Comparative analysis of the complete genome of an Acinetobacter calcoaceticus strain adapted to a phenol-polluted environment

Research in Microbiology

Volumn 163, Issue 1, 2012, Pages 36-43

  Zhan, Yuhua ^a   Yan, Yongliang ^a   Zhang, Wei ^a   Chen, Ming ^a   Lu, Wei ^a   Ping, Shuzhen ^a   Lin, Min ^a  

^a AGRO ENVIRONMENTAL PROTECTION INSTITUTE   (China)

Author keywords

Acinetobacter calcoaceticus; Comparative genomics; Phenol degradation

Indexed keywords

PHENOL;

ACINETOBACTER; ACINETOBACTER BAUMANNII; ACINETOBACTER BAYLYI; ACINETOBACTER CALCOACETICUS; ANTIBIOTIC SENSITIVITY; ARTICLE; BACTERIAL COLONIZATION; BACTERIAL GENOME; BACTERIAL VIRULENCE; BACTERIUM ISOLATION; CHINA; EVOLUTIONARY ADAPTATION; GENE SEQUENCE; GENE TRANSFER; MULTIDRUG RESISTANCE; NONHUMAN; OIL INDUSTRY; PHYLOGENY; PRIORITY JOURNAL; WASTE WATER; WATER POLLUTION;

ACINETOBACTER; ACINETOBACTER BAUMANNII; ACINETOBACTER CALCOACETICUS; BACTERIAL PROTEINS; GENOME, BACTERIAL; MOLECULAR SEQUENCE DATA; PHENOL; PHYLOGENY; SEWAGE; WATER POLLUTANTS, CHEMICAL;

ACINETOBACTER; ACINETOBACTER BAUMANNII; ACINETOBACTER BAYLYI; ACINETOBACTER CALCOACETICUS; BACTERIA (MICROORGANISMS);

EID: 84855957663     PISSN: 09232508     EISSN: 17697123     Source Type: Journal    
DOI: 10.1016/j.resmic.2011.10.006     Document Type: Article

References (34)

1. Adams M.D., Goglin K., Molyneaux N., Hujer K.M., Lavender H., Jamison J.J., MacDonald I.J., Martin K.M., Russo T., Campagnari A.A., Hujer A.M., Bonomo R.A., Gill S.R. Comparative genome sequence analysis of multidrug-resistant Acinetobacter baumannii. J. Bacteriol. 2008, 190:8053-8064.
2. Barbe V., Vallenet D., Fonknechten N., Kreimeyer A., Oztas S., Labarre L., Cruveiller S., Robert C., Duprat S., Wincker P., Ornston L.N., Weissenbach J., Marliere P., Cohen G.N., Medigue C. Unique features revealed by the genome sequence of Acinetobacter sp. ADP1, a versatile and naturally transformation competent bacterium. Nucleic Acids Res. 2004, 32:5766-5779.
3. Bleichrodt F.S., Fischer R., Gerischer U.C. The ß-ketoadipate pathway of Acinetobacter baylyi undergoes carbon catabolite repression, cross-regulation and vertical regulation, and is affected by Crc. Microbiology 2010, 156:1313-1322.
4. Diancourt L., Passet V., Nemec A., Dijkshoorn L., Brisse S. The population structure of Acinetobacter baumannii: expanding multiresistant clones from an ancestral susceptible genetic pool. PLoS One 2010, 5:e10034.
5. Dolzani L., Tonin E., Lagatolla C., Prandin L., Monti-Bragadin C. Identification of Acinetobacter isolates in the A. calcoaceticus-A. baumannii complex by restriction analysis of the 16S-23S rRNA intergenic-spacer sequences. J. Clin. Microbiol. 1995, 33:1108-1113.
6. Fournier P.E., Vallenet D., Barbe V., Audic S., Ogata H., Poirel L., Richet H., Robert C., Mangenot S., Abergel C., Nordmann P., Weissenbach J., Raoult D., Claverie J.M. Comparative genomics of multidrug resistance in Acinetobacter baumannii. PLoS Genet. 2006, 2:e7.
7. Friedrich A., Hartsch T., Averhoff B. Natural transformation in mesophilic and thermophilic bacteria: identification and characterization of novel, closely related competence genes in Acinetobacter sp. strain BD413 and Thermus thermophilus HB27. Appl. Environ. Microbiol. 2001, 67:3140-3148.
8. Gerner-Smidt P., Tjernberg I., Ursing J. Reliability of phenotypic tests for identification of Acinetobacter species. J. Clin. Microbiol. 1991, 29:277-282.
9. Hu P., Brodie E.L., Suzuki Y., McAdams H.H., Andersen G.L. Whole-genome transcriptional analysis of heavy metal stresses in Caulobacter crescentus. J. Bacteriol. 2005, 187:8437-8449.
10. Juni E. Genetics and physiology of Acinetobacter. Annu. Rev. Microbiol. 1978, 32:349-371.
11. Kuchma S.L., O'Toole G.A. Surface-induced and biofilm-induced changes in gene expression. Curr. Opin. Biotechnol. 2000, 11:429-433.
12. Metzgar D., Bacher J.M., Pezo V., Reader J., Doring V., Schimmel P., Marliere P., de Crecy-Lagard V. Acinetobacter sp. ADP1: an ideal model organism for genetic analysis and genome engineering. Nucleic Acids Res. 2004, 32:5780-5790.
13. Misra T.K. Bacterial resistances to inorganic mercury salts and organomercurials. Plasmid 1992, 27:4-16.
14. Munoz-Price L.S., Weinstein R.A. Acinetobacter infection. N. Engl. J. Med. 2008, 358:1271-1281.
15. Palmen R., Vosman B., Buijsman P., Breek C.K., Hellingwerf K.J. Physiological characterization of natural transformation in Acinetobacter calcoaceticus. J. Gen. Microbiol. 1993, 139:295-305.
16. Pratt L.A., Kolter R. Genetic analysis of Escherichia coli biofilm formation: roles of flagella, motility, chemotaxis and type I pili. Mol. Microbiol. 1998, 30:285-293.
17. Rashid M.H., Rumbaugh K., Passador L., Davies D.G., Hamood A.N., Iglewski B.H., Kornberg A. Polyphosphate kinase is essential for biofilm development, quorum sensing, and virulence of Pseudomonas aeruginosa. Proc. Natl. Acad. Sci. 2000, 97:9636-9641.
18. Rojas A., Duque E., Mosqueda G., Golden G., Hurtado A., Ramos J.L., Segura A. Three efflux pumps are required to provide efficient tolerance to toluene in Pseudomonas putida DOT-T1E. J. Bacteriol. 2001, 183:3967-3973.
19. Saltikov C.W., Olson B.H. Homology of Escherichia coli R773 arsA, arsB, and arsC genes in arsenic-resistant bacteria isolated from raw sewage and arsenic-enriched creek waters. Appl. Environ. Microbiol. 2002, 68:280-288.
20. Schirmer F., Ehrt S., Hillen W. Expression, inducer spectrum, domain structure, and function of MopR, the regulator of phenol degradation in Acinetobacter calcoaceticus NCIB8250. J. Bacteriol. 1997, 179:1329-1336.
21. Smith M.G., Gianoulis T.A., Pukatzki S., Mekalanos J.J., Ornston L.N., Gerstein M., Snyder M. New insights into Acinetobacter baumannii pathogenesis revealed by high-density pyrosequencing and transposon mutagenesis. Genes Dev. 2007, 21:601-614.
22. Soledad Ramirez M., Don M., Merkier A.K., Soler Bistué A.J., Zorreguieta A., Centrón D., Tolmasky M.E. A naturally competent Acinetobacter baumannii clinical isolate as a convenient model for genetic studies. J. Clin. Microbiol. 2010, 48:1488-1490.
23. Tamura K., Dudley J., Nei M., Kumar S. MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol. Biol. Evol. 2007, 24:1596-1599.
24. Tomaras A.P., Dorsey C.W., Edelmann R.E., Actis L.A. Attachment to and biofilm formation on abiotic surfaces by Acinetobacter baumannii: involvement of a novel chaperone-usher pili assembly system. Microbiology 2003, 149:3473-3484.
25. Towner K.J. Acinetobacter: an old friend, but a new enemy. J. Hosp. Infect. 2009, 73:355-363.
26. Vallenet D., Nordmann P., Barbe V., Poirel L., Mangenot S., Bataille E., Dossat C., Gas S., Kreimeyer A., Lenoble P., Oztas S., Poulain J., Segurens B., Robert C., Abergel C., Claverie J.M., Raoult D., Medigue C., Weissenbach J., Cruveiller S. Comparative analysis of Acinetobacters: three genomes for three lifestyles. PLoS One 2008, 3:e1805.
27. van Dessel H., Dijkshoorn L., van der Reijden T., Bakker N., Paauw A., van den Broek P., Verhoef J., Brisse S. Identification of a new geographically widespread multiresistant Acinetobacter baumannii clone from European hospitals. Res. Microbiol. 2004, 155:105-112.
28. Vidal R., Dominguez M., Urrutia H., Bello H., Gonzalez G., Garcia A., Zemelman R. Biofilm formation by Acinetobacter baumannii. Microbios 1996, 86:49-58.
29. Xu Y.Q., Chen M., Zhang W., Lin M. Genetic organization of genes encoding phenol hydroxylase, benzoate 1,2-dioxygenase alpha subunit and its regulatory proteins in Acinetobacter calcoaceticus PHEA-2. Curr. Microbiol. 2003, 46:235-240.
30. Young D.M., Parke D., Ornston L.N. Opportunities for genetic investigation afforded by Acinetobacter baylyi, a nutritionally versatile bacterial species that is highly competent for natural transformation. Annu. Rev. Microbiol. 2005, 59:519-551.
31. Yu H.Y., Peng Z.X., Zhan Y.H., Wang J., Yan Y.L., Chen M., Lu W., Ping S.Z., Zhang W., Zhao Z.L., Li S.Y., Takeo M., Lin M. Novel regulator MphX represses activation of phenol hydroxylase genes caused by a XylR/DmpR-type regulator MphR in Acinetobacter calcoaceticus. PLoS One 2011, 6:e17350.
32. Zhan Y.H., Yu H.Y., Yan Y.L., Chen M., Lu W., Li S.Y., Peng Z.X., Zhang W., Ping S.Z., Wang J., Lin M. Genes involved in the benzoate catabolic pathway in Acinetobacter calcoaceticus PHEA-2. Curr. Microbiol. 2008, 57:609-614.
33. Zhan Y.H., Yu H.Y., Yan Y.L., Ping S.Z., Lu W., Zhang W., Chen M., Lin M. Benzoate catabolite repression of the phenol degradation in Acinetobacter calcoaceticus PHEA-2. Curr. Microbiol. 2009, 59:368-373.
34. Zhan Y.H., Yan Y.L., Zhang W., Yu H.Y., Chen M., Lu W., Ping S.Z., Peng Z.X., Yuan M.L., Zhou Z.F., Elmerich C., Lin M. Genome sequence of Acinetobacter calcoaceticus PHEA-2, isolated from industry wastewater. J. Bacteriol. 2011, 193:2672-2673.