Comprehensive genomic and transcriptomic analysis of polycyclic aromatic hydrocarbon degradation by a mycoremediation fungus, Dentipellis sp. KUC8613

Autor: Kyoung Heon Kim, Robert Riley, Aditi Sharma, Jenifer Johnson, Bernard Henrissat, Byoungnam Min, In Geol Choi, Joseph W. Spatafora, Igor V. Grigoriev, Jungyeon Kim, Jae Jin Kim, Yeongseon Jang, Bill Andreopoulos, Hongjae Park, Anna Lipzen
Přispěvatelé: Korea University [Seoul], US Department of Energy Joint Genome Institute, Walnut Creek CA, USA, Korea Forest Research Institute, US Department of Energy Joint Genome Institute, U.S Department of Energy, U.S. Department of Energy [Washington] (DOE)-U.S. Department of Energy [Washington] (DOE), Biotechnology Center [Dresden] (BIOTEC), Technische Universität Dresden = Dresden University of Technology (TU Dresden), U.S. Department of Energy [Washington] (DOE), U.S. Department of Energy, Joint Genome Institute (JGI), Department of Botany and Plant Pathology, Oregon State University (OSU), Architecture et fonction des macromolécules biologiques (AFMB), Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Department of Energy / Joint Genome Institute (DOE), Los Alamos National Laboratory (LANL), Cooperative Research Program for Agriculture Science & Technology Development Rural Development Administration PJ01337602 New and Renewable Energy Core Technology Program of the Korea Institute of Energy Technology Evaluation and Planning (KETEP) grants from the Ministry of Trade, Industry and Energy, Republic of Korea 20173010092460 United States Department of Energy (DOE) DE-AC02-05CH11231
Rok vydání: 2019
Předmět:
Zdroj: Applied microbiology and biotechnology, vol 103, iss 19
Applied Microbiology and Biotechnology
Applied Microbiology and Biotechnology, Springer Verlag, 2019, 103 (19), pp.8145-8155. ⟨10.1007/s00253-019-10089-6⟩
Applied Microbiology and Biotechnology, 2019, 103 (19), pp.8145-8155. ⟨10.1007/s00253-019-10089-6⟩
ISSN: 1432-0614
0175-7598
DOI: 10.1007/s00253-019-10089-6
Popis: International audience; The environmental accumulation of polycyclic aromatic hydrocarbons (PAHs) is of great concern due to potential carcinogenic and mutagenic risks, as well as their resistance to remediation. While many fungi have been reported to break down PAHs in environments, the details of gene-based metabolic pathways are not yet comprehensively understood. Specifically, the genome-scale transcriptional responses of fungal PAH degradation have rarely been reported. In this study, we report the genomic and transcriptomic basis of PAH bioremediation by a potent fungal degrader, Dentipellis sp. KUC8613. The genome size of this fungus was 36.71 Mbp long encoding 14,320 putative protein-coding genes. The strain efficiently removed more than 90% of 100 mg/l concentration of PAHs within 10 days. The genomic and transcriptomic analysis of this white rot fungus highlights that the strain primarily utilized non-ligninolytic enzymes to remove various PAHs, rather than typical ligninolytic enzymes known for playing important roles in PAH degradation. PAH removal by non-ligninolytic enzymes was initiated by both different PAH-specific and common upregulation of P450s, followed by downstream PAH-transforming enzymes such as epoxide hydrolases, dehydrogenases, FAD-dependent monooxygenases, dioxygenases, and glycosyl- or glutathione transferases. Among the various PAHs, phenanthrene induced a more dynamic transcriptomic response possibly due to its greater cytotoxicity, leading to highly upregulated genes involved in the translocation of PAHs, a defense system against reactive oxygen species, and ATP synthesis. Our genomic and transcriptomic data provide a foundation of understanding regarding the mycoremediation of PAHs and the application of this strain for polluted environments.
Databáze: OpenAIRE
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