The mycoremediation potential of the armillarioids: a comparative genomics analysis

Simang Champramary; Boris Indic; Attila Szűcs; Chetna Tyagi; Omar Languar; K M Faridul Hasan; András Szekeres; Csaba Vágvölgyi; László Kredics; György Sipos

doi:10.3389/fbioe.2023.1189640

The mycoremediation potential of the armillarioids: a comparative genomics analysis

Front Bioeng Biotechnol. 2023 Aug 17:11:1189640. doi: 10.3389/fbioe.2023.1189640. eCollection 2023.

Authors

Affiliations

¹ Functional Genomics and Bioinformatics Group, Institute of Forest and Natural Resource Management, Faculty of Forestry, University of Sopron, Sopron, Hungary.
² Department of Microbiology, Faculty of Science and Informatics, University of Szeged, Szeged, Hungary.
³ Fibre and Nanotechnology Program, Faculty of Wood Engineering and Creative Industries, University of Sopron, Sopron, Hungary.

Abstract

Genes involved in mycoremediation were identified by comparative genomics analysis in 10 armillarioid species and selected groups of white-rot Basidiomycota (14) and soft-rot Ascomycota (12) species to confine the distinctive bioremediation capabilities of the armillarioids. The genomes were explored using phylogenetic principal component analysis (pPCA), searching for genes already documented in a biocatalysis/biodegradation database. The results underlined a distinct, increased potential of aromatics-degrading genes/enzymes in armillarioids, with particular emphasis on a high copy number and diverse spectrum of benzoate 4-monooxygenase [EC:1.14.14.92] homologs. In addition, other enzymes involved in the degradation of various monocyclic aromatics were more abundant in the armillarioids than in the other white-rot basidiomycetes, and enzymes involved in the degradation of polycyclic aromatic hydrocarbons (PAHs) were more prevailing in armillarioids and other white-rot species than in soft-rot Ascomycetes. Transcriptome profiling of A. ostoyae and A. borealis isolates confirmed that several genes involved in the degradation of benzoates and other monocyclic aromatics were distinctively expressed in the wood-invading fungal mycelia. Data were consistent with armillarioid species offering a more powerful potential in degrading aromatics. Our results provide a reliable, practical solution for screening the likely fungal candidates for their full biodegradation potential, applicability, and possible specialization based on their genomics data.

Keywords: armillarioids; benzoate 4-monooxygenase; biodegradation; mycoremediation; phylogenetic principal component analysis; white-rot.

Grants and funding

This research was funded by the Hungarian Government and the European Union within the frames of the Széchenyi 2020 Programme (GINOP-2.3.2-15-2016-00052). The publication of this article was supported by the RRF-2.1.2-21-2022-00011 project, financed by the Government of Hungary within the framework of the Recovery and Resilience Facility.