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Acidobacteria members harbour an abundant and diverse carbohydrate-active enzymes (cazyme) and secreted proteasome repertoire, key factors for potential efficient biomass degradation

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Abstract

The Acidobacteria phylum is a very abundant group (20–30% of microbial communities in soil ecosystems); however, little is known about these microorganisms and their ability to degrade the biomass and lignocellulose due to the difficulty of culturing them. We, therefore, bioinformatically studied the content of lignocellulolytic enzymes (total and predicted secreted enzymes) and secreted peptidases in an in silico library containing 41 Acidobacteria genomes. The results showed a high abundance and diversity of total and secreted Carbohydrate-Active enzymes (cazyme) families among the Acidobacteria compared to known previous degraders. Indeed, the relative abundance of cazymes in some genomes represented more than 6% of the gene coding proteins with at least 300 cazymes. The same observation was made with the predicted secreted peptidases with several families of secreted peptidases, which represented at least 1.5% of the gene coding proteins in several genomes. These results allowed us to highlight the lignocellulolytic potential of the Acidobacteria phylum in the degradation of lignocellulosic biomass, which could explain its high abundance in the environment.

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Acknowledgements

The Funding support for this work has been received from EC2CO INSU “Novacultmic” project.

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  1. Université de Reims Champagne Ardenne, INRAE, FARE, UMR A 614, Chaire AFERE, 51097, Reims, France

    Marion Coluccia & Ludovic Besaury

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  1. Marion Coluccia
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  2. Ludovic Besaury
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MC and LB: performed data analysis, genetic data interpretation, and wrote custom scripts and the manuscript, participated in the discussions on the overall and detailed study plan. LB designed the research project and supervised it. All authors discussed the results and commented on the manuscript.

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Correspondence to Ludovic Besaury.

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Communicated by Martine Collart.

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Coluccia, M., Besaury, L. Acidobacteria members harbour an abundant and diverse carbohydrate-active enzymes (cazyme) and secreted proteasome repertoire, key factors for potential efficient biomass degradation. Mol Genet Genomics 298, 1135–1154 (2023). https://doi.org/10.1007/s00438-023-02045-x

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