Iron Oxidizing Bacterium

14,000,000 Leading Edge Experts on the ideXlab platform

Scan Science and Technology

Contact Leading Edge Experts & Companies

Scan Science and Technology

Contact Leading Edge Experts & Companies

The Experts below are selected from a list of 714 Experts worldwide ranked by ideXlab platform

Tsuyoshi Sugio - One of the best experts on this subject based on the ideXlab platform.

  • existence of an Iron Oxidizing Bacterium acidithiobacillus ferrooxidans resistant to organomercurial compounds
    Journal of Bioscience and Bioengineering, 2005
    Co-Authors: Fumiaki Takeuchi, Kazuo Kamimura, Tadayoshi Kanao, Atsunori Negishi, Sosaku Nakamura, Tsuyoshi Sugio
    Abstract:

    Acidithiobacillus ferrooxidans MON-1 which is highly resistant to Hg2+ could grow in a ferrous sulfate medium (pH 2.5) with 0.1 microM p-chloromercuribenzoic acid (PCMB) with a lag time of 2 d. In contrast, A. ferrooxidans AP19-3 which is sensitive to Hg2+ did not grow in the medium. Nine strains of A. ferrooxidans, including seven strains of the American Type Culture Collection grew in the medium with a lag time ranging from 5 to 12 d. The resting cells of MON-1, which has NADPH-dependent mercuric reductase activity, could volatilize Hg0 when incubated in acidic water (pH 3.0) containing 0.1 microM PCMB. However, the resting cells of AP19-3, which has a similar level of NADPH-dependent mercuric reductase activity compared with MON-1, did not volatilize Hg0 from the reaction mixture with 0.1 microM PCMB. The activity level of the 11 strains of A. ferrooxidans to volatilize Hg0 from PCMB corresponded well with the level of growth inhibition by PCMB observed in the growth experiments. The resting cells of MON-1 volatilized Hg0 from phenylmercury acetate (PMA) and methylmercury chloride (MMC) as well as PCMB. The cytosol prepared from MON-1 could volatilize Hg0 from PCMB (0.015 nmol mg(-1) h(-1)), PMA (0.33 nmol mg(-1) h(-1)) and MMC (0.005 nmol mg(-1) h(-1)) in the presence of NADPH and beta-mercaptoethanol.

  • Noncompetitive inhibition by L-cysteine and activation by L-glutamate of the Iron-Oxidizing activity of a mixotrophic Iron-Oxidizing Bacterium strain OKM-9
    Journal of bioscience and bioengineering, 2004
    Co-Authors: Tsuyoshi Sugio, Takao Inoue, Yoshiki Kitano, Fumiaki Takeuchi, Kazuo Kamimura
    Abstract:

    Abstract A mesophilic, mixotrophic Iron-Oxidizing Bacterium strain OKM-9 uses ferrous Iron as a sole source of energy and L-glutamate as a sole source of cellular carbon. Uptake of L-glutamate into OKM-9 cells is absolutely dependent on ferrous Iron oxidation. Thus, the Fe 2+ -dependent L-glutamate uptake system of strain OKM-9 is crucial for the Bacterium to grow mixotrophically in Iron medium with L-glutamate. The relationship between Iron oxidation and L-glutamate transport activities was studied. Iron oxidase containing cytochrome a was purified 9-fold from the plasma membrane of OKM-9. A purified Iron oxidase showed one rust-colored band following disc gel electrophoresis after incubation with Fe 2+ . The Fe 2+ -dependent L-glutamate transport system was also purified 14.5-fold from the plasma membrane using the same purification steps as for Iron oxidase. Fe 2+ -dependent L-glutamate and L-cysteine uptake activities of OKM-9 were 0.36 and 0.24 nmol/mg/min, respectively, when a concentration of 18 mM of these amino acids was used as a substrate. Both uptake activities were completely inhibited by potassium cyanide (KCN), suggesting that cytochrome a in the Iron oxidase is involved in the transport process. The Iron-Oxidizing activity of strain OKM-9 was activated 1.7-fold by 80 mM L-glutamate. In contrast, the activity was noncompetitively inhibited by L-cysteine. The Michaelis constant of Iron oxidase for Fe 2+ was 12.6 mM and the inhibition constant for L-cysteine was 41.6 mM. A marked inhibition of Iron oxidase by 50 mM L-cysteine was completely reversed by the addition of 60 mM L-glutamate. The results suggest the possibility that Iron oxidase has a binding site for L-cysteine and the cysteine first bound to the Iron oxidase was replaced by the added L-glutamate.

  • ferrous Iron dependent uptake of l glutamate by a mesophilic mixotrophic Iron Oxidizing Bacterium strain okm 9
    Bioscience Biotechnology and Biochemistry, 2002
    Co-Authors: Takao Inoue, Kazuo Kamimura, Tsuyoshi Sugio
    Abstract:

    Strain OKM-9 is a mesophilic, mixotrophic Iron-Oxidizing Bacterium that absolutely requires ferrous Iron as its energy source and L-amino acids (including L-glutamate) as carbon sources for growth. The properties of the L-glutamate transport system were studied with OKM-9 resting cells, plasma membranes, and actively reconstituted proteoliposomes. L-Glutamate uptake into resting cells was totally dependent on ferrous Iron that was added to the reaction mixture. Potassium cyanide, an Iron oxidase inhibitor, completely inhibited the activity at 1 mM. The optimum pH for Fe2+-dependent uptake activity of L-glutamate was 3.5-4.0. Uptake activity was dependent on the concentration of the L-glutamate. The Km and Vmax for L-glutamate were 0.4 mM and 11.3 nmol•min−1•mg−1, respectively. L-Aspartate, D-aspartate, D-glutamate, and L-cysteine strongly inhibited L-glutamate uptake. L-Aspartate competitively inhibited the activity, and the apparent Ki for this amino acid was 75.9 μM. 2,4-Dinitrophenol, carbonyl cyanide ...

  • a new Iron oxidase from a moderately thermophilic Iron Oxidizing Bacterium strain ti 1
    FEBS Journal, 2001
    Co-Authors: Masaki Takai, Kazuo Kamimura, Tsuyoshi Sugio
    Abstract:

    Iron oxidase was purified from plasma membranes of a moderately thermophilic Iron Oxidizing Bacterium strain TI-1 in an electrophoretically homogeneous state. Spectrum analyses of purified enzyme showed the existence of cytochrome a, but not cytochrome b and c types. Iron oxidase was composed of five subunits with apparent molecular masses of 46 kDa (alpha), 28 kDa (beta), 24 kDa (gamma), 20 kDa (delta), and 17 kDa (epsilon). As the molecular mass of a native enzyme was estimated to be 263 kDa in the presence of 0.1% n-dodecyl-beta-D-maltopyranoside (DM), a native Iron oxidase purified from strain TI-1 seems to be a homodimeric enzyme (alpha beta gamma delta epsilon)(2). Optimum pH and temperature for Iron oxidation were pH 3.0 and 45 degrees C, respectively. The K(m) of Iron oxidase for Fe(2+) was 1.06 mM and V(max) for O(2) uptake was 13.8 micromol x mg(-1) x min(-1). The activity was strongly inhibited by cyanide and azide. Purified enzyme from strain TI-1 is a new Iron oxidase in which electrons of Fe(2+) were transferred to haem a and then to the molecular oxygen.

  • some properties of a novel obligately autotrophic Iron Oxidizing Bacterium isolated from seawater
    Hydrometallurgy, 2001
    Co-Authors: Kazuo Kamimura, K. Kunomura, Satoshi Wakai, Katsuji Murakami, Tsuyoshi Sugio
    Abstract:

    Abstract An Iron-Oxidizing Bacterium obligately requiring NaCl for growth was isolated from seawater in Seto Inland Sea, Japan, and designated as strain KU2-11. Strain KU2-11 was a Gram negative, non-spore-forming and rod-shaped Bacterium, and can grow autotrophically by using ferrous ion and elemental sulfur as sole energy sources. The optimum growth pH and temperature were 2 and 30°C, respectively. The G+C content of the DNA was 59 mol%. The Bacterium could not grow in the medium without NaCl and obligately required NaCl for growth. The optimum NaCl concentration for the growth was 2%. Strain KU2-11 seemed to be identified as a member of Thiobacillus ferrooxidans on the basis of morphological and physiological properties. However, the phylogenetic analysis based on 16S rDNA gene sequences indicated that strain KU2-11 is distinct from T. ferrooxidans . Iron- and sulfur-Oxidizing activity of the Bacterium were not detected in a reaction mixture without NaCl, and depended on the presence of NaCl. The optimum NaCl concentrations for the Iron- and sulfur-Oxidizing activities were 2–4% and 1%, respectively. On the basis of the phenotypic characteristics of strain KU2-11 and its phylogenetic position, we suggested that this Bacterium should be placed in a new species of the genus Thiobacillus .

Kazuo Kamimura - One of the best experts on this subject based on the ideXlab platform.

  • characterization of a putative chromosome segregation and condensation protein scpb in an acidophilic Iron Oxidizing Bacterium acidithiobacillus ferrooxidans
    岡山大学農学部学術報告, 2015
    Co-Authors: Kazuo Kamimura, Satoshi Wakai, Mei Kikumoto, Nozomu Nagata, Sultana Sharmin, Tadayoshi Kanao
    Abstract:

    Acidithiobacillus ferrooxidans is one of the most widely used microorganisms in bioleaching operations to recover copper from low-grade copper sulfide. This Bacterium uses ferrous Iron and reduced inorganic sulfur compounds (RISCs) as energy sources. Transcriptions of genes thought to be involved in the oxidation of RISCs have been known to be highly activated in A. ferrooxidans cells grown on RISCs, while transcriptions of genes involved in the Iron oxidation were repressed in the cells grown on RISCs. A gene encoding a putative chromosome segregation and condensation protein (ScpB) with a helix-turn-helix motif was found in the upstream region of sulfide : quinone oxidoreductase gene, whose expression was up-regulated in cells grown in sulfur and tetrathionate. A semi-quantitative PCR analysis using cDNA prepared from Iron-, sulfur-, or tetrathionate-grown cells revealed that the transcription of scpB was up-regulated in cells grown on sulfur or tetrathionate as the energy source. Electrophoretic mobility shift assays were employed to examine whether the ScpB functions as a transcription factor. The result indicated that the recombinant His-tagged ScpB protein was able to nonspecifically bind in vitro to DNA. This is the first report on a direct association of ScpB with DNA.

  • Characterization of an OmpA-like outer membrane protein of the acidophilic Iron-Oxidizing Bacterium, Acidithiobacillus ferrooxidans
    Extremophiles, 2011
    Co-Authors: Mohammed Abul Manchur, Jun Takada, Mei Kikumoto, Tadayoshi Kanao, Kazuo Kamimura
    Abstract:

    An OmpA family protein (FopA) previously reported as one of the major outer membrane proteins of an acidophilic Iron-Oxidizing Bacterium Acidithiobacillus ferrooxidans was characterized with emphasis on the modification by heat and the interaction with peptidoglycan. A 30-kDa band corresponding to the FopA protein was detected in outer membrane proteins extracted at 75°C or heated to 100°C for 10 min prior to sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE). However, the band was not detected in outer membrane proteins extracted at ≤40°C and without boiling prior to electrophoresis. By Western blot analysis using the polyclonal antibody against the recombinant FopA, FopA was detected as bands with apparent molecular masses of 30 and 90 kDa, suggesting that FopA existed as an oligomeric form in the outer membrane of A. ferrooxidans . Although the fopA gene with a sequence encoding the signal peptide was successfully expressed in the outer membrane of Escherichia coli , the recombinant FopA existed as a monomer in the outer membrane of E. coli . FopA was detected in peptidoglycan-associated proteins from A. ferrooxidans . The recombinant FopA also showed the peptidoglycan-binding activity.

  • purification and characterization of sulfide quinone oxidoreductase from an acidophilic Iron Oxidizing Bacterium acidithiobacillus ferrooxidans
    Bioscience Biotechnology and Biochemistry, 2007
    Co-Authors: Satoshi Wakai, Mohammed Abul Manchur, Mei Kikumoto, Tadayoshi Kanao, Mizuho Tsujita, Kazuo Kamimura
    Abstract:

    Sulfide:quinone oxidoreductase (SQR) was purified from membrane of acidophilic chemolithotrophic Bacterium Acidithiobacillus ferrooxidans NASF-1 cells grown on sulfur medium. It was composed of a single polypeptide with an apparent molecular mass of 47 kDa. The apparent K m values for sulfide and ubiquinone were 42 and 14 μM respectively. The apparent optimum pH for the SQR activity was about 7.0. A gene encoding a putative SQR of A. ferrooxidans NASF-1 was cloned and sequenced. The gene was expressed in Escherichia coli as a thioredoxin-fusion protein in inclusion bodies in an inactive form. A polyclonal antibody prepared against the recombinant protein reacted immunologically with the purified SQR. Western blotting analysis using the antibody revealed an increased level of SQR synthesis in sulfur-grown A. ferrooxidans NASF-1 cells, implying the involvement of SQR in elemental sulfur oxidation in sulfur-grown A. ferrooxidans NASF-1 cells.

  • existence of an Iron Oxidizing Bacterium acidithiobacillus ferrooxidans resistant to organomercurial compounds
    Journal of Bioscience and Bioengineering, 2005
    Co-Authors: Fumiaki Takeuchi, Kazuo Kamimura, Tadayoshi Kanao, Atsunori Negishi, Sosaku Nakamura, Tsuyoshi Sugio
    Abstract:

    Acidithiobacillus ferrooxidans MON-1 which is highly resistant to Hg2+ could grow in a ferrous sulfate medium (pH 2.5) with 0.1 microM p-chloromercuribenzoic acid (PCMB) with a lag time of 2 d. In contrast, A. ferrooxidans AP19-3 which is sensitive to Hg2+ did not grow in the medium. Nine strains of A. ferrooxidans, including seven strains of the American Type Culture Collection grew in the medium with a lag time ranging from 5 to 12 d. The resting cells of MON-1, which has NADPH-dependent mercuric reductase activity, could volatilize Hg0 when incubated in acidic water (pH 3.0) containing 0.1 microM PCMB. However, the resting cells of AP19-3, which has a similar level of NADPH-dependent mercuric reductase activity compared with MON-1, did not volatilize Hg0 from the reaction mixture with 0.1 microM PCMB. The activity level of the 11 strains of A. ferrooxidans to volatilize Hg0 from PCMB corresponded well with the level of growth inhibition by PCMB observed in the growth experiments. The resting cells of MON-1 volatilized Hg0 from phenylmercury acetate (PMA) and methylmercury chloride (MMC) as well as PCMB. The cytosol prepared from MON-1 could volatilize Hg0 from PCMB (0.015 nmol mg(-1) h(-1)), PMA (0.33 nmol mg(-1) h(-1)) and MMC (0.005 nmol mg(-1) h(-1)) in the presence of NADPH and beta-mercaptoethanol.

  • involvement of sulfide quinone oxidoreductase in sulfur oxidation of an acidophilic Iron Oxidizing Bacterium acidithiobacillus ferrooxidans nasf 1
    Bioscience Biotechnology and Biochemistry, 2004
    Co-Authors: Satoshi Wakai, Mei Kikumoto, Tadayoshi Kanao, Kazuo Kamimura
    Abstract:

    The effects of cyanide, azide, and 2-n-Heptyl-4-hydroxy-quinoline-N-oxide (HQNO) on the oxidation of ferrous ion or elemental sulfur with Acidithiobacillus ferrooxidans NASF-1 cells grown in Iron- or sulfur-medium were examined. The Iron oxidation of both Iron- and sulfur-grown cells was strongly inhibited by cyanide and azide, but not by HQNO. Sulfur oxidation was relatively resistant to cyanide and azide, and inhibited by HQNO. Higher sulfide oxidation, ubiquinol dehydrogenase activity, and sulfide:quinone oxidoreductase (SQR) activity were observed in sulfur-grown cells more than in Iron-grown cells. Sulfide oxidation in the presence of ubiquinone with the membrane fraction was inhibited by HQNO, but not by cyanide, azide, antimycin A, and myxothiazol. The transcription of three genes, encoding an aa(3)-type cytochrome c oxidase (coxB), a bd-type ubiquinol oxidase (cydA), and an sqr, were measured by real-time reverse transcription polymerase chain reaction. The transcriptional levels of coxB and cydA genes were similar in sulfur- and Iron-grown cells, but that of sqr was 3-fold higher in sulfur-grown cells than in Iron-grown cells. A model is proposed for the oxidation of reduced inorganic sulfur compounds in A. ferrooxidans NASF-1 cells.

Moriya Ohkuma - One of the best experts on this subject based on the ideXlab platform.

  • Complete Genome Sequence of Ferriphaselus amnicola Strain OYT1, a Neutrophilic, Stalk-Forming, Iron-Oxidizing Bacterium
    Microbiology resource announcements, 2018
    Co-Authors: Shingo Kato, Masahiro Yuki, Takashi Itoh, Moriya Ohkuma
    Abstract:

    ABSTRACT Ferriphaselus amnicola is a freshwater, neutrophilic, Iron-Oxidizing Bacterium that produces extracellular twisted-ribbon-like Iron biominerals called stalks. Here, we report the 2.72-Mb closed genome sequence of F. amnicola strain OYT1, which was isolated from Iron oxide deposits at a groundwater stream in Japan.

  • ferriphaselus amnicola gen nov sp nov a neutrophilic stalk forming Iron Oxidizing Bacterium isolated from an Iron rich groundwater seep
    International Journal of Systematic and Evolutionary Microbiology, 2014
    Co-Authors: Shingo Kato, Sean T. Krepski, Clara S. Chan, Takashi Itoh, Moriya Ohkuma
    Abstract:

    A neutrophilic, stalk-forming, Iron-Oxidizing Bacterium, strain OYT1T, which was isolated from a groundwater seep in Ohyato Park, Tokyo, Japan, was subjected to taxonomic analysis. OYT1T was a motile, bean-shaped, Gram-negative Bacterium that was able to grow at 8–30 °C (optimally at 25–30 °C) and at pH 5.6–7.3 (optimally at pH 6.1–6.5). The strain grew microaerobically and autotrophically. Major cellular fatty acids detected were C16 : 1ω7c/C16 : 1ω6c and C16 : 0. The total DNA G+C content was 57.6 mol%. 16S rRNA gene sequence analysis revealed that strain OYT1T was affiliated with the class Betaproteobacteria and clustered with Iron-Oxidizing bacteria isolated from groundwater seeps and wetlands and with uncultured clones detected in freshwater Iron-rich envIronments. Based on the phenotypic and phylogenetic characteristics of strain OYT1T, we propose that the strain represents a novel species in a new genus, for which the name Ferriphaselus amnicola gen. nov., sp. nov. is proposed; the type strain of Ferriphaselus amnicola is OYT1T ( = JCM 18545T = DSM 26810T).

  • functional gene analysis of freshwater Iron rich flocs at circumneutral ph and isolation of a stalk forming microaerophilic Iron Oxidizing Bacterium
    Applied and Environmental Microbiology, 2013
    Co-Authors: Shingo Kato, Clara S. Chan, Takashi Itoh, Moriya Ohkuma
    Abstract:

    ABSTRACT Iron-rich flocs often occur where anoxic water containing ferrous Iron encounters oxygenated envIronments. Culture-independent molecular analyses have revealed the presence of 16S rRNA gene sequences related to diverse bacteria, including autotrophic Iron oxidizers and methanotrophs in Iron-rich flocs; however, the metabolic functions of the microbial communities remain poorly characterized, particularly regarding carbon cycling. In the present study, we cultivated Iron-Oxidizing bacteria (FeOB) and performed clone library analyses of functional genes related to carbon fixation and methane oxidization (cbbM and pmoA, respectively), in addition to bacterial and archaeal 16S rRNA genes, in freshwater Iron-rich flocs at groundwater discharge points. The analyses of 16S rRNA, cbbM, and pmoA genes strongly suggested the coexistence of autotrophic Iron oxidizers and methanotrophs in the flocs. Furthermore, a novel stalk-forming microaerophilic FeOB, strain OYT1, was isolated and characterized phylogenetically and physiologically. The 16S rRNA and cbbM gene sequences of OYT1 are related to those of other microaerophilic FeOB in the family Gallionellaceae, of the Betaproteobacteria, isolated from freshwater envIronments at circumneutral pH. The physiological characteristics of OYT1 will help elucidate the ecophysiology of microaerophilic FeOB. Overall, this study demonstrates functional roles of microorganisms in Iron flocs, suggesting several possible linkages between Fe and C cycling.

Clara S. Chan - One of the best experts on this subject based on the ideXlab platform.

  • ferriphaselus amnicola gen nov sp nov a neutrophilic stalk forming Iron Oxidizing Bacterium isolated from an Iron rich groundwater seep
    International Journal of Systematic and Evolutionary Microbiology, 2014
    Co-Authors: Shingo Kato, Sean T. Krepski, Clara S. Chan, Takashi Itoh, Moriya Ohkuma
    Abstract:

    A neutrophilic, stalk-forming, Iron-Oxidizing Bacterium, strain OYT1T, which was isolated from a groundwater seep in Ohyato Park, Tokyo, Japan, was subjected to taxonomic analysis. OYT1T was a motile, bean-shaped, Gram-negative Bacterium that was able to grow at 8–30 °C (optimally at 25–30 °C) and at pH 5.6–7.3 (optimally at pH 6.1–6.5). The strain grew microaerobically and autotrophically. Major cellular fatty acids detected were C16 : 1ω7c/C16 : 1ω6c and C16 : 0. The total DNA G+C content was 57.6 mol%. 16S rRNA gene sequence analysis revealed that strain OYT1T was affiliated with the class Betaproteobacteria and clustered with Iron-Oxidizing bacteria isolated from groundwater seeps and wetlands and with uncultured clones detected in freshwater Iron-rich envIronments. Based on the phenotypic and phylogenetic characteristics of strain OYT1T, we propose that the strain represents a novel species in a new genus, for which the name Ferriphaselus amnicola gen. nov., sp. nov. is proposed; the type strain of Ferriphaselus amnicola is OYT1T ( = JCM 18545T = DSM 26810T).

  • functional gene analysis of freshwater Iron rich flocs at circumneutral ph and isolation of a stalk forming microaerophilic Iron Oxidizing Bacterium
    Applied and Environmental Microbiology, 2013
    Co-Authors: Shingo Kato, Clara S. Chan, Takashi Itoh, Moriya Ohkuma
    Abstract:

    ABSTRACT Iron-rich flocs often occur where anoxic water containing ferrous Iron encounters oxygenated envIronments. Culture-independent molecular analyses have revealed the presence of 16S rRNA gene sequences related to diverse bacteria, including autotrophic Iron oxidizers and methanotrophs in Iron-rich flocs; however, the metabolic functions of the microbial communities remain poorly characterized, particularly regarding carbon cycling. In the present study, we cultivated Iron-Oxidizing bacteria (FeOB) and performed clone library analyses of functional genes related to carbon fixation and methane oxidization (cbbM and pmoA, respectively), in addition to bacterial and archaeal 16S rRNA genes, in freshwater Iron-rich flocs at groundwater discharge points. The analyses of 16S rRNA, cbbM, and pmoA genes strongly suggested the coexistence of autotrophic Iron oxidizers and methanotrophs in the flocs. Furthermore, a novel stalk-forming microaerophilic FeOB, strain OYT1, was isolated and characterized phylogenetically and physiologically. The 16S rRNA and cbbM gene sequences of OYT1 are related to those of other microaerophilic FeOB in the family Gallionellaceae, of the Betaproteobacteria, isolated from freshwater envIronments at circumneutral pH. The physiological characteristics of OYT1 will help elucidate the ecophysiology of microaerophilic FeOB. Overall, this study demonstrates functional roles of microorganisms in Iron flocs, suggesting several possible linkages between Fe and C cycling.

  • Isolation and characterization of a novel biomineral stalk-forming Iron-Oxidizing Bacterium from a circumneutral groundwater seep
    Environmental microbiology, 2011
    Co-Authors: Sean T. Krepski, Thomas E. Hanson, Clara S. Chan
    Abstract:

    Summary The Fe-depositing microorganism Gallionella ferruginea was first described in 1836 based on its association with Fe-rich envIronments and its distinctive morphology. Since then, this morphology has been widely used to identify G. ferruginea. Researchers have isolated several Fe-Oxidizing bacteria (FeOB) related to Gallionella; however, few isolates have produced organized extracellular biomineral structures, and of these, only one stalk former has a sequenced 16S rRNA gene, listed as G. ferruginea in the GenBank database. Here we report the isolation and characterization of a novel stalk-forming Fe-Oxidizing Bacterium, strain R-1, from a freshwater Fe seep. Despite a strong morphological similarity to G. ferruginea, this isolate has only 93.55% 16S rRNA gene sequence similarity with the previously determined sequence. R-1 only grows on Fe(II) substrates, at pH 5.6 to 7.0 and from 10°C to 35°C, with a doubling time of ∼15 h at pH 6.3 and 22°C. It is a BetaproteoBacterium, most closely related to uncultured bacteria from microaerobic Fe(II)-rich groundwater springs. The most closely related isolates are Sideroxydans spp. (94.05–94.42% sequence similarity), FeOB that are not known to produce morphologically distinct minerals. To our knowledge, this is the first reported stalk-forming freshwater FeOB isolate distinct from Gallionella.

Shingo Kato - One of the best experts on this subject based on the ideXlab platform.

  • Complete Genome Sequence of Ferriphaselus amnicola Strain OYT1, a Neutrophilic, Stalk-Forming, Iron-Oxidizing Bacterium
    Microbiology resource announcements, 2018
    Co-Authors: Shingo Kato, Masahiro Yuki, Takashi Itoh, Moriya Ohkuma
    Abstract:

    ABSTRACT Ferriphaselus amnicola is a freshwater, neutrophilic, Iron-Oxidizing Bacterium that produces extracellular twisted-ribbon-like Iron biominerals called stalks. Here, we report the 2.72-Mb closed genome sequence of F. amnicola strain OYT1, which was isolated from Iron oxide deposits at a groundwater stream in Japan.

  • ferriphaselus amnicola gen nov sp nov a neutrophilic stalk forming Iron Oxidizing Bacterium isolated from an Iron rich groundwater seep
    International Journal of Systematic and Evolutionary Microbiology, 2014
    Co-Authors: Shingo Kato, Sean T. Krepski, Clara S. Chan, Takashi Itoh, Moriya Ohkuma
    Abstract:

    A neutrophilic, stalk-forming, Iron-Oxidizing Bacterium, strain OYT1T, which was isolated from a groundwater seep in Ohyato Park, Tokyo, Japan, was subjected to taxonomic analysis. OYT1T was a motile, bean-shaped, Gram-negative Bacterium that was able to grow at 8–30 °C (optimally at 25–30 °C) and at pH 5.6–7.3 (optimally at pH 6.1–6.5). The strain grew microaerobically and autotrophically. Major cellular fatty acids detected were C16 : 1ω7c/C16 : 1ω6c and C16 : 0. The total DNA G+C content was 57.6 mol%. 16S rRNA gene sequence analysis revealed that strain OYT1T was affiliated with the class Betaproteobacteria and clustered with Iron-Oxidizing bacteria isolated from groundwater seeps and wetlands and with uncultured clones detected in freshwater Iron-rich envIronments. Based on the phenotypic and phylogenetic characteristics of strain OYT1T, we propose that the strain represents a novel species in a new genus, for which the name Ferriphaselus amnicola gen. nov., sp. nov. is proposed; the type strain of Ferriphaselus amnicola is OYT1T ( = JCM 18545T = DSM 26810T).

  • functional gene analysis of freshwater Iron rich flocs at circumneutral ph and isolation of a stalk forming microaerophilic Iron Oxidizing Bacterium
    Applied and Environmental Microbiology, 2013
    Co-Authors: Shingo Kato, Clara S. Chan, Takashi Itoh, Moriya Ohkuma
    Abstract:

    ABSTRACT Iron-rich flocs often occur where anoxic water containing ferrous Iron encounters oxygenated envIronments. Culture-independent molecular analyses have revealed the presence of 16S rRNA gene sequences related to diverse bacteria, including autotrophic Iron oxidizers and methanotrophs in Iron-rich flocs; however, the metabolic functions of the microbial communities remain poorly characterized, particularly regarding carbon cycling. In the present study, we cultivated Iron-Oxidizing bacteria (FeOB) and performed clone library analyses of functional genes related to carbon fixation and methane oxidization (cbbM and pmoA, respectively), in addition to bacterial and archaeal 16S rRNA genes, in freshwater Iron-rich flocs at groundwater discharge points. The analyses of 16S rRNA, cbbM, and pmoA genes strongly suggested the coexistence of autotrophic Iron oxidizers and methanotrophs in the flocs. Furthermore, a novel stalk-forming microaerophilic FeOB, strain OYT1, was isolated and characterized phylogenetically and physiologically. The 16S rRNA and cbbM gene sequences of OYT1 are related to those of other microaerophilic FeOB in the family Gallionellaceae, of the Betaproteobacteria, isolated from freshwater envIronments at circumneutral pH. The physiological characteristics of OYT1 will help elucidate the ecophysiology of microaerophilic FeOB. Overall, this study demonstrates functional roles of microorganisms in Iron flocs, suggesting several possible linkages between Fe and C cycling.