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Function, distribution, and annotation of characterized cellulases, xylanases, and chitinases from CAZy

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Abstract

The enzymatic deconstruction of structural polysaccharides, which relies on the production of specific glycoside hydrolases (GHs), is an essential process across environments. Over the past few decades, researchers studying the diversity and evolution of these enzymes have isolated and biochemically characterized thousands of these proteins. The carbohydrate-active enzymes database (CAZy) lists these proteins and provides some metadata. Here, the sequences and metadata of characterized sequences derived from GH families associated with the deconstruction of cellulose, xylan, and chitin were collected and discussed. First, although few polyspecific enzymes are identified, characterized GH families are mostly monospecific. Next, the taxonomic distribution of characterized GH mirrors the distribution of identified sequences in sequenced genomes. This provides a rationale for connecting the identification of GH sequences to specific reactions or lineages. Finally, we tested the annotation of the characterized GHs using HMM scan and the protein families database (Pfam). The vast majority of GHs targeting cellulose, xylan, and chitin can be identified using this publicly accessible approach.

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Acknowledgements

We thank all investigators who contributed to the characterization of listed sequences. We thank M.B. Harris for comments on earlier versions of the manuscript.

Funding

This work was supported by the CSU Program for Research and Education in Biotechnology (CSUPERB) under award number GF00631142 by the National Institute of General Medical Sciences of the National Institutes of Health under Award number 8UL1GM118979-02. The content is solely the responsibility of the author and does not necessarily represent the official views of the National Institutes of Health.

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Correspondence to Renaud Berlemont.

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The authors declare that they have no conflict of interest.

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This article does not contain any studies with human participants or animals performed by any of the authors.

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Nguyen, S.T.C., Freund, H.L., Kasanjian, J. et al. Function, distribution, and annotation of characterized cellulases, xylanases, and chitinases from CAZy. Appl Microbiol Biotechnol 102, 1629–1637 (2018). https://doi.org/10.1007/s00253-018-8778-y

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  • DOI: https://doi.org/10.1007/s00253-018-8778-y

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