Complete genome analysis of Clostridium bornimense strain M2/40(T). A new acidogenic Clostridium species isolated from a mesophilic two-phase laboratory-scale biogas reactor

Tomazetto G, Hahnke S, Koeck DE, Wibberg D, Maus I, Pühler A, Klocke M, Schlüter A (2016)
Journal of Biotechnology 232: 38-49.

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Zeitschriftenaufsatz | Veröffentlicht | Englisch
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Abstract / Bemerkung
Taxonomic and functional profiling based on metagenome analyses frequently revealed that members of the class Clostridia dominate biogas reactor communities and perform different essential metabolic pathways in the biogas fermentation process. Clostridium bornimense strain M2/40T was recently isolated from a mesophilic two-phase lab-scale biogas reactor continuously fed with maize silage and wheat straw. The genome of the strain was completely sequenced and manually annotated to reconstruct its metabolic potential regarding carbohydrate active enzyme production and fermentation of organic compounds for consolidated biofuel production from biomass. The C. bornimense M2/40T genome consists of a chromosome (2,917,864 bp in size) containing 2613 protein coding sequences, and a 699,161 bp chromid (secondary replicon) harboring 680 coding sequences. Both replicons feature very similar GC-contents of approximately 29%. The complex genome comprises three prophage regions, two CRISPR-cas systems and a putative cellulosomal gene cluster that is located on the second replicon (chromid) of the strain. The overexpressed glycosyl hydrolases (GH) Ce1K (GH9) and Ce1A (GH48) encoded in the cellulosomal gene cluster were shown to be active on the substrates xylan and xyloglucan whereas XghA (GH74) is highly active on xyloglucan. Reconstruction of fermentation pathways from genome sequence data revealed that strain M2/40T encodes all enzymes for hydrogen, acetate, formate, lactate, butyrate, and ethanol production, leading to the classification of the isolate as acidogenic bacterium. Phylogenetic analyses uncovered that the closest characterized relative of C. bornimense is C. cellulovorans. Comparative analyses of the C. bornimense and C. cellulovorans genomes revealed considerable rearrangements within their chromosomes suggesting that both species evolved separately for a relatively long period of time and adapted to specific tasks within microbial consortia responsible for anaerobic digestion. (C) 2015 Elsevier B.V. All rights reserved.
Erscheinungsjahr
Zeitschriftentitel
Journal of Biotechnology
Band
232
Seite
38-49
Konferenz
10th CeBiTec Symposium on Bioinformatics for Biotechnology and Biomedicine
Konferenzort
Bielefeld, Germany
ISSN
eISSN
PUB-ID

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Tomazetto G, Hahnke S, Koeck DE, et al. Complete genome analysis of Clostridium bornimense strain M2/40(T). A new acidogenic Clostridium species isolated from a mesophilic two-phase laboratory-scale biogas reactor. Journal of Biotechnology. 2016;232:38-49.
Tomazetto, G., Hahnke, S., Koeck, D. E., Wibberg, D., Maus, I., Pühler, A., Klocke, M., et al. (2016). Complete genome analysis of Clostridium bornimense strain M2/40(T). A new acidogenic Clostridium species isolated from a mesophilic two-phase laboratory-scale biogas reactor. Journal of Biotechnology, 232, 38-49. doi:10.1016/j.jbiotec.2015.08.001
Tomazetto, G., Hahnke, S., Koeck, D. E., Wibberg, D., Maus, I., Pühler, A., Klocke, M., and Schlüter, A. (2016). Complete genome analysis of Clostridium bornimense strain M2/40(T). A new acidogenic Clostridium species isolated from a mesophilic two-phase laboratory-scale biogas reactor. Journal of Biotechnology 232, 38-49.
Tomazetto, G., et al., 2016. Complete genome analysis of Clostridium bornimense strain M2/40(T). A new acidogenic Clostridium species isolated from a mesophilic two-phase laboratory-scale biogas reactor. Journal of Biotechnology, 232, p 38-49.
G. Tomazetto, et al., “Complete genome analysis of Clostridium bornimense strain M2/40(T). A new acidogenic Clostridium species isolated from a mesophilic two-phase laboratory-scale biogas reactor”, Journal of Biotechnology, vol. 232, 2016, pp. 38-49.
Tomazetto, G., Hahnke, S., Koeck, D.E., Wibberg, D., Maus, I., Pühler, A., Klocke, M., Schlüter, A.: Complete genome analysis of Clostridium bornimense strain M2/40(T). A new acidogenic Clostridium species isolated from a mesophilic two-phase laboratory-scale biogas reactor. Journal of Biotechnology. 232, 38-49 (2016).
Tomazetto, Geizecler, Hahnke, Sarah, Koeck, Daniela E., Wibberg, Daniel, Maus, Irena, Pühler, Alfred, Klocke, Michael, and Schlüter, Andreas. “Complete genome analysis of Clostridium bornimense strain M2/40(T). A new acidogenic Clostridium species isolated from a mesophilic two-phase laboratory-scale biogas reactor”. Journal of Biotechnology 232 (2016): 38-49.

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Characterization of the arabinoxylan-degrading machinery of the thermophilic bacterium Herbinix hemicellulosilytica-Six new xylanases, three arabinofuranosidases and one xylosidase.
Mechelke M, Koeck DE, Broeker J, Roessler B, Krabichler F, Schwarz WH, Zverlov VV, Zverlov VV, Liebl W., J Biotechnol 257(), 2017
PMID: 28450260
Genomics and prevalence of bacterial and archaeal isolates from biogas-producing microbiomes.
Maus I, Bremges A, Stolze Y, Hahnke S, Cibis KG, Koeck DE, Kim YS, Kreubel J, Hassa J, Wibberg D, Weimann A, Off S, Stantscheff R, Zverlov VV, Schwarz WH, König H, Liebl W, Scherer P, McHardy AC, Sczyrba A, Klocke M, Pühler A, Schlüter A., Biotechnol Biofuels 10(), 2017
PMID: 29158776
Pan-Cellulosomics of Mesophilic Clostridia: Variations on a Theme.
Dassa B, Borovok I, Lombard V, Henrissat B, Lamed R, Bayer EA, Moraïs S., Microorganisms 5(4), 2017
PMID: 29156585

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