Pseudomonas fluorescens ompW: Plasmid localization and requirement for naphthalene uptake

Canadian Journal of Microbiology

Volumn 55, Issue 5, 2009, Pages 553-563

  Neher, Tracy M ^a,b   Lueking, Donald R ^a  

^a MICHIGAN TECHNOLOGICAL UNIVERSITY   (United States)

^b INDIANA UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

Naphthalene; ompW; Polycyclic aromatic hydrocarbons; Pseudomonas fluorescens

Indexed keywords

CATABOLIC PLASMIDS; CDNA LIBRARIES; CELLULAR MECHANISMS; CELLULAR UPTAKE; HYDROPHOBIC MOLECULES; OMPW; PRIMARY RESPONSE; PSEUDOMONAS FLUORESCENS; SUPPRESSIVE SUBTRACTIVE HYBRIDIZATIONS;

AROMATIC HYDROCARBONS; GENES; ORGANIC COMPOUNDS; POLYCYCLIC AROMATIC HYDROCARBONS;

NAPHTHALENE;

COMPLEMENTARY DNA; NAPHTHALENE; POLYCYCLIC AROMATIC HYDROCARBON; PORIN;

BACTERIUM; CATABOLISM; CYTOLOGY; HYBRIDIZATION; HYDROPHOBICITY; MUTATION; NAPHTHALENE; PAH; PLASMID;

ARTICLE; BACTERIAL CELL; BACTERIAL STRAIN; DNA LIBRARY; DRUG MECHANISM; GENE EXPRESSION; GENE ISOLATION; GENE LOCATION; GENE MUTATION; GENE SEQUENCE; MOLECULAR CLONING; NONHUMAN; PLASMID; PRIORITY JOURNAL; PROTEIN DEGRADATION; PROTEIN TRANSPORT; PSEUDOMONAS FLUORESCENS; SUBTRACTIVE HYBRIDIZATION;

AMINO ACID SEQUENCE; BACTERIAL OUTER MEMBRANE PROTEINS; BASE SEQUENCE; CLONING, MOLECULAR; GENE KNOCKOUT TECHNIQUES; GENE LIBRARY; GENES, BACTERIAL; MOLECULAR SEQUENCE DATA; NAPHTHALENES; NUCLEIC ACID HYBRIDIZATION; PLASMIDS; PSEUDOMONAS FLUORESCENS; SEQUENCE ANALYSIS, DNA;

PSEUDOMONAS FLUORESCENS;

EID: 66849095777     PISSN: 00084166     EISSN: None     Source Type: Journal    
DOI: 10.1139/W09-002     Document Type: Article

References (29)

1. Albrecht, R., Zeth, K., Söding, J., Lupas, A., and Linke, D. 2006. Expression, crystallization, and preliminary X-ray crystallographic studies of the outer membrane protein OmpW from Escherichia coli. Acta Crystallogr. Sect. F: Struct. Biol. Cryst. Commun. 62: 415-418. doi:10.1107/S1744309106010190. PMID:16582500.
2. Ausubel, F.M., Brent, R., Kingston, R.E., Moore, D.D., Seidman, J.G., Smith, J.A., and Strul, K. (Editors). 1989. Current protocols in molecular biology. John Wiley & Sons, Inc., New York. pp. 1.8.4-1.8.5.
3. Barnsley, E.A. 1975a. The induction of the enzymes on naphthalene metabolism in pseudomonads by salicylate and 2-aminobenzoate. J. Gen. Microbiol. 88: 193-196. PMID:1151334.
4. Barnsley, E.A. 1975b. The degradation of fluoranthene and benzo[ a]pyrene. Can. J. Microbiol. 21: 1004-1008. doi:10.1139/m75-148. PMID:1148939.
5. Barnsley, E.A. 1976. Role and regulation of the ortho and meta pathways of catechol metabolism in pseudomonads metabolizing naphthalene and salicylate. J. Bacteriol. 125: 404-408. PMID: 1245462.
6. Bateman, J.N., Speer, B., Feduik, L., and Hartline, R.A. 1986. Naphthalene association and uptake in Pseudomonas putida. J. Bacteriol. 166: 155-161. PMID:3957866.
7. Boonchan, S., Britz, M., and Stanley, G. 2000. Degradation and mineralization of high-molecular-weight polycyclic aromatic hydrocarbons by defined fungal-bacterial cocultures. Appl. Environ. Microbiol. 66: 1007-1019. doi:10.1128/AEM.66.3.1007-1019.2000. PMID:10698765.
8. Button, D.K., Robertson, B., Gustafson, E., and Zhao, X. 2004. Experimental and theoretical bases of specific affinity, a cytoarchitecture- based formulation of nutrient collection proposed to supersede the Michaelis-Menten paradigm of microbial kinetics. Appl. Environ. Microbiol. 70: 5511-5521. doi:10.1128/AEM.70.9.5511-5521.2004. PMID:15345439.
9. Chaudhry, G. 1994. Biological degradation and bioremediation of toxic chemicals. Dioscorides Press, Portland, Oregon. pp. 92-100.
10. Diatchenko, L., Lau, Y.F., Campbell, A.P., Chenchik, A., Moqadam, F., Huang, B., et al. 1996. Suppression subtractive hybridization: a method for generating differentially regulated or tissue-specific cDNA probes and libraries. Proc. Natl. Acad. Sci. U.S.A. 93: 6025-6030. doi:10.1073/pnas.93.12. 6025. PMID:8650213.
11. Eaton, R.W., and Chapman, P. 1992. Bacterial metabolism of naphthalene: construction and use of recombinant bacteria to study ring cleavage of 1,2-dihydroxynaphthalene and subsequent reactions. J. Bacteriol. 174: 7542-7554. PMID:1447127.
12. Hardy, K. 1986. Bacterial plasmids. 2nd ed. Aspects of Microbiology Series. Vol.4. American Society for Microbiology, Washington, D.C.
13. Hong, H., Patel, D.R., Tamm, L.K., and van den Berg, B. 2006. The outer membrane protein OmpW forms an eight-stranded bbarrel with a hydrophobic channel. J. Biol. Chem. 281: 7568-7577. doi:10.1074/jbc.M512365200. PMID:16414958.
14. Hu, W.S., Li, P.C., and Cheng, C.Y. 2005. Correlation between ceftriaxone resistance of Salmonella enterica serovar Typhimurium and expression of outer membrane proteins OmpW and Ali/OmpX-like protein, which are regulated by BaeR of a two-component system. Antimicrob. Agents Chemother. 49: 3955-3958. doi:10.1128/AAC.49.9.3955-3958.2005. PMID:16127081.
15. Johnsen, A.R., Wick, L.Y., and Harms, H. 2005. Principles of microbial PAH-degradation in soil. Environ. Pollut. 133: 71-84. doi:10.1016/j.envpol.2004. 04.015. PMID:15327858.
16. Kanaly, R.A., and Harayama, S. 2000. Biodegradation of highmolecular weight polycyclic aromatic hydrocarbons by bacteria. J. Bacteriol. 182: 2059-2067. doi:10.1128/JB.182.8.2059-2067.2000. PMID:10735846. (Pubitemid 30183522)
17. Karthikeyan, R., and Bhandari, A. 2001. Anaerobic biotransformation of aromatic and polycyclic aromatic hydrocarbons in soil microcosms: a review. J. Hazard. Subst. Res. 3: 1-19.
18. Li, W., Shi, J., Wang, X., Han, Y., Tong, W., Ma, L., et al. 2004. Complete nucleotide sequence and organization of the naphthalene catabolic plasmid pND6-1 from Pseudomonas sp. strain ND6. Gene, 336: 231-240. doi:10.1016/j.gene.2004.03.027. PMID:15246534.
19. McNally, D., Mihelcic, J., and Lueking, D. 1998. Degradation of three and four ring polycyclic aromatic hydrocarbons under aerobic and denitrifying conditions. Environ. Sci. Technol. 32: 2633-2639. doi:10.1021/es980006c.
20. Miyata, N., Iwahori, K., Foght, J.M., and Gray, MR. 2004. Saturable, energy-dependent uptake of phenanthrene in aqueous phase by Mycobacterium sp. strain RJGII-135. Appl. Environ. Microbiol. 70: 363-369. doi:10.1128/AEM.70.1. 363-369.2004. PMID: 14711664.
21. Nandi, B., Nandy, R., Sarkar, A., and Ghose, A. 2005. Structural features, properties and regulation of the outer-membrane protein W (OmpW) of Vibrio cholerae. Microbiology, 151: 2975-2986. doi:10.1099/mic.0.27995-0. PMID:16151208. (Pubitemid 41309568)
22. Nikaido, H. 2003. Molecular basis of bacterial outer membrane permeability revisited. Microbiol. Mol. Biol. Rev. 67: 593-656. doi:10.1128/MMBR.67.4.593-656.2003. PMID:14665678.
23. Nikaido, H., and Vaara, M. 1985. Molecular basis of bacterial outer membrane permeability. Microbiol. Rev. 49: 1-32. PMID: 2580220.
24. Peterson, G.L. 1977. A simplification of the protein assay method of Lowry et al. which is more generally applicable. Anal. Biochem. 83: 346-356. doi:10.1016/0003-2697(77)90043-4. PMID: 603028.
25. Pilsl, H., S'Majs, D., and Braun, V. 1999. Characterization of colicin s4 and its receptor, OmpW, a minor protein of the Escherichia coli outer membrane. J. Bacteriol. 181: 3578-3581. PMID: 10348872.
26. Tropel, D., and van der Meer, J.R. 2004. Bacterial transcriptional regulators for degradation pathways of aromatic compounds. Microbiol. Mol. Biol. Rev. 68: 474-500. doi:10.1128/MMBR. 68.3.474-500.2004. PMID:15353566.
27. van Hamme, J.D., Singh, A., and Ward, O.P. 2003. Recent advances in petroleum microbiology. Microbiol. Mol. Biol. Rev. 67: 503-549. doi:10.1128/MMBR.67.4.503-549.2003. PMID: 14665675.
28. Whitman, B.E., Lueking, D.R., and Mihelcic, J.R. 1998. Naphthalene uptake by a Pseudomonas fluorescens isolate. Can. J. Microbiol. 44: 1086-1093. doi:10.1139/cjm-44-11-1086. PMID: 10030003.
29. Yen, K.M., and Serdar, C.M. 1988. Genetics of naphthalene catabolism in pseudomonads. Crit. Rev. Microbiol. 15: 247-268. PMID:3288442.