Genome analysis of Desulfotomaculum gibsoniae strain GrollT 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 GrollT 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.

Temporal Responses of Microbial Communities to Anaerobic Soil Disinfestation

“…In addition to Azotobacter, we identified Oxobacter, Desulfotomaculum, and Desulfosporosinus abundances as being significantly correlated with nifH abundances. These genera also have the genomic potential for nitrogen fixation [49][50][51]. Our results here and in the field trial indicate that nitrogen fixation may be an Finally, on day 9, we compared soil microbiomes derived from DNA and RNA (cDNA) extractions to determine if there was a difference in the present versus active components of the communities (Fig.…”

A Post-Genomic View of the Ecophysiology, Catabolism and Biotechnological Relevance of Sulphate-Reducing Prokaryotes

“…In the acetogenic bacteria A. woodii and M. thermoacetica, the tetrameric HydABCD hydrogenase oxidizes H 2 to reduce ferredoxin and NAD + in a FBEB reaction (Schuchmann & Müller, 2012). A bifurcating [FeFe] hydrogenase is present in several Deltaproteobacteria (including D. vulgaris Hildenborough), and multiple copies are found in the genomes of clostridial SRP (Kuever et al, 2014;Spring et al, 2009Spring et al, , 2012Visser et al, 2014Visser et al, , 2013. It can be found as a tetramer, trimer and even a dimer .…”

“…were determined (e.g. Kuever et al, 2014), which together might serve as a basis for a phylogenomic evaluation of the heterogeneous Desulfotomaculum genus.…”

Comparative Proteomic Analysis of Desulfotomaculum reducens MI-1: Insights into the Metabolic Versatility of a Gram-Positive Sulfate- and Metal-Reducing Bacterium

“…The Desulfotomaculum genus is composed of anaerobic, Gram-positive, endospore-forming SROs. These Peptococcaceae are widely distributed in the environment, and the number of identified species as well as sequenced genomes is continually expanding (Aüllo et al, 2013 ; Kuever et al, 2014 ; Visser et al, 2014 ). Characterized species display considerable metabolic versatility, and some have been shown to reduce metals (Tebo and Obraztsova, 1998 ; Haouari et al, 2008 ; Barton et al, 2015 ).…”