Gene regulatory networks controlling carbohydrate selective deconstruction pathways in fungi
- Clark Univ., Worcester, MA (United States)
The work performed at Clark University (PI, David Hibbett) was a subcomponent of the research lead by Jonathan Schilling at University of Minnesota (award number DE-SC0019427). The overall goal of this project was to address how fungi metabolize lignocellulose. Specifically, we targeted a carbohydrate-selective group of fungi known as 'brown rot' fungi that are well-aligned to be harness for bioconversion to biofuels and other products. These organisms orchestrate a two-step mechanism that initiates decomposition using oxidative radical-based chemistry and follows with enzymatic attack. We have helped characterize that this mechanism occurs in this sequence, but currently lack the fundamental regulatory information needed to harness these fungi for application. Thus, the major goal of this project was to use systems biology to create an integrated model of brown rot wood decay that couples fungal gene regulation with the metabolite feedbacks used to coordinate a two-step oxidative-hydrolytic mechanism. The research at Clark University focused on phylogenomic analyses of data produced by other project partners. Hence, the Clark component of the research was staged to initiate somewhat after that in other partner laboratories. The major Clark-based accomplishment was to advise on selection of fungal species for analyses of brown rot decay chemistry, and to interpret results in a phylogenetic context. The Clark University group also performed complementary analyses of gene families encoding plant cell wall-degrading enzymes in the the basidiomycete genus Lentinula, as well as analyses of substrate-specific gene expression and RNA editing in brown rot fungi.
- Research Organization:
- Univ. of Minnesota, Minneapolis, MN (United States); Clark Univ., Worcester, MA (United States)
- Sponsoring Organization:
- USDOE Office of Science (SC), Biological and Environmental Research (BER)
- DOE Contract Number:
- SC0019427; SC0019357
- OSTI ID:
- 1896855
- Report Number(s):
- DOE-CLARK-19427
- Resource Relation:
- Related Information: Wu, Baojun, Jill Gaskell, Benjamin Held, Cristina Toapanta, Thu Vuong, Steven Ahrendt, Anna Lipzen, Jiwei Zhang, Jonathan Schilling, Emma Master, Igor Grigoriev, Robert Blanchette, Daniel Cullen, and David Hibbett. 2018. Substrate-Specific Differential Gene Expression and RNA editing in the Brown Rot Fungus Fomitopsis pinicola. Applied and Environmental Microbiology 84(16): e00991-18.Wu, Baojun, Jill Gaskell, Jiwei Zhang, Cristina Toapanta, Steven Ahrendt, Igor V. Grigoriev, Robert Blanchette, Jonathan Schilling, Emma Master, Daniel Cullen, and David Hibbett. 2019. Evolution of substrate-specific gene expression and RNA editing in brown rot wood-decaying fungi. The ISME Journal. Vol. 13 https:// doi.org/10.1038/s41396-019-0359-2.Min, Byougnam, Baojun Wu, Jill Gaskell, Jiwei Zhang, Christina Toapanta, Steven Ahrendt, Robert A. Blanchette, Emma Master, Daniel Cullen, David S. Hibbett, and Igor V. Grigoriev. 2021. RNA editing in Basidiomycota revisited. ISME Communications 1, 70. https://doi.org/10.1038/s43705-021-00037-9Sabat, Grzegorz, Steven Ahrendt, Baojun WU, Jill Gaskell, Benjamin Held, Cristina Toapanta, Thu Vuong, Anna Lipzen, Jiwei Zhang, Jonathan Schilling, Emma Master, Igor Grigoriev, Robert Blanchette, David Hibbett, Jennifer Bhatnagar, and Daniel Cullen. 2022. Proteome of the wood decay fungus Fomitopsis pinicola is altered by substrate. Microbiology Resource Announcements 11; DOI: https://doi.org/10.1128/mra.00586-22
- Country of Publication:
- United States
- Language:
- English
RNA-editing in Basidiomycota, revisited
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journal | December 2021 |
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