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Aspergillus oryzae RIB40
Saccharomyces cerevisiae K7
Aeropyrum pernix K1T
Sulfolobus tokodaii strain 7T
Methanocella paludicola SANAET
Pyrococcus horikoshii OT3T
Kitasatospora setae NBRC 14216T
Rhodococcus opacus B4
Rhodococcus erythropolis PR4
Kocuria rhizophila DC2201
Microlunatus phosphovorus NM-1T
Corynebacterium efficiens YS-314T
Streptomyces avermitilis MA-4680T
Caldisericum exile AZM16c01T
Anaerolinea thermophila UNI-1T
Arthrospira platensis NIES-39
Deferribacter desulfuricans SSM1T
Staphylococcus haemolyticus JCSC1435
Staphylococcus aureus MW2
Staphylococcus aureus N315
Brevibacillus brevis NBRC 100599
Oscillibacter valericigenes Sjm18-20T
Gemmatimonas aurantiaca T-27T
Acetobacter pasteurianus IFO 3283-32
Acidiphilium multivorum AIU301
Sphingobium japonicum UT26S
Sphingobium sp. SYK-6
Desulfovibrio magneticus RS-1
Salmonella enterica serovar Typhimurium T000240
About this genome
Bacterial lifestyle in a deep-sea hydrothermal vent chimney revealed by the genome sequence of the thermophilic bacterium
Takaki Y.,Shimamura S.,Nakagawa S.,Fukuhara Y.,Horikawa H.,Ankai A.,Harada T.,Hosoyama A.,Oguchi A.,Fukui S.,Fujita N.,Takami H.,Takai K.
DNA Res. 17 (2010) 123-37
The complete genome sequence of the thermophilic sulphur-reducing bacterium, Deferribacter desulfuricans SMM1, isolated from a hydrothermal vent chimney has been determined. The genome comprises a single circular chromosome of 2,234,389 bp and a megaplasmid of 308,544 bp. Many genes encoded in the genome are most similar to the genes of sulphur- or sulphate-reducing bacterial species within Deltaproteobacteria. The reconstructed central metabolisms showed a heterotrophic lifestyle primarily driven by C1 to C3 organics, e.g. formate, acetate, and pyruvate, and also suggested that the inability of autotrophy via a reductive tricarboxylic acid cycle may be due to the lack of ATP-dependent citrate lyase. In addition, the genome encodes numerous genes for chemoreceptors, chemotaxis-like systems, and signal transduction machineries. These signalling networks may be linked to this bacterium's versatile energy metabolisms and may provide ecophysiological advantages for D. desulfuricans SSM1 thriving in the physically and chemically fluctuating environments near hydrothermal vents. This is the first genome sequence from the phylum Deferribacteres.
sp. nov., a novel sulfur-, nitrate- and arsenate-reducing thermophile isolated from a deep-sea hydrothermal vent.
Takai K.,Kobayashi H.,Nealson KH.,Horikoshi K.
Int. J. Syst. Evol. Microbiol. 53 (2003) 839-46
A novel anaerobic, heterotrophic thermophile was isolated from a deep-sea hydrothermal vent chimney at the Suiyo Seamount in the Izu-Bonin Arc, Japan. The cells were bent, flexible rods, with a single polar flagellum. Growth was observed between 40 and 70 degrees C (optimum temperature: 60-65 degrees C; doubling time, 40 min) and between pH 5.0 and 7.5(optimum pH 6.5). The isolate was a strictly anaerobic heterotroph capable of using complex organic compounds (yeast extract, tryptone, peptone, casein and Casamino acids), ethanol and various organic acids as energy and carbon sources. Hydrogen could serve as a supplementary energy source. Elemental sulfur (S(0)), nitrate or arsenate was required for growth as an electron acceptor. The G + C content of the genomic DNA was 38.6 mol%. Phylogenetic analysis based on 16S rDNA sequences indicated that isolate SSM1(T) is closely related to Deferribacter thermophilus BMA(T) (98.1%). However, the novel isolate could be clearly differentiated from D. thermophilus BMA(T) on the basis of its physiological and genetic properties. The name Deferribacter desulfuricans sp. nov. (type strain SSM1(T) = JCM 11476(T) = DSM 14783(T)) is proposed.
Evidence for the presence of thermophilic Fe(III)-reducing microorganisms in deep-sea hydrothermal vents at 13 degrees N (East Pacific Rise).
Slobodkin A.,Campbell B.,Cary SC.,Bonch-Osmolovskaya E.,Jeanthon C.
FEMS Microbiol. Ecol. 36 (2001) 235-243
Microorganisms capable of dissimilatory Fe(III) reduction in the temperature range of 52-90 degrees C were enriched from outer and inner parts of chimney-like structures, tubes of the polychaetous annelid Alvinella sp., and hydrothermal fluids collected at 13 degrees N hydrothermal vent sites on the East Pacific Rise at a depth of 2650 m. Numbers of culturable Fe(III)-reducing thermophiles estimated by the serial dilution technique varied from 10 to 10(7) cells per cm(3) of sample. Phylogenetic analysis of bacterial and archaeal PCR-amplified 16S rDNA genes obtained from Fe(III)-reducing enrichments and separated by denaturing gradient gel electrophoresis revealed sequences related to Deferibacter, Thermotogales (Bacteria) and Thermococcus (Archaea) for which the capacity for Fe(III) reduction had been reported. This was confirmed by isolating a hyperthermophilic iron reducer that belongs to the genus Thermococcus. Other bacterial thermophiles found in the enrichments were related to so far uncultured members of the Clostridiaceae, and epsilon-subdivision of the Proteobacteria.
National Institute of Technology and Evaluation
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