Metabolic reconstruction of aromatic compounds degradation from the genome of the amazing pollutant-degrading bacterium<i>Cupriavidus necator</i>JMP134
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Ampe F Uribelarrea JL Aragao GM Lindley ND (1997) Benzoate degradation via the ortho pathway in Alcaligenes eutrophus is perturbed by succinate. Appl Environ Microbiol 63: 2765–2770.
Arai H Akahira S Ohishi T Maeda M Kudo T (1998) Adaptation of Comamonas testosteroni TA441 to utilize phenol: organization and regulation of the genes involved in phenol degradation. Microbiology 144: 2895–2903.
Arai H Yamamoto T Ohishi T Shimizu T Nakata T Kudo T (1999b) Genetic organization and characteristics of the 3-(3-hydroxyphenyl)propionic acid degradation pathway of Comamonas testosteroni TA441. Microbiology 145: 2813–2820.
Arai H Ohishi T Chang MY Kudo T (2000) Arrangement and regulation of the genes for meta-pathway enzymes required for degradation of phenol in Comamonas testosteroni TA441. Microbiology 146: 1707–1715.
Arias-Barrau E Olivera ER Luengo JM et al. (2004) The homogentisate pathway: a central catabolic pathway involved in the degradation of l-phenylalanine, l-tyrosine, and 3-hydroxyphenylacetate in Pseudomonas putida. J Bacteriol 186: 5062–5077.
Arunachalam U Massey V Vaidyanathan CS (1992) p-Hydroxyphenylacetate-3-hydroxylase. A two-protein component enzyme. J Biol Chem 267: 25848–25855.
Assinder SJ Williams PA (1990) The TOL plasmids: determinants of the catabolism of toluene and the xylenes. Adv Microb Physiol 31: 1–69.
Asturias JA Timmis KN (1993) Three different 2,3-dihydroxybiphenyl-1,2-dioxygenase genes in the gram-positive polychlorobiphenyl-degrading bacterium Rhodococcus globerulus P6. J Bacteriol 175: 4631–4640.
Bahar M De Majnik J Saint CP Murphy PJ (2000) Conservation of a pseudomonad-like hydrocarbon degradative ferredoxin oxygenase complex involved in rhizopine catabolism in Sinorhizobium meliloti and Rhizobium leguminosarum bv. viciae . J Mol Microbiol Biotechnol 2: 257–259.
Barnes MR Duetz WA Williams PA (1997) A 3-(3-hydroxyphenyl)propionic acid catabolic pathway in Rhodococcus globerulus PWD1: cloning and characterization of the hpp operon. J Bacteriol 179: 6145–6153.
Bayly RC Chapman PJ Dagley S Di Berardino D (1980) Purification and some properties of maleylpyruvate hydrolase and fumarylpyruvate hydrolase from Pseudomonas alcaligenes . J Bacteriol 143: 70–77.
Beadle CA Smith AR (1982) The purification and properties of 2,4-dichlorophenol hydroxylase from a strain of Acinetobacter species. Eur J Biochem 123: 323–332.
Bertani I Kojic M Venturi V (2001) Regulation of the p-hydroxybenzoic acid hydroxylase gene (pobA) in plant-growth-promoting Pseudomonas putida WCS358. Microbiology 147: 1611–1620.
Bertoni G Martino M Galli E Barbieri P (1998) Analysis of the gene cluster encoding toluene/o-xylene monooxygenase from Pseudomonas stutzeri OX1. Appl Environ Microbiol 64: 3626–3632.
Bhat MA Tsuda M Horiike K Nozaki M Vaidyanathan CS Nakazawa T (1994) Identification and characterization of a new plasmid carrying genes for degradation of 2,4-dichlorophenoxyacetate from Pseudomonas cepacia CSV90. Appl Environ Microbiol 60: 307–312.
Bosch R Moore ER Garcia-Valdes E Pieper DH (1999) NahW, a novel, inducible salicylate hydroxylase involved in mineralization of naphthalene by Pseudomonas stutzeri AN10. J Bacteriol 181: 2315–2322.
Burlingame R Chapman PJ (1983) Catabolism of phenylpropionic acid and its 3-hydroxy derivative by Escherichia coli . J Bacteriol 155: 113–121.
Byrne AM Olsen RH (1996) Cascade regulation of the toluene-3-monooxygenase operon (tbuA1UBVA2C) of Burkholderia pickettii PKO1: role of the tbuA1 promoter (PtbuA1) in the expression of its cognate activator, TbuT. J Bacteriol 178: 6327–6337.
Cafaro V Izzo V Scognamiglio R et al. (2004) Phenol hydroxylase and toluene/o-xylene monooxygenase from Pseudomonas stutzeri OX1: interplay between two enzymes. Appl Environ Microbiol 70: 2211–2219.
Cerdan P Rekik M Harayama S (1995) Substrate specificity differences between two catechol 2,3-dioxygenases encoded by the TOL and NAH plasmids from Pseudomonas putida . Eur J Biochem 229: 113–118.
Chaudhry GR Huang GH (1988) Isolation and characterization of a new plasmid from a Flavobacterium sp. which carries the genes for degradation of 2,4-dichlorophenoxyacetate. J Bacteriol 170: 3897–3902.
Chistoserdov AY (2001) Cloning, sequencing and mutagenesis of the genes for aromatic amine dehydrogenase from Alcaligenes faecalis and evolution of amine dehydrogenases. Microbiology 147: 2195–2202.
Clement P Pieper DH Gonzalez B (2001) Molecular characterization of a deletion/duplication rearrangement in tfd genes from Ralstonia eutropha JMP134(pJP4) that improves growth on 3-chlorobenzoic acid but abolishes growth on 2,4-dichlorophenoxyacetic acid. Microbiology 147: 2141–2148.
Crawford RL Frick TD (1977) Rapid spectrophotometric differentiation between glutathione-dependent and glutathione-independent gentisate and homogentisate pathways. Appl Environ Microbiol 34: 170–174.
Daubaras DL Hershberger CD Kitano K Chakrabarty AM (1995) Sequence analysis of a gene cluster involved in metabolism of 2,4,5-trichlorophenoxyacetic acid by Burkholderia cepacia AC1100. Appl Environ Microbiol 61: 1279–1289.
Denef VJ Park J Tsoi TV et al. (2004) Biphenyl and benzoate metabolism in a genomic context: outlining genome-wide metabolic networks in Burkholderia xenovorans LB400. Appl Environ Microbiol 70: 4961–4970.
Diaz E Ferrandez A Garcia JL (1998) Characterization of the hca cluster encoding the dioxygenolytic pathway for initial catabolism of 3-phenylpropionic acid in Escherichia coli K-12. J Bacteriol 180: 2915–2923.
Don RH Pemberton JM (1981) Properties of six pesticide degradation plasmids isolated from Alcaligenes paradoxus and Alcaligenes eutrophus . J Bacteriol 145: 681–686.
Don RH Weightman AJ Knackmuss HJ Timmis KN (1985) Transposon mutagenesis and cloning analysis of the pathways for degradation of 2,4-dichlorophenoxyacetic acid and 3-chlorobenzoate in Alcaligenes eutrophus JMP134(pJP4). J Bacteriol 161: 85–90.
Eltis LD Bolin JT (1996) Evolutionary relationships among extradiol dioxygenases. J Bacteriol 178: 5930–5937.
Erickson BD Mondello FJ (1992) Nucleotide sequencing and transcriptional mapping of the genes encoding biphenyl dioxygenase, a multicomponent polychlorinated-biphenyl-degrading enzyme in Pseudomonas strain LB400. J Bacteriol 174: 2903–2912.
Eulberg D Lakner S Golovleva LA Schlomann M (1998) Characterization of a protocatechuate catabolic gene cluster from Rhodococcus opacus 1CP: evidence for a merged enzyme with 4-carboxymuconolactone-decarboxylating and 3-oxoadipate enol-lactone-hydrolyzing activity. J Bacteriol 180: 1072–1081.
Ezezika OC Collier-Hyams LS Dale HA Burk AC Neidle EL (2006) CatM regulation of the benABCDE operon: functional divergence of two LysR-type paralogs in Acinetobacter baylyi ADP1. Appl Environ Microbiol 72: 1749–1758.
Ferrandez A Garcia JL Diaz E (1997) Genetic characterization and expression in heterologous hosts of the 3-(3-hydroxyphenyl)propionate catabolic pathway of Escherichia coli K-12. J Bacteriol 179: 2573–2581.
Filer K Harker AR (1997) Identification of the inducing agent of the 2,4-dichlorophenoxyacetic acid pathway encoded by plasmid pJP4. Appl Environ Microbiol 63: 317–320.
Fox BG Surerus KK Munck E Lipscomb JD (1988) Evidence for a mu-oxo-bridged binuclear iron cluster in the hydroxylase component of methane monooxygenase. Mossbauer and EPR studies. J Biol Chem 263: 10553–10556.
Francisco P Jr Ogawa N Suzuki K Miyashita K (2001) The chlorobenzoate dioxygenase genes of Burkholderia sp. strain NK8 involved in the catabolism of chlorobenzoates. Microbiology 147: 121–133.
Frantz B Ngai KL Chatterjee DK Ornston LN Chakrabarty AM (1987) Nucleotide sequence and expression of clcD, a plasmid-borne dienelactone hydrolase gene from Pseudomonas sp. strain B13. J Bacteriol 169: 704–709.
Fukumori F Hausinger RP (1993a) Purification and characterization of 2,4-dichlorophenoxyacetate alpha-ketoglutarate dioxygenase. J Biol Chem 268: 24311–24317.
Fukumori F Hausinger RP (1993b) Alcaligenes eutrophus JMP134 “2,4-dichlorophenoxyacetate monooxygenase” is an alpha-ketoglutarate-dependent dioxygenase. J Bacteriol 175: 2083–2086.
Gescher J Eisenreich W Wörth J Bacher A Fuchs G (2005) Aerobic benzoyl-CoA catabolic pathway in Azoarcus evansii : studies on the non-oxygenolytic ring cleavage enzyme. Mol Microbiol 56: 1586–1600.
Gescher J Ismail W Olgeschläger E Eisenreich W Wörth J Fuchs G (2006) Aerobic benzoyl-coenzyme A (CoA) catabolic pathway in Azoarcus evansii : conversion of ring cleavage product by 3,4-dehydroadipyl-CoA semialdehyde dehydrogenase. J Bacteriol 188: 2919–2927.
Gobel M Kassel-Cati K Schmidt E Reineke W (2002) Degradation of aromatics and chloroaromatics by Pseudomonas sp. strain B13:: succinyl-coenzyme A (CoA) transferase and 3-oxoadipyl-CoA thiolase. J Bacteriol 184: 216–223.
Goetz FE Harmuth LJ (1992) Gentisate pathway in Salmonella typhimurium : metabolism of m-hydroxybenzoate and gentisate. FEMS Microbiol Lett 76: 45–49.
Grimm AC Harwood CS (1999) NahY, a catabolic plasmid-encoded receptor required for chemotaxis of Pseudomonas putida to the aromatic hydrocarbon naphthalene. J Bacteriol 181: 3310–3316.
Hagedorn SR Chapman PJ (1985) Glutathione-independent maleylacetoacetate isomerase in gram-positive bacteria. J Bacteriol 163: 803–805.
Hamzah RY Al-Baharna BS (1994) Catechol ring-cleavage in Pseudomonas cepacia : the simultaneous induction of ortho and meta pathways. Appl Microbiol Biotech 41: 250–256.
Hamzah RY Al-Baharna BS (2001) The induction of 4-hydroxyphenylacetic acid-1-hydroxylase and the homogentisate pathway in Burkholderia cepacia ATCC 29351 by 4-hydroxyphenylacetic acid. Society for General Microbiology – 148th Ordinary Meeting – Heriot-Watt University.
Harayama S Mermod N Rekik M Lehrbach PR Timmis KN (1987) Roles of the divergent branches of the meta-cleavage pathway in the degradation of benzoate and substituted benzoates. J Bacteriol 169: 558–564.
Hareland WA Crawford RL Chapman PJ Dagley S (1975) Metabolic function and properties of 4-hydroxyphenylacetic acid 1-hydroxylase from Pseudomonas acidovorans . J Bacteriol 121: 272–285.
Harker AR Olsen RH Seidler RJ (1989) Phenoxyacetic acid degradation by the 2,4-dichlorophenoxyacetic acid (Tfd) pathway of plasmid-pJP4 – mapping and characterization of the Tfd regulatory gene, tfdR . J Bacteriol 171: 314–320.
Harpel MR Lipscomb JD (1990) Gentisate-1,2-dioxygenase from Pseudomonas. Purification, characterization, and comparison of the enzymes from Pseudomonas testosteroni and Pseudomonas acidovorans . J Biol Chem 265: 6301–6311.
Harwood CS Nichols NN Kim MK Ditty JL Parales RE (1994) Identification of the pcaRKF gene cluster from Pseudomonas putida : involvement in chemotaxis, biodegradation, and transport of 4-hydroxybenzoate. J Bacteriol 176: 6479–6488.
Honore N Cole ST (1990) Nucleotide sequence of the aroP gene encoding the general aromatic amino acid transport protein of Escherichia coli K-12: homology with yeast transport proteins. Nucleic Acids Res 18: 653.
Hubner A Danganan CE Xun L Chakrabarty AM Hendrickson W (1998) Genes for 2,4,5-trichlorophenoxyacetic acid metabolism in Burkholderia cepacia AC1100: characterization of the tftC and tftD genes and locations of the tft operons on multiple replicons. Appl Environ Microbiol 64: 2086–2093.
Hugo N Meyer C Armengaud J Gaillard J Timmis KN Jouanneau Y (2000) Characterization of three XylT-like [2Fe–2S] ferredoxins associated with catabolism of cresols or naphthalene: evidence for their involvement in catechol dioxygenase reactivation. J Bacteriol 182: 5580–5585.
Ismail W El-Said Mohamed M Wanner BL et al. (2003) Functional genomics by NMR spectroscopy. Phenylacetate catabolism in Escherichia coli . Eur J Biochem 270: 3047–3054.
Jeong JJ Kim JH Kim CK Hwang I Lee K (2003) 3- and 4-alkylphenol degradation pathway in Pseudomonas sp. strain KL28: genetic organization of the lap gene cluster and substrate specificities of phenol hydroxylase and catechol 2,3-dioxygenase. Microbiology 149: 3265–3277.
Johnson BF Stanier RY (1971) Dissimilation of aromatic compounds by Alcaligenes eutrophus . J Bacteriol 107: 468–475.
Kaphammer B Olsen RH (1990) Cloning and characterization of tfdS, the repressor-activator gene of tfdB, from the 2,4-dichlorophenoxyacetic acid catabolic plasmid pLP4. J Bacteriol 172: 5856–5862.
Kasberg T Daubaras DL Chakrabarty AM Kinzelt D Reineke W (1995) Evidence that operons tcb, tfd, and clc encode maleylacetate reductase, the fourth enzyme of the modified ortho pathway. J Bacteriol 177: 3885–3889.
Kaschabek SR Reineke W (1992) Maleylacetate reductase of Pseudomonas sp. strain B13: dechlorination of chloromaleylacetates, metabolites in the degradation of chloroaromatic compounds. Arch Microbiol 158: 412–417.
Kaschabek SR Kasberg T Muller D Mars AE Janssen DB Reineke W (1998) Degradation of chloroaromatics: purification and characterization of a novel type of chlorocatechol 2,3-dioxygenase of Pseudomonas putida GJ31. J Bacteriol 180: 296–302.
Kim Y Harker AR (1997) Cloning and characterization of the regulatory genes phlR1 and phlR2 involved in phenol metabolism from Alcaligenes eutrophus JMP134. Mol Cells 7: 620–629.
Kim Y Ayoubi P Harker AR (1996) Constitutive expression of the cloned phenol hydroxylase gene(s) from Alcaligenes eutrophus JMP134 and concomitant trichloroethylene oxidation. Appl Environ Microbiol 62: 3227–3233.
Knackmuss H-J Hellwig M Lackner H Otting W (1976) Cometabolism of 3-methylbenzoate and methylcatechols by a 3-chlorobenzoate utilizing Pseudomonas : acumulation of (+)-2,5-dihydro-4-methyl- and (+)-2,5-dihydro-2-methyl-5-oxo-furan-2-acetic acid. Eur J Appl Microbiol 2: 267–276.
Kuramitsu S Inoue K Ogawa T Ogawa H Kagamiyama H (1985) Aromatic amino acid aminotransferase of Escherichia coli : nucleotide sequence of the tyrB gene. Biochem Biophys Res Commun 133: 134–139.
Kurnasov O Jablonski L Polanuyer B Dorrestein P Begley T Osterman A (2003) Aerobic tryptophan degradation pathway in bacteria: novel kynurenine formamidase. FEMS Microbiol Lett 227: 219–227.
Lam WW Bugg TD (1997) Purification, characterization, and stereochemical analysis of a C–C hydrolase: 2-hydroxy-6-keto-nona-2,4-diene-1,9-dioic acid 5,6-hydrolase. Biochemistry 36: 12242–12251.
Latus M Seitz HJ Eberspacher J Lingens F (1995) Purification and characterization of hydroxyquinol 1,2-dioxygenase from Azotobacter sp. strain Gp1. Appl Environ Microbiol 61: 2453–2460.
Laurie AD Lloyd-Jones G (1999) The phn genes of Burkholderia sp. strain RP007 constitute a divergent gene cluster for polycyclic aromatic hydrocarbon catabolism. J Bacteriol 181: 531–540.
Leveau JHJ Van Der Meer JR (1996) The tfdR gene product can successfully take over the role of the insertion element-inactivated TfdT protein as a transcriptional activator of the tfdCDEF gene cluster, which encodes chlorocatechol degradation in Ralstonia eutropha JMP134(pJP4). J Bacteriol 178: 6824–6832.
Leveau JHJ Zehnder AJB Van Der Meer JR (1998) The tfdK gene product facilitates uptake of 2,4-dichlorophenoxyacetate by Ralstonia eutropha JMP134(pJP4). J Bacteriol 180: 2237–2243.
Lorite MJ Sanjuan J Velasco L Olivares J Bedmar EJ (1998) Characterization of Bradyrhizobium japonicum pcaBDC genes involved in 4-hydroxybenzoate degradation. Biochim Biophys Acta 1397: 257–261.
Mars AE Kingma J Kaschabek SR Reineke W Janssen DB (1999) Conversion of 3-chlorocatechol by various catechol-2,3-dioxygenases and sequence analysis of the chlorocatechol dioxygenase region of Pseudomonas putida GJ31. J Bacteriol 181: 1309–1318.
Mashetty SB Manohar S Karegoudar TB (1996) Degradation of 3-hydroxybenzoic acid by a Bacillus species. Indian J Biochem Biophys 33: 145–148.
Matrubutham U Harker AR (1994) Analysis of duplicated gene sequences associated with tfdR and tfdS in Alcaligenes eutrophus JMP134. J Bacteriol 176: 2348–2353.
Mayaux JF Cerbelaud E Soubrier F Yeh P Blanche F Petre D (1991) Purification, cloning, and primary structure of a new enantiomer-selective amidase from a Rhodococcus strain: structural evidence for a conserved genetic coupling with nitrile hydratase. J Bacteriol 173: 6694–6704.
McFall SM Abraham B Narsolis CG Chakrabarty AM (1997a) A tricarboxylic acid cycle intermediate regulating transcription of a chloroaromatic biodegradative pathway: fumarate-mediated repression of the clcABD operon. J Bacteriol 179: 6729–6735.
McFall SM Klem TJ Fujita N Ishihama A Chakrabarty AM (1997b) DNase I footprinting, DNA bending and in vitro transcription analyses of ClcR and CatR interactions with the clcABD promoter: evidence of a conserved transcriptional activation mechanism. Mol Microbiol 24: 965–976.
McFall SM Parsek MR Chakrabarty AM (1997c) 2-chloromuconate and ClcR-mediated activation of the clcABD operon: in vitro transcriptional and DNase I footprint analyses. J Bacteriol 179: 3655–3663.
McFall SM Chugani SA Chakrabarty AM (1998) Transcriptional activation of the catechol and chlorocatechol operons: variations on a theme. Gene 223: 257–267.
Miyauchi K Suh SK Nagata Y Takagi M (1998) Cloning and sequencing of a 2,5-dichlorohydroquinone reductive dehalogenase gene whose product is involved in degradation of gamma-hexachlorocyclohexane by Sphingomonas paucimobilis . J Bacteriol 180: 1354–1359.
Muller D Schlomann M Reineke W (1996) Maleylacetate reductases in chloroaromatic-degrading bacteria using the modified ortho pathway: comparison of catalytic properties. J Bacteriol 178: 298–300.
Neidle EL Hartnett C Ornston LN Bairoch A Rekik M Harayama S (1991) Nucleotide sequences of the Acinetobacter calcoaceticus benABC genes for benzoate 1,2-dioxygenase reveal evolutionary relationships among multicomponent oxygenases. J Bacteriol 173: 5385–5395.
Nordlund I Shingler V (1990) Nucleotide sequences of the meta-cleavage pathway enzymes 2-hydroxymuconic semialdehyde dehydrogenase and 2-hydroxymuconic semialdehyde hydrolase from Pseudomonas CF600. Biochim Biophys Acta 1049: 227–230.
Nurk A Kasak L Kivisaar M (1991) Sequence of the gene (pheA) encoding phenol monooxygenase from Pseudomonas sp. EST1001: expression in Escherichia coli and Pseudomonas putida. Gene 102: 13–18.
Ogawa N Miyashita K (1999) The chlorocatechol-catabolic transposon Tn5707 of Alcaligenes eutrophus NH9, carrying a gene cluster highly homologous to that in the 1,2,4-trichlorobenzene-degrading bacterium Pseudomonas sp. strain P51, confers the ability to grow on 3-chlorobenzoate. Appl Environ Microbiol 65: 724–731.
Ogawa N McFall SM Klem TJ Miyashita K Chakrabarty AM (1999) Transcriptional activation of the chlorocatechol degradative genes of Ralstonia eutropha NH9. J Bacteriol 181: 6697–6705.
Olivera ER Reglero A Martinez-Blanco H Fernandez-Medarde A Moreno MA Luengo JM (1994) Catabolism of aromatics in Pseudomonas putida U. Formal evidence that phenylacetic acid and 4-hydroxyphenylacetic acid are catabolized by two unrelated pathways. Eur J Biochem 221: 375–381.
Olivera ER Minambres B Garcia B et al. (1998) Molecular characterization of the phenylacetic acid catabolic pathway in Pseudomonas putida U: the phenylacetyl-CoA catabolon. Proc Natl Acad Sci USA 95: 6419–6424.
Olivera ER Carnicero D Garcia B et al. (2001) Two different pathways are involved in the beta-oxidation of n-alkanoic and n-phenylalkanoic acids in Pseudomonas putida U: genetic studies and biotechnological applications. Mol Microbiol 39: 863–874.
Onishi A Liotta LJ Benkovic SJ (1991) Cloning and expression of Chromobacterium violaceum phenylalanine hydroxylase in Escherichia coli and comparison of amino acid sequence with mammalian aromatic amino acid hydroxylases. J Biol Chem 266: 18454–18459.
Overhage J Priefert H Steinbuchel A (1999) Biochemical and genetic analyses of ferulic acid catabolism in Pseudomonas sp. strain HR199. Appl Environ Microbiol 65: 4837–4847.
Parales RE Harwood CS (1992) Characterization of the genes encoding beta-ketoadipate: succinyl-coenzyme A transferase in Pseudomonas putida. J Bacteriol 174: 4657–4666.
Park SH Kim JW Yun SH Leem SH Kahng HY Kim SI (2006) Characterization of beta-ketoadipate pathway from multi-drug resistance bacterium, Acinetobacter baumannii DU202 by proteomic approach. J Microbiol 44: 632–640.
Parke D (1996) Characterization of PcaQ, a LysR-type transcriptional activator required for catabolism of phenolic compounds, from Agrobacterium tumefaciens . J Bacteriol 178: 266–272.
Pemberton JM Corney B Don RH (1979) Evolution and spread of pesticide degrading ability among soil micro-organisms. Plasmids of Medical, Environmental and Comercial Importance ( Timmis KN Pühler A , eds), pp. 287–299. Elsevier/North Holland Biomedical Press, Amsterdam.
Peng X Egashira T Hanashiro K et al. (1998) Cloning of a Sphingomonas paucimobilis SYK-6 gene encoding a novel oxygenase that cleaves lignin-related biphenyl and characterization of the enzyme. Appl Environ Microbiol 64: 2520–2527.
Pieper DH Reineke W (2004) Degradation of Chloroaromatics by Pseudomona(d)s. Kluwer Academic/Plenum Publishers, New York.
Pieper DH Stadler-Fritzsche K Knackmuss H Timmis KN (1995) Formation of dimethylmuconolactones from dimethylphenols by Alcaligenes eutrophus JMP134. Appl Environ Microbiol 61: 2159–2165.
Pikus JD Studts JM Achim C et al. (1996) Recombinant toluene-4-monooxygenase: catalytic and Mossbauer studies of the purified diiron and Rieske components of a four-protein complex. Biochemistry 35: 9106–9119.
Poh CL Bayly RC (1980) Evidence for isofunctional enzymes used in m-cresol and 2,5-xylenol degradation via the gentisate pathway in Pseudomonas alcaligenes . J Bacteriol 143: 59–69.
Polissi A Harayama S (1993) In vivo reactivation of catechol 2,3-dioxygenase mediated by a chloroplast-type ferredoxin: a bacterial strategy to expand the substrate specificity of aromatic degradative pathways. EMBO J 12: 3339–3347.
Powlowski J Sahlman L Shingler V (1993) Purification and properties of the physically associated meta-cleavage pathway enzymes 4-hydroxy-2-ketovalerate aldolase and aldehyde dehydrogenase (acylating) from Pseudomonas sp. strain CF600. J Bacteriol 175: 377–385.
Priefert H Rabenhorst J Steinbuchel A (1997) Molecular characterization of genes of Pseudomonas sp. strain HR199 involved in bioconversion of vanillin to protocatechuate. J Bacteriol 179: 2595–2607.
Ramsay JR McEntee ID Hammond PM (1992) Production and purification of salicylate monooxygenase from Pseudomonas cepacia ATCC 29351. Bioseparation 2: 375–383.
Ravatn R Studer S Springael D Zehnder AJ Van Der Meer JR (1998) Chromosomal integration, tandem amplification, and deamplification in Pseudomonas putida F1 of a 105-kilobase genetic element containing the chlorocatechol degradative genes from Pseudomonas sp. strain B13. J Bacteriol 180: 4360–4369.
Schenzle A Lenke H Fischer P Williams PA Knackmuss HJ (1997) Catabolism of 3-nitrophenol by Ralstonia eutropha JMP 134. Appl Environ Microbiol 63: 1421–1427.
Schenzle A Lenke H Spain JC Knackmuss HJ (1999a) 3-hydroxylaminophenol mutase from Ralstonia eutropha JMP134 catalyzes a Bamberger rearrangement. J Bacteriol 181: 1444–1450.
Schenzle A Lenke H Spain JC Knackmuss HJ (1999b) Chemoselective nitro group reduction and reductive dechlorination initiate degradation of 2-chloro-5-nitrophenol by Ralstonia eutropha JMP134. Appl Environ Microbiol 65: 2317–2323.
Schlomann M Fischer P Schmidt E Knackmuss HJ (1990a) Enzymatic formation, stability, and spontaneous reactions of 4-fluoromuconolactone, a metabolite of the bacterial degradation of 4-fluorobenzoate. J Bacteriol 172: 5119–5129.
Schlomann M Schmidt E Knackmuss HJ (1990b) Different types of dienelactone hydrolase in 4-fluorobenzoate-utilizing bacteria. J Bacteriol 172: 5112–5118.
Schwartz E Henne A Cramm R Eitinger T Friedrich B Gottschalk G (2003) Complete nucleotide sequence of pHG1: a Ralstonia eutropha H16 megaplasmid encoding key enzymes of H(2)-based lithoautotrophy and anaerobiosis. J Mol Biol 332: 369–383.
Segura A Bunz PV D'Argenio DA Ornston LN (1999) Genetic analysis of a chromosomal region containing vanA and vanB, genes required for conversion of either ferulate or vanillate to protocatechuate in Acinetobacter . J Bacteriol 181: 3494–3504.
Seibold B Matthes M Eppink MH Lingens F Van Berkel WJ Muller R (1996) 4-Hydroxybenzoate hydroxylase from Pseudomonas sp. CBS3. Purification, characterization, gene cloning, sequence analysis and assignment of structural features determining the coenzyme specificity. Eur J Biochem 239: 469–478.
Shingler V Moore T (1994) Sensing of aromatic compounds by the DmpR transcriptional activator of phenol-catabolizing Pseudomonas sp. strain CF600. J Bacteriol 176: 1555–1560.
Shingler V Powlowski J Marklund U (1992) Nucleotide sequence and functional analysis of the complete phenol/3,4-dimethylphenol catabolic pathway of Pseudomonas sp. strain CF600. J Bacteriol 174: 711–724.
Shingler V Bartilson M Moore T (1993) Cloning and nucleotide sequence of the gene encoding the positive regulator (DmpR) of the phenol catabolic pathway encoded by pVI150 and identification of DmpR as a member of the NtrC family of transcriptional activators. J Bacteriol 175: 1596–1604.
Shuman B Dix TA (1993) Cloning, nucleotide sequence, and expression of a p-hydroxybenzoate hydroxylase isozyme gene from Pseudomonas fluorescens . J Biol Chem 268: 17057–17062.
Spence EL Kawamukai M Sanvoisin J Braven H Bugg TD (1996) Catechol dioxygenases from Escherichia coli (MhpB) and Alcaligenes eutrophus (MpcI): sequence analysis and biochemical properties of a third family of extradiol dioxygenases. J Bacteriol 178: 5249–5256.
Vaillancourt FH Bolin JT Eltis LD (2004) Ring-cleavage dioxygenases. Pseudomonas, Vol. 3 ( Ramos JL , ed), pp. 359–395. Kluwer Academic/Plenum Publishers, New York.
Van Berkel W Westphal A Eschrich K Eppink M De Kok A (1992) Substitution of Arg214 at the substrate-binding site of p-hydroxybenzoate hydroxylase from Pseudomonas fluorescens . Eur J Biochem 210: 411–419.
Van Berkel WJ Van Den Tweel WJ (1991) Purification and characterisation of 3-hydroxyphenylacetate 6-hydroxylase: a novel FAD-dependent monooxygenase from a Flavobacterium species. Eur J Biochem 201: 585–592.
Van Der Meer JR Eggen RI Zehnder AJ De Vos WM (1991) Sequence analysis of the Pseudomonas sp. strain P51 tcb gene cluster, which encodes metabolism of chlorinated catechols: evidence for specialization of catechol 1,2-dioxygenases for chlorinated substrates. J Bacteriol 173: 2425–2434.
Velasco A Alonso S Garcia JL Perera J Diaz E (1998) Genetic and functional analysis of the styrene catabolic cluster of Pseudomonas sp. strain Y2. J Bacteriol 180: 1063–1071.
Vollmer MD Schlomann M (1995) Conversion of 2-chloro-cis,cis-muconate and its metabolites 2-chloromuconolactone and 5-chloromuconolactone by chloromuconate cycloisomerases of pJP4 and pAC27. J Bacteriol 177: 2938–2941.
Vollmer MD Fischer P Knackmuss HJ Schlomann M (1994) Inability of muconate cycloisomerases to cause dehalogenation during conversion of 2-chloro-cis,cis-muconate. J Bacteriol 176: 4366–4375.
Wang LH Hamzah RY Yu YM Tu SC (1987) Pseudomonas cepacia 3-hydroxybenzoate 6-hydroxylase: induction, purification, and characterization. Biochemistry 26: 1099–1104.
Zaborina O Latus M Eberspacher J Golovleva LA Lingens F (1995) Purification and characterization of 6-chlorohydroxyquinol-1,2-dioxygenase from Streptomyces rochei 303: comparison with an analogous enzyme from Azotobacter sp. strain GP1. J Bacteriol 177: 229–234.
Zhou NY Al-Dulayymi J Baird MS Williams PA (2002) Salicylate-5-hydroxylase from Ralstonia sp. strain U2: a monooxygenase with close relationships to and shared electron transport proteins with naphthalene dioxygenase. J Bacteriol 184: 1547–1555.