title: Genome analysis of Desulfotomaculum gibsoniae strain Groll(T) a highly versatile Gram-positive sulfate-reducing bacterium.
abstract: Desulfotomaculum gibsoniae is a mesophilic member of the polyphyletic spore-forming genus Desulfotomaculum within the family Peptococcaceae. This bacterium was isolated from a freshwater ditch and is of interest because it can grow with a large variety of organic substrates, in particular several aromatic compounds, short-chain and medium-chain fatty acids, which are degraded completely to carbon dioxide coupled to the reduction of sulfate. It can grow autotrophically with H2 + CO2 and sulfate and slowly acetogenically with H2 + CO2, formate or methoxylated aromatic compounds in the absence of sulfate. It does not require any vitamins for growth. Here, we describe the features of D. gibsoniae strain Groll(T) together with the genome sequence and annotation. The chromosome has 4,855,529 bp organized in one circular contig and is the largest genome of all sequenced Desulfotomaculum spp. to date. A total of 4,666 candidate protein-encoding genes and 96 RNA genes were identified. Genes of the acetyl-CoA pathway, possibly involved in heterotrophic growth and in CO2 fixation during autotrophic growth, are present. The genome contains a large set of genes for the anaerobic transformation and degradation of aromatic compounds, which are lacking in the other sequenced Desulfotomaculum genomes.
authors.affiliation: Department of Microbiology, Bremen Institute for Materials Testing, Bremen, Germany.
authors.forename: Jan
authors.initials: J
authors.lastname: Kuever
authors.affiliation: Wageningen University, Laboratory of Microbiology, Wageningen, The Netherlands.
authors.forename: Michael
authors.initials: M
authors.lastname: Visser
authors.affiliation: Albert-Ludwigs-University Freiburg, Institute of Biology II, Freiburg, Germany.
authors.forename: Claudia
authors.initials: C
authors.lastname: Loeffler
authors.affiliation: Albert-Ludwigs-University Freiburg, Institute of Biology II, Freiburg, Germany.
authors.forename: Matthias
authors.initials: M
authors.lastname: Boll
authors.affiliation: Wageningen University, Laboratory of Microbiology, Wageningen, The Netherlands.
authors.forename: Petra
authors.initials: P
authors.lastname: Worm
authors.affiliation: Wageningen University, Laboratory of Microbiology, Wageningen, The Netherlands.
authors.forename: Diana Z
authors.initials: DZ
authors.lastname: Sousa
authors.affiliation: Wageningen University, Laboratory of Microbiology, Wageningen, The Netherlands.
authors.forename: Caroline M
authors.initials: CM
authors.lastname: Plugge
authors.affiliation: Wageningen University, Laboratory of Systems and Synthetic Biology, Wageningen, The Netherlands.
authors.forename: Peter J
authors.initials: PJ
authors.lastname: Schaap
authors.affiliation: Department of Aquatic Microbiology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, The Netherlands.
authors.forename: Gerard
authors.initials: G
authors.lastname: Muyzer
authors.affiliation: Instituto de Tecnologia Quimica e Biologica, Universidade Nova de Lisboa, Oeiras, Portugal.
authors.forename: Ines A C
authors.initials: IA
authors.lastname: Pereira
authors.affiliation: Winogradsky Institute of Microbiology Russian Academy of Sciences, Moscow, Russia.
authors.forename: Sofiya N
authors.initials: SN
authors.lastname: Parshina
authors.affiliation: DOE Joint Genome Institute, Walnut Creek, California, USA ; Los Alamos National Laboratory, Bioscience Division, Los Alamos, New Mexico, USA.
authors.forename: Lynne A
authors.initials: LA
authors.lastname: Goodwin
authors.affiliation: DOE Joint Genome Institute, Walnut Creek, California, USA.
authors.forename: Nikos C
authors.initials: NC
authors.lastname: Kyrpides
authors.affiliation: Los Alamos National Laboratory, Bioscience Division, Los Alamos, New Mexico, USA.
authors.forename: Janine
authors.initials: J
authors.lastname: Detter
authors.affiliation: DOE Joint Genome Institute, Walnut Creek, California, USA.
authors.forename: Tanja
authors.initials: T
authors.lastname: Woyke
authors.affiliation: DOE Joint Genome Institute, Walnut Creek, California, USA ; Los Alamos National Laboratory, Bioscience Division, Los Alamos, New Mexico, USA.
authors.forename: Patrick
authors.initials: P
authors.lastname: Chain
authors.affiliation: DOE Joint Genome Institute, Walnut Creek, California, USA ; Los Alamos National Laboratory, Bioscience Division, Los Alamos, New Mexico, USA.
authors.forename: Karen W
authors.initials: KW
authors.lastname: Davenport
authors.affiliation: HZI - Helmholtz Centre for Infection Research, Braunschweig, Germany.
authors.forename: Manfred
authors.initials: M
authors.lastname: Rohde
authors.affiliation: Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany.
authors.forename: Stefan
authors.initials: S
authors.lastname: Spring
authors.affiliation: Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany.
authors.forename: Hans-Peter
authors.initials: HP
authors.lastname: Klenk
authors.affiliation: Wageningen University, Laboratory of Microbiology, Wageningen, The Netherlands ; University of Minho, Centre of Biological Engineering, Braga, Portugal.
authors.forename: Alfons J M
authors.initials: AJ
authors.lastname: Stams
keywords: Clostridiales; Peptococcaceae; anaerobic degradation of aromatic compounds; autotrophic; complete oxidizer; spore-forming anaerobes; sulfate reduction