Relevant bibliographies by topics / Paracoccus pantotrophus

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Academic literature on the topic 'Paracoccus pantotrophus'

Author: Grafiati
Published: 4 June 2021
Last updated: 18 February 2022

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Journal articles on the topic "Paracoccus pantotrophus"

1

Bartosik, Dariusz, Marta Sochacka, and Jadwiga Baj. "Identification and Characterization of Transposable Elements of Paracoccus pantotrophus." Journal of Bacteriology 185, no. 13 (July 1, 2003): 3753–63. http://dx.doi.org/10.1128/jb.185.13.3753-3763.2003.

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ABSTRACT We studied diversity and distribution of transposable elements residing in different strains (DSM 11072, DSM 11073, DSM 65, and LMD 82.5) of a soil bacterium Paracoccus pantotrophus (α-Proteobacteria). With application of a shuttle entrapment vector pMEC1, several novel insertion sequences (ISs) and transposons (Tns) have been identified. They were sequenced and subjected to detailed comparative analysis, which allowed their characterization (i.e., identification of transposase genes, terminal inverted repeats, as well as target sequences) and classification into the appropriate IS or Tn families. The frequency of transposition of these elements varied and ranged from 10−6 to 10−3 depending on the strain. The copy number, localization (plasmid or chromosome), and distribution of these elements in the Paracoccus species P. pantotrophus, P. denitrificans, P. methylutens, P. solventivorans, and P. versutus were analyzed. This allowed us to distinguish elements that are common in paracocci (ISPpa2, ISPpa3—both of the IS5 family—and ISPpa5 of IS66 family) as well as strain-specific ones (ISPpa1 of the IS256 family, ISPpa4 of the IS5 family, and Tn3434 and Tn5393 of the Tn3 family), acquired by lateral transfer events. These elements will be of a great value in the design of new genetic tools for paracocci, since only one element (IS1248 of P. denitrificans) has been described so far in this genus.
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Zajicek, R. S., and S. J. Ferguson. "The enigma of Paracoccus pantotrophus cytochrome cd1 activation." Biochemical Society Transactions 33, no. 1 (February 1, 2005): 147–48. http://dx.doi.org/10.1042/bst0330147.

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Paracoccus pantotrophus cytochrome cd1 nitrite reductase is isolated under aerobic conditions from anaerobically grown cells in an inactive form. This state requires reductive activation to make it catalytically competent for nitrite reduction. In this work, we discuss the methods of this reductive activation and its consequences for the cell.
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Bardischewsky, Frank, Jörg Fischer, Bettina Höller, and Cornelius G. Friedrich. "SoxV transfers electrons to the periplasm of Paracoccus pantotrophus – an essential reaction for chemotrophic sulfur oxidation." Microbiology 152, no. 2 (February 1, 2006): 465–72. http://dx.doi.org/10.1099/mic.0.28523-0.

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The soxVW genes are located upstream of the sox gene cluster encoding the sulfur-oxidizing ability of Paracoccus pantotrophus. SoxV is highly homologous to CcdA, which is involved in cytochrome c maturation of P. pantotrophus. SoxV was shown to function in reduction of the periplasmic SoxW, which shows a CysXaaXaaCys motif characteristic for thioredoxins. From strain GBΩV, which carries an Ω-kanamycin-resistance-encoding interposon in soxV, and complementation analysis it was evident that SoxV but not the periplasmic SoxW was essential for lithoautotrophic growth of P. pantotrophus with thiosulfate. However, the thiosulfate-oxidizing activities of cell extracts from the wild-type and from strain GBΩV were similar, demonstrating that the low thiosulfate-oxidizing activity of strain GBΩV in vivo was not due to a defect in biosynthesis or maturation of proteins of the Sox system and suggesting that SoxV is part of a regulatory or catalytic system of the Sox system. Analysis of DNA sequences available from different organisms harbouring a Sox system revealed that soxVW genes are exclusively present in sox operons harbouring the soxCD genes, encoding sulfur dehydrogenase, suggesting that SoxCD might be a redox partner of SoxV. No complementation of the ccdA mutant P. pantotrophus TP43 defective in cytochrome c maturation was achieved by expression of soxV in trans, demonstrating that the high identity of SoxV and CcdA does not correspond to functional homology.
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Singh, V., and A. K. Mittal. "Characterization of biofilm of a rotating biological contactor treating synthetic wastewater." Water Science and Technology 66, no. 2 (July 1, 2012): 429–37. http://dx.doi.org/10.2166/wst.2012.221.

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A four-stage rotating biological contactor (RBC) was designed and operated to treat synthetic wastewater containing 1,000 mg/l chemical oxygen demand (COD) and 112 mg/l NH4+-N. A mixed culture bacterial biofilm was developed consisting of a heterotrophic bacterium Paracoccus pantotrophus, nitrifiers and other heterotrophs. Applying the peculiar characteristics of P. pantotrophus of simultaneous heterotrophic nitrification and aerobic denitrification, high simultaneous removal of carbon and nitrogen could be achieved in the fully aerobic RBC. The microbial community structure of the RBC biofilm was categorized based on the nitrate reduction, biochemical reactions, gram staining and morphology. The presence of P. pantotrophus within the RBC biofilm was confirmed with an array of biochemical tests. Isolates from the four stages of RBC were grouped into complete denitrifiers, incomplete denitrifiers and non-denitrifiers. This categorization showed a higher relative abundance of P. pantotrophus in the first stage as compared with subsequent stages, in which other nitrifiers and heterotrophs were significantly present. High total nitrogen removal of upto 68% was in conformity with observations made using microbial categorization and biochemical tests. The high relative abundance of P. pantotrophus in the biofilm revealed that it could successfully compete with other heterotrophs and autotrophic nitrifiers in mixed bacterial biomass.
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Hasegawa-Kurisu, K., Y. Otani, and K. Hanaki. "Evaluation of nitrate removal by continuous culturing of an aerobic denitrifying bacterium, Paracoccus pantotrophus." Water Science and Technology 54, no. 8 (October 1, 2006): 219–28. http://dx.doi.org/10.2166/wst.2006.752.

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Nitrate removal under aerobic conditions was investigated using pure cultures of Paracoccus pantotrophus, which is a well-known aerobic-denitrifying (AD) bacterium. When a high concentration of cultures with a high carbon/nitrogen (C/N) ratio was preserved at the beginning of batch experiments, subsequently added nitrate was completely removed. When continuous culturing was perpetuated, a high nitrate removal rate (66.5%) was observed on day 4 post-culture, although gradual decreases in AD ability with time were observed. The attenuation in AD ability was probably caused by carbon limitation, because when carbon concentration of inflow water was doubled, nitrate removal efficiency improved from 18.1% to 59.6%. Bacterial community analysis using the polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE) method showed that P. pantotrophus disappeared in the suspended medium on day 8 post-culture, whereas other bacterial communities dominated by Acidovorax sp. appeared. Interestingly, this replaced bacterial community also showed AD ability. As P. pantotrophus was detected as attached colonies around the membrane and bottom of the reactor, this bacterium can therefore be introduced in a fixed form for treatment of wastewater containing nitrate with a high C/N ratio.
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Bartosik, Dariusz, Michal Szymanik, and Jadwiga Baj. "Identification and Distribution of Insertion Sequences of Paracoccus solventivorans." Applied and Environmental Microbiology 69, no. 12 (December 2003): 7002–8. http://dx.doi.org/10.1128/aem.69.12.7002-7008.2003.

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ABSTRACT Three novel insertion sequences (ISs) (ISPso1, ISPso2, and ISPso3) of the soil bacterium Paracoccus solventivorans DSM 11592 were identified by transposition into entrapment vector pMEC1. ISPso1 (1,400 bp) carries one large open reading frame (ORF) encoding a putative basic protein (with a DDE motif conserved among transposases [Tnps] of elements belonging to the IS256 family) with the highest levels of similarity with the hypothetical Tnps of Rhodospirillum rubrum and Sphingopyxis macrogoltabida. ISPso2 (832 bp) appeared to be closely related to ISPpa2 of Paracoccus pantotrophus DSM 11072 and IS1248 of Paracoccus denitrificans PdX22, both of which belong to the IS427 group (IS5 family). These elements contain two overlapping ORFs and a putative frameshift motif (AAAAG) responsible for production of a putative transframe Tnp. ISPso3 (1,286 bp) contains a single ORF, whose putative product showed homology with Tnps of ISs classified as members of a distinct subgroup of the IS5 group of the IS5 family. The highest levels of similarity were observed with ISSsp126 of Sphingomonas sp. and IS1169 of Bacteroides fragilis. Analysis of the distribution of ISs of P. solventivorans revealed that ISPso2-like elements are the most widely spread of the elements in nine species of the genus Paracoccus. ISPso1 and ISPso3 are present in only a few paracoccal strains, which suggests that they were acquired by lateral transfer. Phylogenetic analysis of Tnps of the novel ISs and their closest relatives showed their evolutionary relationships and possible directions of lateral transfer between various bacterial hosts.
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Otani, Y., K. Hasegawa, and K. Hanaki. "Comparison of aerobic denitrifying activity among three cultural species with various carbon sources." Water Science and Technology 50, no. 8 (October 1, 2004): 15–22. http://dx.doi.org/10.2166/wst.2004.0477.

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Abilities of three aerobic denitrifiers such as Alcaligenes faecalis, Microvirgula aerodenitrificans and Paracoccus pantotrophus were compared from the viewpoints of nitrate removal efficiency and organic matter utilization. First, the effect of carbon source was investigated. Although nitrate reduction was observed in all strains under aerobic conditions, a change of carbon source considerably affected the denitrification ability. In the case of P. pantotrophus, nitrate and nitrite were completely removed in three days under sodium acetate or leucine as a carbon source. In the case of A. faecalis, sufficient nitrate removal was observed only when sodium acetate or ethanol was added. P. pantotrophus and A. faecalis showed a higher ability of nitrate removal than that of M. aerodenitrificans. Therefore, P. pantotrophus was selected in order to investigate the effects of concentration and repetitive addition of carbon. Sodium acetate was used as a sole carbon source. Nitrate was not reduced when the carbon concentration was below 500 mgC/L. However, when carbon source was added repeatedly, nitrate was reduced under 100 mgC/L after the optical density of the bacterium reached above 1.0. This result indicated that a high enough level of bacterial density was necessary to express aerobic denitrification activity.
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van Wonderen, Jessica H., Christopher Knight, Vasily S. Oganesyan, Simon J. George, Walter G. Zumft, and Myles R. Cheesman. "Activation of the Cytochrome cd1 Nitrite Reductase from Paracoccus pantotrophus." Journal of Biological Chemistry 282, no. 38 (July 10, 2007): 28207–15. http://dx.doi.org/10.1074/jbc.m701242200.

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Cytochromes cd1 are dimeric bacterial nitrite reductases, which contain two hemes per monomer. On reduction of both hemes, the distal ligand of heme d1 dissociates, creating a vacant coordination site accessible to substrate. Heme c, which transfers electrons from donor proteins into the active site, has histidine/methionine ligands except in the oxidized enzyme from Paracoccus pantotrophus where both ligands are histidine. During reduction of this enzyme, Tyr25 dissociates from the distal side of heme d1, and one heme c ligand is replaced by methionine. Activity is associated with histidine/methionine coordination at heme c, and it is believed that P. pantotrophus cytochrome cd1 is unreactive toward substrate without reductive activation. However, we report here that the oxidized enzyme will react with nitrite to yield a novel species in which heme d1 is EPR-silent. Magnetic circular dichroism studies indicate that heme d1 is low-spin FeIII but EPR-silent as a result of spin coupling to a radical species formed during the reaction with nitrite. This reaction drives the switch to histidine/methionine ligation at FeIII heme c. Thus the enzyme is activated by exposure to its physiological substrate without the necessity of passing through the reduced state. This reactivity toward nitrite is also observed for oxidized cytochrome cd1 from Pseudomonas stutzeri suggesting a more general involvement of the EPR-silent FeIII heme d1 species in nitrite reduction.
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9

Rother, Dagmar, Grazyna Orawski, Frank Bardischewsky, and Cornelius G. Friedrich. "SoxRS-mediated regulation of chemotrophic sulfur oxidation in Paracoccus pantotrophus." Microbiology 151, no. 5 (May 1, 2005): 1707–16. http://dx.doi.org/10.1099/mic.0.27724-0.

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Paracoccus pantotrophus GB17 requires thiosulfate for induction of the sulfur-oxidizing (Sox) enzyme system. The soxRS genes are divergently oriented to the soxVWXYZA–H genes. soxR predicts a transcriptional regulator of the ArsR family and soxS a periplasmic thioredoxin. The homogenote mutant GBΩS carrying a disruption of soxS by the Ω-kanamycin-resistance-encoding interposon expressed a low thiosulfate-oxidizing activity under heterotrophic and mixotrophic growth conditions. This activity was repressed by complementation with soxR, suggesting that SoxR acts as a repressor and SoxS is essential for full expression. Sequence analysis uncovered operator characteristics in the intergenic regions soxS–soxV and soxW–soxX. In each region a transcription start site was identified by primer extension analysis. Both regions were cloned into the vector pRI1 and transferred to P. pantotrophus. Strains harbouring pRI1 with soxS–soxV or soxW–soxX expressed the sox genes under heterotrophic conditions at a low rate, indicating repressor titration. Sequence analysis of SoxR suggested a helix–turn–helix (HTH) motif at position 87–108 and uncovered an invariant Cys-80 and a cysteine residue at the C-terminus. SoxR was overproduced in Escherichia coli with an N-terminal His6-tag and purified to near homogeneity. Electrophoretic gel mobility shift assays with SoxR retarded the soxS–soxV region as a single band while the soxW–soxX region revealed at least two protein–DNA complexes. These data demonstrated binding of SoxR to the relevant DNA. This is believed to be the first report of regulation of chemotrophic sulfur oxidation at the molecular level.
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Vikromvarasiri, Nunthaphan, Jinjuta Juntranapaporn, and Nipon Pisutpaisal. "Performance of Paracoccus pantotrophus for H2S removal in biotrickling filter." International Journal of Hydrogen Energy 42, no. 45 (November 2017): 27820–25. http://dx.doi.org/10.1016/j.ijhydene.2017.05.232.

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Dissertations / Theses on the topic "Paracoccus pantotrophus"

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Zander, Ulrich [Verfasser]. "Kristallstruktur der Sulfandehydrogenase SoxCD aus Paracoccus pantotrophus / Ulrich Zander." Kiel : Universitätsbibliothek Kiel, 2011. http://d-nb.info/1020202742/34.

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Jafferji, Arif. "Structural studies on three enzymes of denitrification from Paracoccus pantotrophus." Thesis, University of Oxford, 1999. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.325964.

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Zajicek, Richard. "The mutagenesis and enzymology of Paracoccus pantotrophus cytochrome cd₁ nitrite reductase." Thesis, University of Oxford, 2004. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.403777.

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Cartron, Michaël. "Expression and characterisation of two c-type cytochrome domains from 'Paracoccus pantotrophus'." Thesis, University of Oxford, 2003. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.400069.

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Ellington, Matthew. "Expression of the periplasmic nitrate reductase in Paracoccus pantotrophus and Rhodobacter capsulans." Thesis, University of Oxford, 2003. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.275322.

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Ewles, Matthew Frederick. "Transcriptional regulation of the membrane bound nitrate reductase of Paracoccus pantotrophus by NarR." Thesis, University of York, 2006. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.440815.

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Dambe, Tresfore Richard [Verfasser]. "Strukturelle Untersuchungen an 1,5-Anhydro-D-fructose-Reduktase aus Sinorhizobium morelense S-30.7.5. und SoxXA aus Paracoccus pantotrophus / Tresfore Richard Dambe." Dortmund : Universitätsbibliothek Technische Universität Dortmund, 2005. http://d-nb.info/1011533413/34.

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Winkelmann, Mario. "Anwendung kalorimetrischer Methoden zur Untersuchung des Alkanabbaus durch den Mikroorganismus Rhodococcus opacus 1CP." Doctoral thesis, Technische Universitaet Bergakademie Freiberg Universitaetsbibliothek "Georgius Agricola&quot, 2009. http://nbn-resolving.de/urn:nbn:de:bsz:105-8893471.

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Ziel der vorliegenden Arbeit war die Charakterisierung des Wachstumsverhaltens von Mikroorganismen auf Alkanen am Beispiel des Bodenbakteriums Rhodococcus opacus 1CP. Unter Einsatz kalorimetrischer Methoden konnte das Wachstumsverhalten von 1CP auf Glucose und Alkanen mit sehr guter Reproduzierbarkeit aufgezeichnet werden. In Abhängigkeit der Substrateigenschaften wurden Änderungen der Wachstumskinetik registriert, welche auf die Aggregation der Zellkultur zurückgeführt werden konnten. Die kalorimetrischen Befunde zum Aggregationsverhalten wurden mittels Gaschromatographie und Partikelgrößenbestimmung bestätigt. Durch Biotensidquantifizierung in kalorimetrisch aufgezeichneten Kultivierungen von 1CP auf Alkanen konnte eine wachstumsassoziierte Biotensidbildung nachgewiesen werden. Elementaranalytische Untersuchungen ergaben eine Variation der Biomassezusammensetzung von 1CP in Abhängigkeit der C-Quelle. Unter Berücksichtigung von Biomasse- und Biotensidbildung wurden Summenreaktionen für die Wachstumsprozesse formuliert und durch Verifikation mit kalorimetrisch ermittelten Enthalpien des Substratumsatzes bestätigt.
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Moir, James W. B. "Aspects of electron transport in Thiosphaera pantotropha and Paracoccus denitrificans." Thesis, University of Oxford, 1993. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.386635.

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Carius, Yvonne [Verfasser]. "Struktur- und Funktionsanalyse der Galaktitol-Dehydrogenase aus Rhodobacter sphaeroides und der Thiol-Disulfid-Oxidoreduktase SoxS aus Paracoccus pantotrophus / von Yvonne Carius." 2009. http://d-nb.info/996230149/34.

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Book chapters on the topic "Paracoccus pantotrophus"

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Friedrich, Cornelius G., Armin Quentmeier, Frank Bardischewsky, Dagmar Rother, Grazyna Orawski, Petra Hellwig, and Jürg Fischer. "Redox Control of Chemotrophic Sulfur Oxidation of Paracoccus pantotrophus." In Microbial Sulfur Metabolism, 139–50. Berlin, Heidelberg: Springer Berlin Heidelberg, 2008. http://dx.doi.org/10.1007/978-3-540-72682-1_12.

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