title: Genome analyses of the carboxydotrophic sulfate-reducers Desulfotomaculum nigrificans and Desulfotomaculum carboxydivorans and reclassification of Desulfotomaculum caboxydivorans as a later synonym of Desulfotomaculum nigrificans.
abstract: Desulfotomaculum nigrificans and D. carboxydivorans are moderately thermophilic members of the polyphyletic spore-forming genus Desulfotomaculum in the family Peptococcaceae. They are phylogenetically very closely related and belong to 'subgroup a' of the Desulfotomaculum cluster 1. D. nigrificans and D. carboxydivorans have a similar growth substrate spectrum; they can grow with glucose and fructose as electron donors in the presence of sulfate. Additionally, both species are able to ferment fructose, although fermentation of glucose is only reported for D. carboxydivorans. D. nigrificans is able to grow with 20% carbon monoxide (CO) coupled to sulfate reduction, while D. carboxydivorans can grow at 100% CO with and without sulfate. Hydrogen is produced during growth with CO by D. carboxydivorans. Here we present a summary of the features of D. nigrificans and D. carboxydivorans together with the description of the complete genome sequencing and annotation of both strains. Moreover, we compared the genomes of both strains to reveal their differences. This comparison led us to propose a reclassification of D. carboxydivorans as a later heterotypic synonym of D. nigrificans.
authors.affiliation: Laboratory of Microbiology, Wageningen University, Wageningen, The Netherlands.
authors.forename: Michael
authors.initials: M
authors.lastname: Visser
authors.affiliation: Wingradsky Institute of Microbiology, Russian Academy of Sciences, Moscow, Russia.
authors.forename: Sofiya N
authors.initials: SN
authors.lastname: Parshina
authors.affiliation: Centre of Biological Engineering, University of Minho, Braga, Portugal.
authors.forename: Joana I
authors.initials: JI
authors.lastname: Alves
authors.affiliation: Laboratory of Microbiology, Wageningen University, Wageningen, The Netherlands ; Centre of Biological Engineering, University of Minho, Braga, Portugal.
authors.forename: Diana Z
authors.initials: DZ
authors.lastname: Sousa
authors.affiliation: Instituto de Tecnologia Quimica e Biologica, Universidade Nova de Lisboa, Oeiras, Portugal.
authors.forename: Inês A C
authors.initials: IA
authors.lastname: Pereira
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: Department of Microbiology, Bremen Institute for Materials Testing, Bremen, Germany.
authors.forename: Jan
authors.initials: J
authors.lastname: Kuever
authors.affiliation: Wingradsky Institute of Microbiology, Russian Academy of Sciences, Moscow, Russia.
authors.forename: Alexander V
authors.initials: AV
authors.lastname: Lebedinsky
authors.affiliation: Laboratory of Systems and Synthetic Biology, Wageningen University, Wageningen, The Netherlands.
authors.forename: Jasper J
authors.initials: JJ
authors.lastname: Koehorst
authors.affiliation: Laboratory of Microbiology, Wageningen University, Wageningen, The Netherlands.
authors.forename: Petra
authors.initials: P
authors.lastname: Worm
authors.affiliation: Laboratory of Microbiology, Wageningen University, Wageningen, The Netherlands.
authors.forename: Caroline M
authors.initials: CM
authors.lastname: Plugge
authors.affiliation: Laboratory of Systems and Synthetic Biology, Wageningen University, Wageningen, The Netherlands.
authors.forename: Peter J
authors.initials: PJ
authors.lastname: Schaap
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: Theodosius Dobzhansky Center for Genome Bionformatics, St. Petersburg State University, St. Petersburg, Russia ; Algorithmic Biology Lab, St. Petersburg Academic University, St. Petersburg, Russia.
authors.forename: Alla
authors.initials: A
authors.lastname: Lapidus
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 C
authors.initials: JC
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: Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany.
authors.forename: Stefan
authors.initials: S
authors.lastname: Spring
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: Hans Peter
authors.initials: HP
authors.lastname: Klenk
authors.affiliation: Laboratory of Microbiology, Wageningen University, Wageningen, The Netherlands ; Centre of Biological Engineering, University of Minho, Braga, Portugal.
authors.forename: Alfons J M
authors.initials: AJ
authors.lastname: Stams
keywords: Clostridiales; Peptococcaceae; Thermophilic spore-forming anaerobes; carboxydotrophic; sulfate reduction