The adaptive genome of Desulfovibrio vulgaris Hildenborough

Abstract

Peculiar attributes revealed by sequencing the genome of Desulfovibrio vulgaris Hildenborough are analyzed, particularly in relation to the presence of a phosphotransferase system (PTS). The PTS is a typical bacterial carbohydrate transport system functioning via group translocation. Novel avenues for investigations are proposed emphasizing the metabolic diversity of D. vulgaris Hildenborough, especially the likely utilization of mannose-type sugars. Comparative analysis with PTS from other Gram-negative and Gram-positive bacteria indicates regulatory functions for the PTS of D. vulgaris Hildenborough, including catabolite repression and inducer exclusion. Chemotaxis towards PTS substrates is considered. Evidence suggests that this organism may not be a strict anaerobic sulfate reducer typical of the ocean, but a versatile organism capable of bidirectional transmigration and adaptation to both water and terrestrial environments.

Genome of ‘Ca. Desulfovibrio trichonymphae’, an H2-oxidizing bacterium in a tripartite symbiotic system within a protist cell in the termite gut

“…Genes coding for glucokinase, diphosphate-fructose-6-phosphate 1-phosphotransferase, and pyruvate kinase are pseudogenized; the bacterium has lost the glycolytic pathway ( Figure 2 ). Consistently, it lacks genes for mannose permease, which are commonly found in the genomes of desulfovibrios ( Santana and Crasnier-Mednansky, 2006 ). In addition, the genome lacks the genes for lactate dehydrogenases, and genes for lactate utilization proteins (LutABC) and lactate permease are pseudogenized; thus, it cannot use lactate as an electron donor nor a carbon source although this ability is common in desulfovibrios ( Heidelberg et al, 2004 ; Keller and Wall, 2011 ).…”

Unraveling the evolutionary history of the phosphoryl-transfer chain of the phosphoenolpyruvate:phosphotransferase system through phylogenetic analyses and genome context

“…5 and Fig. S4, Additional file 2 ) hints at the possibility that EI R also plays a role in sugar transport [ 33 ]. Furthermore, a phylogenetic reconstruction of IIA Man encoding genes shows that the sequence of D. vulgaris , which is part of the putative PTS transporter, clusters together with other IIA Man encoding genes from α- and β- Proteobacteria located in the rpoN gene cluster (data not shown).…”

Dispersal and inhibitory roles of mannose, 2‐deoxy‐d‐glucose and N‐acetylgalactosaminidase on the biofilm of Desulfovibrio vulgaris

“…Desulfovibrio vulgaris Hildenborough and D. desulfuricans are anaerobic chemoorganotrophic Gram-negative sulfate-reducing bacteria (SRB) (Gao et al, 2016) that colonize many anaerobic environments including oil reservoirs and metal pipelines; hence, they are major culprits in microbiologically influenced corrosion (MIC) (Santana and Crasnier-Mednansky, 2006;Clark et al, 2007;Gao et al, 2016). MIC of copper and steel allows by SRB costs about $5 billion annually (Jayaraman et al, 1999).…”