Antrodia clade’ (Polyporales, Agaricomycetes) on three different wood substrates (pine, spruce, and aspen) in submerged cultures. We identified dozens to hundreds of substrate-biased genes (i.e., genes that are significantly upregulated in one substrate relative to the other two substrates) in each species, and these biased genes are correlated with their host ranges. Evolution of substrate-biased genes is associated with gene family expansion, gain and loss of genes, and variation in cis-and trans-regulatory elements, rather than changes in protein coding sequences. We also demonstrated widespread RNA editing events in the Antrodia clade, which differ from those observed in the Ascomycota in their distribution, substitution types, and the genomic environment. Moreover, we found that substrates could affect editing positions and frequency, including editing events occurring in mRNA transcribed from wood-decay-related genes. This work shows the extent to which gene expression and RNA editing differ among species and substrates, and provides clues into mechanisms by which wood-decaying fungi may adapt to different hosts.

Keywords: Brown rot; wood decay; substrate-specificity; RNA editing

Publication Review Process: Formally Refereed

File size: 3,072 kb(s)

Date posted: 10/01/2019

This publication is also viewable on Treesearch:  view
RITS Product ID: 96353
Current FPL Scientist associated with this product
Cullen, Daniel
Research Microbiologist

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