Thermotoga petrophila sp. nov. and Thermotoga naphthophila sp. nov., two hyperthermophilic bacteria from the Kubiki oil reservoir in Niigata, Japan.

Takahata, Yoh; Nishijima, Miyuki; Hoaki, Toshihiro; Maruyama, Tadashi

doi:10.1099/00207713-51-5-1901

Cited by 118 publications

(73 citation statements)

References 36 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Similar results were seen for a homologous PTS in Caldicellulosiruptor saccharolyticus (52). Although T. petrophila was initially reported to be unable to grow on xylose (49), in this experiment, xylose was depleted faster than the other monosaccharides (Fig. 2C).…”

Section: Resultssupporting

confidence: 74%

Hyperthermophilic Thermotoga Species Differ with Respect to Specific Carbohydrate Transporters and Glycoside Hydrolases

Frock

Gray

Kelly

2012

Appl Environ Microbiol

View full text Add to dashboard Cite

Four hyperthermophilic members of the bacterial genus Thermotoga (T. maritima, T. neapolitana, T. petrophila, and Thermotoga sp. strain RQ2) share a core genome of 1,470 open reading frames (ORFs), or about 75% of their genomes. Nonetheless, each species exhibited certain distinguishing features during growth on simple and complex carbohydrates that correlated with genomic inventories of specific ABC sugar transporters and glycoside hydrolases. These differences were consistent with transcriptomic analysis based on a multispecies cDNA microarray. Growth on a mixture of six pentoses and hexoses showed no significant utilization of galactose or mannose by any of the four species. T. maritima and T. neapolitana exhibited similar monosaccharide utilization profiles, with a strong preference for glucose and xylose over fructose and arabinose. Thermotoga sp. strain RQ2 also used glucose and xylose, but was the only species to utilize fructose to any extent, consistent with a phosphotransferase system (PTS) specific for this sugar encoded in its genome. T. petrophila used glucose to a significantly lesser extent than the other species. In fact, the XylR regulon was triggered by growth on glucose for T. petrophila, which was attributed to the absence of a glucose transporter (XylE2F2K2), otherwise present in the other Thermotoga species. This suggested that T. petrophila acquires glucose through the XylE1F1K1 transporter, which primarily serves to transport xylose in the other three Thermotoga species. The results here show that subtle differences exist among the hyperthermophilic Thermotogales with respect to carbohydrate utilization, which supports their designation as separate species.

show abstract

Section: Resultssupporting

confidence: 74%

Hyperthermophilic Thermotoga Species Differ with Respect to Specific Carbohydrate Transporters and Glycoside Hydrolases

Frock

Gray

Kelly

2012

Appl Environ Microbiol

View full text Add to dashboard Cite

show abstract

“…We have attempted to analyze the polyamines of hydrogen-oxidizing Hydrogenothermus, Hydrogenobacter (Stohr et al, 2001;Takai et al, 2001a), Persephonella, Sulfurihydrogenibium, Thermocrinis and Balnearium, and nitrate-reducing Thermovibrio (Eder and Huber, 2002;Huber et al, 1998Huber et al, , 2002Nakagawa et al, 2003;Takai et al, 2003a, b), belonging to Aquificales. Polyamines of new members of Thermotoga, Petrotoga and Marinitoga (Alain et al, 2002;Balk et al, 2002;L'Haridon et al, 2002;Takahata et al, 2001) of Thermotogales, and thermophilic sulfate-reducing, Thermodesulfatator belonging to the order Thermodesulfobacteriales (Moussard et al, 2004), were analyzed.…”

mentioning

confidence: 99%

Polyamine analysis for chemotaxonomy of thermophilic eubacteria: Polyamine distribution profiles within the orders Aquificales, Thermotogales, Thermodesulfobacteriales, Thermales, Thermoanaerobacteriales, Clostridiales and Bacillales

Hosoya

Hamana

Niitsu

et al. 2004

J. Gen. Appl. Microbiol.

View full text Add to dashboard Cite

IntroductionAliphatic cellular polyamines, linear diamines, triamines, tetra-amines, penta-amines and hexa-amines, and quaternary branched penta-amines, were found in eubacteria (domain Bacteria) and archaebacteria (doPolyamine analysis for chemotaxonomy of thermophilic eubacteria:Polyamine distribution profiles within the orders Aquificales, Thermotogales, Thermodesulfobacteriales, Thermales, Thermoanaerobacteriales, Clostridiales and Bacillales Cellular polyamines of 45 thermophilic and 8 related mesophilic eubacteria were investigated by HPLC and GC analyses for the thermophilic and chemotaxonomic significance of polyamine distribution profiles. Spermidine and a quaternary branched penta-amine, N 4 -bis(aminopropyl)norspermidine, were the major polyamine in Thermocrinis, Hydrogenobacter, Hydrogenobaculum, Aquifex, Persephonella, Sulfurihydrogenibium, Hydrogenothermus, Balnearium and Thermovibrio, located in the order Aquificales. Thermodesulfobacterium and Thermodesulfatator belonging to the order Thermodesulfobacteriales contained another quaternary penta-amine, N 4 -bis(aminopropyl)spermidine. In the order Thermotogales, Thermotoga contained spermidine, norspermidine, caldopentamine and homocaldopentamine. The latter two linear penta-amines were not found in Marinitoga and Petrotoga. In the order Thermales, Thermus and Marinithermus contained homospermidine, norspermine and the linear penta-amines. Meiothermus lacked penta-amines. Vulcanithermus contained linear penta-amines and hexa-amines but not homospermidine. Oceanithermus contained spermine alone. Within the order Thermoanaerobacteriales, the two quaternary branched penta-amines were found in Thermanaeromonas and Thermoanaerobacter. Caldanaerobacter contained N 4 -bis(aminopropyl)spermidine. Thermoanaerobacterium lacked penta-amines. Thermaerobacter of the order Clostridiales contained N 4 -bis(aminopropyl)spermidine and agmatine. Thermosyntropha, Thermanaerovibrio, Thermobrachium (the order Clostridiales), Sulfobacillus, Alicyclobacillus, Anoxybacillus, Ureibacillus, Thermicanus (the order Bacillales), Desulfotomaculum, Desulfitobacterium and Pelotomaculum (the family Peptococcaceae) ubiquitously contained spermine. Some thermophiles of Bacillales added linear and branched penta-amines.

show abstract

Section: Resultsmentioning

confidence: 99%

“…The genomes of T. petrophila and T. naphthophila from the Kubiki oil reservoir in Niigata, Japan (Takahata et al, 2008), are only 96.7% identical. Unlike the Troll reservoir, the Kubiki oil reservoir has been flooded with water to enhance oil production (Takahata et al, 2000(Takahata et al, , 2008 that could have recently introduced new genetic diversity. The Troll reservoir is also older than Kubiki oil reservoir, as the sediments of the latter were formed in early Pliocene and late Miocene, 5-7 Myr ago (Kawai and Totani, 1971;Chakhmankhchev et al, 1996).…”

Section: Resultsmentioning

confidence: 99%

Evidence for extensive gene flow and Thermotoga subpopulations in subsurface and marine environments

et al. 2014

View full text Add to dashboard Cite

Oil reservoirs represent a nutrient-rich ecological niche of the deep biosphere. Although most oil reservoirs are occupied by microbial populations, when and how the microbes colonized these environments remains unanswered. To address this question, we compared 11 genomes of Thermotoga maritima-like hyperthermophilic bacteria from two environment types: subsurface oil reservoirs in the North Sea and Japan, and marine sites located in the Kuril Islands, Italy and the Azores. We complemented our genomes with Thermotoga DNA from publicly available subsurface metagenomes from North America and Australia. Our analysis revealed complex non-bifurcating evolutionary history of the isolates' genomes, suggesting high amounts of gene flow across all sampled locations, a conjecture supported by numerous recombination events. Genomes from the same type of environment tend to be more similar, and have exchanged more genes with each other than with geographically close isolates from different types of environments. Hence, Thermotoga populations of oil reservoirs do not appear isolated, a requirement of the 'burial and isolation' hypothesis, under which reservoir bacteria are descendants of the isolated communities buried with sediments that over time became oil reservoirs. Instead, our analysis supports a more complex view, where bacteria from subsurface and marine populations have been continuously migrating into the oil reservoirs and influencing their genetic composition. The Thermotoga spp. in the oil reservoirs in the North Sea and Japan probably entered the reservoirs shortly after they were formed. An Australian oil reservoir, on the other hand, was likely colonized very recently, perhaps during human reservoir development.

show abstract

Thermotoga petrophila sp. nov. and Thermotoga naphthophila sp. nov., two hyperthermophilic bacteria from the Kubiki oil reservoir in Niigata, Japan.

Cited by 118 publications

References 36 publications

Hyperthermophilic Thermotoga Species Differ with Respect to Specific Carbohydrate Transporters and Glycoside Hydrolases

Hyperthermophilic Thermotoga Species Differ with Respect to Specific Carbohydrate Transporters and Glycoside Hydrolases

Polyamine analysis for chemotaxonomy of thermophilic eubacteria: Polyamine distribution profiles within the orders Aquificales, Thermotogales, Thermodesulfobacteriales, Thermales, Thermoanaerobacteriales, Clostridiales and Bacillales

Evidence for extensive gene flow and Thermotoga subpopulations in subsurface and marine environments

Contact Info

Product

Resources

About