title: Hydrogenomics of the extremely thermophilic bacterium Caldicellulosiruptor saccharolyticus.
abstract: Caldicellulosiruptor saccharolyticus is an extremely thermophilic, gram-positive anaerobe which ferments cellulose-, hemicellulose- and pectin-containing biomass to acetate, CO(2), and hydrogen. Its broad substrate range, high hydrogen-producing capacity, and ability to coutilize glucose and xylose make this bacterium an attractive candidate for microbial bioenergy production. Here, the complete genome sequence of C. saccharolyticus, consisting of a 2,970,275-bp circular chromosome encoding 2,679 predicted proteins, is described. Analysis of the genome revealed that C. saccharolyticus has an extensive polysaccharide-hydrolyzing capacity for cellulose, hemicellulose, pectin, and starch, coupled to a large number of ABC transporters for monomeric and oligomeric sugar uptake. The components of the Embden-Meyerhof and nonoxidative pentose phosphate pathways are all present; however, there is no evidence that an Entner-Doudoroff pathway is present. Catabolic pathways for a range of sugars, including rhamnose, fucose, arabinose, glucuronate, fructose, and galactose, were identified. These pathways lead to the production of NADH and reduced ferredoxin. NADH and reduced ferredoxin are subsequently used by two distinct hydrogenases to generate hydrogen. Whole-genome transcriptome analysis revealed that there is significant upregulation of the glycolytic pathway and an ABC-type sugar transporter during growth on glucose and xylose, indicating that C. saccharolyticus coferments these sugars unimpeded by glucose-based catabolite repression. The capacity to simultaneously process and utilize a range of carbohydrates associated with biomass feedstocks is a highly desirable feature of this lignocellulose-utilizing, biofuel-producing bacterium.
authors.affiliation: Laboratory of Microbiology, Wageningen University, Wageningen, The Netherlands.
authors.forename: Harmen J G
authors.initials: HJ
authors.lastname: van de Werken
authors.forename: Marcel R A
authors.initials: MR
authors.lastname: Verhaart
authors.forename: Amy L
authors.initials: AL
authors.lastname: VanFossen
authors.forename: Karin
authors.initials: K
authors.lastname: Willquist
authors.forename: Derrick L
authors.initials: DL
authors.lastname: Lewis
authors.forename: Jason D
authors.initials: JD
authors.lastname: Nichols
authors.forename: Heleen P
authors.initials: HP
authors.lastname: Goorissen
authors.forename: Emmanuel F
authors.initials: EF
authors.lastname: Mongodin
authors.forename: Karen E
authors.initials: KE
authors.lastname: Nelson
authors.forename: Ed W J
authors.initials: EW
authors.lastname: van Niel
authors.forename: Alfons J M
authors.initials: AJ
authors.lastname: Stams
authors.forename: Donald E
authors.initials: DE
authors.lastname: Ward
authors.forename: Willem M
authors.initials: WM
authors.lastname: de Vos
authors.forename: John
authors.initials: J
authors.lastname: van der Oost
authors.forename: Robert M
authors.initials: RM
authors.lastname: Kelly
authors.forename: Servé W M
authors.initials: SW
authors.lastname: Kengen
mesh_terms: D001426:Bacterial Proteins / Q000235:genetics; D050260:Carbohydrate Metabolism / Q000235:genetics; D004269:DNA, Bacterial / Q000737:chemistry* / Q000235:genetics*; D004798:Enzymes / Q000235:genetics; D020869:Gene Expression Profiling; D016680:Genome, Bacterial; D006094:Gram-Positive Bacteria / Q000235:genetics*; D053858:Metabolic Networks and Pathways / Q000235:genetics; D008969:Molecular Sequence Data; D017422:Sequence Analysis, DNA
chemical_list: D001426:Bacterial Proteins; D004269:DNA, Bacterial; D004798:Enzymes
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