Identification of new enzymes potentially involved in anaerobic naphthalene degradation by the sulfate-reducing enrichment culture N47

Archives of Microbiology

Volumn 193, Issue 4, 2011, Pages 241-250

  Bergmann, Franz D ^a   Selesi, Draženka ^a   Meckenstock, Rainer U ^a  

^a INSTITUTE OF EPIDEMIOLOGY   (Germany)

Author keywords

Anaerobic naphthalene degradation; Carboxylation

Indexed keywords

2 METHYLNAPHTHALENE; 2 NAPHTHOIC ACID; 4 HYDROXYBENZOATE DECARBOXYLASE; ADENOSINE TRIPHOSPHATE; BENZENE CARBOXYLASE; CARBOXYLASE; CARBOXYLYASE; LIGASE; NAPHTHALENE; NAPHTHALENE CARBOXYLASE; NAPHTHOATE COENZYME A LIGASE; OXIDOREDUCTASE; PHENOL DERIVATIVE; PHENYLPHOSPHATE CARBOXYLASE; UNCLASSIFIED DRUG;

ALPHA CHAIN; AROMATOLEUM AROMATICUM; ARTICLE; BACTERIAL GENOME; BETA CHAIN; CONTROLLED STUDY; DEGRADATION; ENRICHMENT CULTURE; ENZYME ANALYSIS; ENZYME SUBUNIT; GAMMA TURN; GENE EXPRESSION; GENE IDENTIFICATION; GENE LOCATION; GENOMICS; NONHUMAN; OPEN READING FRAME; PRIORITY JOURNAL; PROTEIN LOCALIZATION; PROTEOBACTERIA; SULFATE REDUCING BACTERIUM; UPREGULATION;

ANAEROBIOSIS; CARBOXY-LYASES; DELTAPROTEOBACTERIA; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; ELECTROPHORESIS, POLYACRYLAMIDE GEL; GENOME, BACTERIAL; NAPHTHALENES; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; PROTEOME; RNA, RIBOSOMAL, 16S; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION;

EID: 79954419615     PISSN: 03028933     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00203-010-0667-4     Document Type: Article

References (30)

1. N Abu Laban D Selesi T Rattei P Tischler RU Meckenstock 2010 Identification of enzymes involved in anaerobic benzene degradation by a strictly anaerobic iron-reducing enrichment culture Environ Microbiol 12 2783 2796 20545743 1:CAS:528:DC%2BC3cXhsVansbjM
2. SF Altschul, et al. 1997 Gapped BLAST and PSI-BLAST: a new generation of protein database search programs Nucleic Acids Res 25 3389 3402 9254694 10.1093/nar/25.17.3389 1:CAS:528:DyaK2sXlvFyhu7w%3D (Pubitemid 27359211)
3. E Annweiler, et al. 2000 Anaerobic degradation of 2-methylnaphthalene by a sulfate-reducing enrichment culture Appl Environ Microb 66 5329 5333 10.1128/AEM.66.12.5329-5333.2000 1:CAS:528:DC%2BD3MXjsVyhu7Y%3D (Pubitemid 32217138)
4. Bergmann FD, Selesi D, Weinmaier T, Tischler P, Rattei T, Meckenstock RU (2010) Genomic insights into the metabolic potential of the polycyclic aromatic hydrocarbon degrading sulphate-reducing Deltaproteobacterium N47. Environ Microbiol
5. M Boll G Fuchs J Heider 2002 Anaerobic oxidation of aromatic compounds and hydrocarbons Curr Opin Chem Biol 6 604 611 12413544 10.1016/S1367-5931(02) 00375-7 1:CAS:528:DC%2BD38Xot1agsb0%3D (Pubitemid 35284191)
6. JD Cline 1969 Spectrophotometric determination of hydrogen sulfide in natural waters Limnol Oceanogr 14 454 458 10.4319/lo.1969.14.3.0454 1:CAS:528:DyaF1MXksFegu70%3D
7. A Galushko D Minz B Schink F Widdel 1999 Anaerobic degradation of naphthalene by a pure culture of a novel type of marine sulphate-reducing bacterium Environ Microbiol 1 415 420 11207761 10.1046/j.1462-2920.1999.00051.x 1:CAS:528:DyaK1MXntlCkur4%3D
8. J Gibson M Dispensa GC Fogg DT Evans CS Harwood 1994 4-Hydroxybenzoate- coenzyme A ligase from Rhodopseudomonas palustris: purification, gene sequence, and role in anaerobic degradation J Bacteriol 176 634 641 8300518 1:CAS:528:DyaK2cXitFWntrw%3D (Pubitemid 24043951)
9. H Habe T Omori 2003 Genetics of polycyclic aromatic hydrocarbon metabolism in diverse aerobic bacteria Biosci Biotech Bioch 67 225 243 10.1271/bbb.67.225 1:CAS:528:DC%2BD3sXhvFems7g%3D (Pubitemid 39251972)
10. Z He J Wiegel 1995 Purification and characterization of an oxygen-sensitive reversible 4-hydroxybenzoate decarboxylase from Clostridium hydroxybenzoicum Eur J Biochem 229 77 82 7744052 10.1111/j.1432-1033.1995. tb20440.x 1:CAS:528:DyaK2MXltFSguro%3D
11. A Keller AI Nesvizhskii E Kolker R Aebersold 2002 Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search Anal Chem 74 5383 5392 12403597 10.1021/ac025747h 1:CAS:528:DC%2BD38XmvVyktL4%3D (Pubitemid 35215372)
12. B Leuthner, et al. 1998 Biochemical and genetic characterization of benzylsuccinate synthase from Thauera aromatica: a new glycyl radical enzyme catalysing the first step in anaerobic toluene metabolism Mol Microbiol 28 615 628 9632263 10.1046/j.1365-2958.1998.00826.x 1:CAS:528:DyaK1cXjtF2mtrk%3D (Pubitemid 28218405)
13. T Lueders R Kindler A Miltner MW Friedrich M Kaestner 2006 Identification of bacterial micropredators distinctively active in a soil microbial food web Appl Environ Microb 72 5342 5348 10.1128/AEM.00400-06 1:CAS:528: DC%2BD28XosVKls7Y%3D
14. RU Meckenstock E Annweiler W Michaelis HH Richnow B Schink 2000 Anaerobic naphthalene degradation by a sulfate-reducing enrichment culture Appl Environ Microb 66 2743 2747 10.1128/AEM.66.7.2743-2747.2000 1:CAS:528: DC%2BD3cXkslKls7g%3D (Pubitemid 30497576)
15. F Musat, et al. 2009 Anaerobic degradation of naphthalene and 2-methylnaphthalene by strains of marine sulfate-reducing bacteria Environ Microbiol 11 209 219 18811643 10.1111/j.1462-2920.2008.01756.x 1:CAS:528:DC%2BD1MXjt1equ7w%3D
16. G Muyzer A Teske C Wirsen H Jannasch 1995 Phylogenetic relationships of Thiomicrospira species and their identification in deep-sea hydrothermal vent samples by denaturing gradient gel electrophoresis of 16S rDNA fragments Arch Microbiol 164 165 172 7545384 10.1007/BF02529967 1:CAS:528:DyaK2MXovFyjsrk%3D
17. AI Nesvizhskii A Keller E Kolker R Aebersold 2003 A statistical model for identifying proteins by tandem mass spectrometry Anal Chem 75 4646 4658 14632076 10.1021/ac0341261 1:CAS:528:DC%2BD3sXltlynt70%3D (Pubitemid 37082259)
18. R Rabus, et al. 2005 The genome sequence of an anaerobic aromatic-degrading denitrifying bacterium, strain EbN1 Arch Microbiol 183 27 36 15551059 10.1007/s00203-004-0742-9 1:CAS:528:DC%2BD2MXhtVemsg%3D%3D (Pubitemid 40142879)
19. J Rappsilber S Siniossoglou EC Hurt M Mann 2000 A generic strategy to analyze the spatial organization of multi-protein complexes by cross-linking and mass spectrometry Anal Chem 72 267 275 10658319 10.1021/ac991081o 1:CAS:528:DyaK1MXnslensrY%3D (Pubitemid 30051882)
20. KJ Rockne JC Chee-Sanford RA Sanford BP Hedlund JT Staley SE Strand 2000 Anaerobic naphthalene degradation by microbial pure cultures under nitrate-reducing conditions Appl Environ Microb 66 1595 1601 10.1128/AEM.66.4.1595-1601.2000 1:CAS:528:DC%2BD3cXisVWmtb8%3D (Pubitemid 30185637)
21. M Safinowski RU Meckenstock 2004 Enzymatic reactions in anaerobic 2-methylnaphthalene degradation by the sulphate-reducing enrichment culture N47 FEMS Microbiol Lett 240 99 104 15500985 10.1016/j.femsle.2004.09.014 1:CAS:528:DC%2BD2cXovV2isL8%3D (Pubitemid 39421796)
22. M Safinowski RU Meckenstock 2006 Methylation is the initial reaction in anaerobic naphthalene degradation by a sulfate-reducing enrichment culture Environ Microbiol 8 347 352 16423020 10.1111/j.1462-2920.2005.00900.x 1:CAS:528:DC%2BD28XisFWrs7w%3D
23. K Schuhle G Fuchs 2004 Phenylphosphate carboxylase: a new C-C lyase involved in anaerobic in phenol metabolism in Thauera aromatica J Bacteriol 186 4556 4567 15231788 10.1128/JB.186.14.4556-4567.2004 (Pubitemid 38891019)
24. D Selesi, et al. 2010 Combined genomic and proteomic approaches identify gene clusters involved in anaerobic 2-methylnaphthalene degradation in the sulfate-reducing enrichment culture N47 J Bacteriol 192 295 306 19854898 10.1128/JB.00874-09 1:CAS:528:DC%2BC3cXisVKhu7g%3D
25. L Ting MJ Cowley SL Hoon M Guilhaus MJ Raftery R Cavicchioli 2009 Normalization and statistical analysis of quantitative proteomics data generated by metabolic labeling Mol Cell Proteomics 8 2227 2242 19605365 10.1074/mcp.M800462-MCP200 1:CAS:528:DC%2BD1MXht12qs77F
26. MC Walter, et al. 2009 PEDANT covers all complete RefSeq genomes Nucleic Acids Res 37 D408 D411 18940859 10.1093/nar/gkn749 1:CAS:528:DC%2BD1cXhsFejtLjF
27. WG Weisburg SM Barns DA Pelletier DJ Lane 1991 16S ribosomal DNA amplification for phylogenetic study J Bacteriol 173 697 703 1987160 1:CAS:528:DyaK3MXhsl2lurY%3D
28. LF Wu DK Han 2006 Overcoming the dynamic range problem in mass spectrometry-based shotgun proteomics Expert Rev Proteomic 3 611 619 10.1586/14789450.3.6.611 1:CAS:528:DC%2BD2sXhvFGqtrg%3D (Pubitemid 46023440)
29. BD Zehr TJ Savin RE Hall 1989 A one-step, low background Coomassie staining procedure for polyacrylamide gels Anal Biochem 182 157 159 2481413 10.1016/0003-2697(89)90734-3 1:CAS:528:DyaL1MXlsV2ru7o%3D (Pubitemid 19251292)
30. XM Zhang LY Young 1997 Carboxylation as an initial reaction in the anaerobic metabolism of naphthalene and phenanthrene by sulfidogenic consortia Appl Environ Microb 63 4759 4764 1:CAS:528:DyaK2sXnvV2rt78%3D (Pubitemid 27524208)