Table 1.
General features of the S. thermosulfidoxidans genome in comparison with other Clostridiales family XVII incertae sedis genomes.
Figure 1.
Dot plot representation of the pairwise alignments of the S. thermosulfidooxidans, S. acidophilus and T. marianensis genomes.
Alignments were performed on the six-frame amino acid translation of genome sequences using the Promer program in the MUMmer package. In all plots, every dot indicates a match at least six AA between the two genome sequences being compared, with forward matches colored in red and reverse matches colored in blue.
Figure 2.
Genome-based models for the oxidation of inorganic sulfur compounds (ISCs).
Schematic representation of enzymes and electron transfer proteins involved in the oxidation of ISCs. Electrons from SQR, TQR, HDR are transferred to the electron transfer chain by the quinone, then are used by NADH complex I to generate reducing power or by terminal oxidases bd or bo3 to form a proton gradient. Abbreviations: TTH, tetrathionate hydrolase; SQR, sulfide quinone reductase; TQR, thiosulfate quinone oxidoreductase; SOR, sulfur oxygenase reductase; SAT, sulfate adenylyltransferase; HDR, heterodisulfide reductase; Omp, outer membrane protein.
Figure 3.
Phylogenetic analysis of key genes related with the oxidation of inorganic sulfur compounds and ferrous iron.
(A) Phylogenetic tree of sulfur oxidase reductase based on an alignment of 334 amino acid positions with the neighbor-joining method. The numbers associated with the branches refer to bootstrap values (confidence limits) resulting from 1,000 replicate resamplings. The scale represents the number of amino acid substitutions per site. S. thermosulfidooxidans are shown in bold. (B) Phylogenetic tree of sulfocyanin/rusticyanin proteins of archaea and bacteria based on an alignment of 263 amino acid positions with the neighborjoining method. The numbers associated with the branches refer to bootstrap values (confidence limits) resulting from 1,000 replicate resamplings. The scale represents the number of amino acid substitutions per site. S. thermosulfidooxidans are shown in bold.
Figure 4.
Predicted central carbon metabolism of S. thermosulfidooxidans (see also Table S4 in File S1 for further details on respective EC numbers and annotation classification).
Enzymatic reactions for which candidate genes can be identified in the genome of S. thermosulfidooxidans are highlighted by solid arrows. The reactions associated with other metabolic pathways are shown with pink arrows. The transmembrane transports of small organic compounds that may directly enter central carbon metabolism are also presented.