Journal article
Fungal secretome profile categorization of CAZymes by function and family corresponds to fungal phylogeny and taxonomy: Example Aspergillus and Penicillium
Department of Biotechnology and Biomedicine, Technical University of Denmark1
Section for Protein Chemistry and Enzyme Technology, Department of Biotechnology and Biomedicine, Technical University of Denmark2
Enzyme Technology, Section for Protein Chemistry and Enzyme Technology, Department of Biotechnology and Biomedicine, Technical University of Denmark3
CHO Core, Translational Management, Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark4
Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark5
Center for Microbial Secondary Metabolites, Centers, Technical University of Denmark6
Section for Synthetic Biology, Department of Biotechnology and Biomedicine, Technical University of Denmark7
Fungal Chemodiversity, Section for Microbial and Chemical Ecology, Department of Biotechnology and Biomedicine, Technical University of Denmark8
LLa-Bioeconomy9
Fungi secrete an array of carbohydrate-active enzymes (CAZymes), reflecting their specialized habitat-related substrate utilization. Despite its importance for fitness, enzyme secretome composition is not used in fungal classification, since an overarching relationship between CAZyme profiles and fungal phylogeny/taxonomy has not been established.
For 465 Ascomycota and Basidiomycota genomes, we predicted CAZyme-secretomes, using a new peptide-based annotation method, Conserved-Unique-Peptide-Patterns, enabling functional prediction directly from sequence. We categorized each enzyme according to CAZy-family and predicted molecular function, hereby obtaining a list of "EC-Function;CAZy-Family" observations.
These "Function;Family"-based secretome profiles were compared, using a Yule-dissimilarity scoring algorithm, giving equal consideration to the presence and absence of individual observations. Assessment of "Function;Family" enzyme profile relatedness (EPR) across 465 genomes partitioned Ascomycota from Basidiomycota placing Aspergillus and Penicillium among the Ascomycota.
Analogously, we calculated CAZyme "Function;Family" profile-similarities among 95 Aspergillus and Penicillium species to form an alignment-free, EPR-based dendrogram. This revealed a stunning congruence between EPR categorization and phylogenetic/taxonomic grouping of the Aspergilli and Penicillia. Our analysis suggests EPR grouping of fungi to be defined both by "shared presence" and "shared absence" of CAZyme "Function;Family" observations.
This finding indicates that CAZymes-secretome evolution is an integral part of fungal speciation, supporting integration of cladogenesis and anagenesis.
Language: | English |
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Publisher: | Nature Publishing Group UK |
Year: | 2020 |
Pages: | 5158 |
ISSN: | 20452322 |
Types: | Journal article |
DOI: | 10.1038/s41598-020-61907-1 |
ORCIDs: | Barrett, Kristian , Meyer, Anne S. and Frisvad, Jens Christian |