Phenotypic and genetic analysis of Enterobacter spp. from a Brazilian oligotrophic freshwater lake

Canadian Journal of Microbiology

Volumn 53, Issue 8, 2007, Pages 983-991

  Pontes, Daniela Santos ^a   Lima Bittencourt, Cláudia Iracema ^a   Azevedo, Marcela Santiago Pacheco ^a   Chartone Souza, Edmar ^a   Nascimento, Andréa Maria Amaral ^a  

^a FEDERAL UNIVERSITY OF MINAS GERAIS   (Brazil)

Author keywords

Antimicrobial resistance; Enterobacter; Oligotrophic freshwater lake; PCR fingerprint; Phenotypic characterization

Indexed keywords

COMPLEXATION; DNA; GENETIC ENGINEERING; LAKES; OLIGOMERIZATION; PHYSIOLOGICAL MODELS;

ANTIMICROBIAL RESISTANCE; ENTEROBACTER; OLIGOTROPHIC FRESHWATER LAKE; PHENOTYPIC CHARACTERIZATION; POLYMERASE CHAIN REACTION (PCR);

BACTERIA;

ANTIINFECTIVE AGENT; BACTERIAL DNA; BETA LACTAM DERIVATIVE; CHLORAMPHENICOL; RIBOSOME DNA; STREPTOMYCIN;

ANTIBIOTIC RESISTANCE; BACTERIUM; GENETIC ANALYSIS; LACUSTRINE ENVIRONMENT; MORPHOLOGY; OLIGOTROPHIC ENVIRONMENT; PHENOTYPE; PHYSIOLOGY; PLASMID; POLYMERASE CHAIN REACTION; PUBLIC HEALTH;

ANIMAL CELL; ANTIBIOTIC RESISTANCE; ARTICLE; BACTERIUM IDENTIFICATION; BRAZIL; CONTROLLED STUDY; DNA FINGERPRINTING; DNA SEQUENCE; ENTEROBACTER CLOACAE; FRESHWATER ENVIRONMENT; GENETIC ANALYSIS; ISOLATION PROCEDURE; MORPHOLOGICAL TRAIT; NONHUMAN; NUCLEOTIDE SEQUENCE; PLASMID; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; TROPICS;

ANTI-BACTERIAL AGENTS; BACTERIAL TYPING TECHNIQUES; BRAZIL; ENTEROBACTER; FRESH WATER; MICROBIAL SENSITIVITY TESTS; MOLECULAR SEQUENCE DATA; PHENOTYPE; PHYLOGENY; POLYMERASE CHAIN REACTION; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA;

BRAZIL; SOUTH AMERICA;

ENTEROBACTER; ENTEROBACTER CLOACAE; ENTEROBACTER CLOACAE COMPLEX; ENTEROBACTERIACEAE;

EID: 35648972681     PISSN: 00084166     EISSN: None     Source Type: Journal    
DOI: 10.1139/W07-060     Document Type: Article

References (40)

1. Braga, L.C., Leite, A.A., Xavier, K.G., Takahashi, J.A., Bemquerer, M.P., Chartone-Souza, E., and Nascimento, A.M.A. 2005. Synergic interaction between pomegranate extract and antibiotics against Staphylococcus aureus. Can. J. Microbiol. 51: 541-547. doi:10.1139/w05-022.
2. Brenner, D.J., McWhorter, A.C., Kai, A., Steigerwalt, G., and Farmer, J.J. 1986. Enterobacter asburiae sp. nov., a new species found in clinical specimens, and reassignment of Erwinia dissolvens and Erwinia nimipressuralis to the genus Enterobacter as Enterobacter dissolvens comb, nov., and Enterobacter nimipressuralis comb. nov. J. Clin. Microbiol. 23: 1114-1120.
3. Brückner, R., and Titgemeyer, F. 2002. Carbon catabolite repression in bacteria: choice of the carbon source and autoregulatory limitation of sugar utilization. FEMS Microbiol. Lett. 209: 141-148.
4. Clementino, M.M., Filippis, I., Nascimento, C.R., Branquinho, R., Rocha, C.L., and Martins, O.B. 2001. PCR analysis of t-RNA intergenic spacer, 16S-23S internal transcribed spacer, and randomly amplified polymorphic DNA reveal inter- and intraspecific relationships of Enterobacter cloacae strains. J. Clin. Microbiol. 39: 3865-3870. doi:10.1128/JCM.39.11.3865-3870. 2001.
5. Delmas, J., Breysse, F., Devulder, G., Flandrois, J.P., and Chomarat, M. 2006. Rapid identification of Enterobacteriaceae by sequencing DNA gyrase subunit B encoding gene. Diagn. Microbiol. Infect. Dis. 55: 263-268. doi:10.1016/j.diagmicrobio.2006.02.003.
6. Denery, J.R., Cooney, M.J., and Li, Q.X. 2006. Metabolic profiling to reflect gene expression in Streptomyces tenjimariensis. Ind. Biotechnol. 2: 51-54.
7. Dolzani, L., Tonin, E., Lagatolla, C., and Monti-Bragadin, C. 1994. Typing of Staphylococcus aureus by amplification of the 16S-23S intergênica spacer sequences. FEMS Microbiol. Lett. 119: 167-174.
8. Ewing, B., and Green, P. 1998. Base-calling of automated sequencer traces using phred. II. Error probabilities. Genome Res. 8: 186-194.
9. Fernandez-Baca, V., Ballesteros, F., Hervas, J.A., Villalon, P., Dominguez, M.A., Benedi, V.J., and Alberti, S. 2001. Molecular epidemiological typing of Enterobacter cloacae isolates from a neonatal intensive care unit: three-year prospective study. J. Hosp. Infect. 49: 173-182.
10. Gordon, D., Abajian, C., and Green, P. 1998. Consed: a graphical tool for sequence finishing. Genome Res. 8: 195-202.
11. Green, P. 1994. PHRAP documentation [online]. Available from http://www.phrap.org.
12. Hammer, Ø., Harper, D.A.T., and Ryan, P.D. 2001. PAST: paleontological statistics software package for education and data analysis. Palaeont. Electr. 4: 1-9.
13. Hoffmann, H., and Roggenkamp, A. 2003. Population genetics of the nomenspecies Enterobacter cloacae. Appl. Environ. Microbiol. 69: 5306-5318. doi:10.1128/AEM.69.9.5306-5318.2003.
14. Hoffmann, H., Stindl, S., Stumpf, A., Mehlen, A., Monget, D., Heesemann, J., Schleifer, K.H., and Roggenkamp, A. 2005. Description of Enterobacter ludwigii sp. nov., a novel Enterobacter species of clinical relevance. Syst. Appl. Microbiol. 28: 206-212. doi:10.1016/j.syapm.2004. 12.009.
15. Iversen, C., Waddington, M., Farmer, J.J., and Forsythe, S.J. 2006. The biochemical differentiation of Enterobacter sakazakii genotypes. BMC Microbiol. 26: 6-94.
16. Jalaluddin, S., Devaster, J.M., Scheen, R., Gerard, M., and Butzler, J.P. 1998. Molecular epidemiological study of nosocomial Enterobacter aerogenes isolates in a Belgian hospital. J. Clin. Microbiol. 36: 1846-1852.
17. Jaspers, E., and Overmann, J. 2004. Ecological significance of microdiversity: identical 16S rRNA gene sequences can be found in Bacteria with highly divergent genomes and ecophysiologies. Appl. Environ. Microbiol. 70: 4831-4839. doi:10.1128/AEM.70.8.4831-4839.2004.
18. Kado, C.I., and Liu, S.T. 1981. Rapid procedure for detection and isolation of large and small plasmids. J. Bacteriol. 145: 1365-1373.
19. Kimura, M. 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16: 111-120. doi:10.1007/BF01731581.
20. Kumar, S., Tamura, K., and Nei, M. 2004. MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief. Bioinform. 5: 150-163. doi:10.1093/bib/5.2.150.
21. Kuske, C.R., Barns, S.M., and Busch, J.D. 1997. Diverse uncultivated bacterial groups from soils of the arid southwestern United States that are present in many geographic regions. Appl. Environ. Microbiol. 63: 3614-3621.
22. Lu, J.J., Perng, C.L., Lee, S.Y., and Wan, C.C. 2000. Use of PCR with universal primers and restriction endonuclease digestions for detection and identification of common bacterial pathogens in cerebrospinal fluid. J. Clin. Microbiol. 38: 2076-2080.
23. McCaig, A.E., Grayston, S.J., Prosser, J.I., and Glover, A. 2001. Impact of cultivation on characterisation of species composition of soil bacterial communities. FEMS Microbiol. Ecol. 35: 37-48.
24. McKeon, D.M., Calabrese, J.P., and Bissonnette, G.K. 1995. Antibiotic resistant Gram-negative bacteria in rural groundwater supplies. Water Res. 29: 1902-1908. doi:10.1016/0043-1354(95)00013-B.
25. Nascimento, A.M.A., Campos, C.E., Campos, E.P., Azevedo, J.L., and Chartone-Souza, E. 1999. Re-evaluation of antibiotic and mercury resistance in Escherichia coli populations isolated in 1978 from Amazonian rubber tree tappers and Indians. Res. Microbiol. 150: 407-411. doi:10.1016/S0923- 2508(99)80076-X.
26. National Committee for Clinical Laboratory Standards. 2001. Methods for dilution antimicrobial susceptibility tests for bacteria that grow aerobically. Approved standard M7-A5. National Committee for Clinical Laboratory Standards, Villanova, Pa.
27. Neto, J.R., Yano, T., Beriam, L.O.S., Destéfano, S.A.L., Oliveira, V.M., and Rosato, Y.B. 2003. Comparative RFLP-ITS between Enterobacter cloacae strains isolated from plants and clinical origin. Arq. Inst. Biol. (Sao Paulo), 70: 367-372.
28. Niemi, M., Sibakov, M., and Niemela, S. 1983. Antibiotic resistance among different species of fecal coliforms isolated from water samples. Appl. Environ. Microbiol. 45: 79-83.
29. Peng, L., and Shimizu, K. 2003. Global metabolic regulation analysis for Escherichia coli K12 based on protein expression by 2-dimensional electrophoresis and enzyme activity measurement. Appl. Microbiol. Biotechnol. 61: 163-178.
30. Pontes, D.S., Lima-Bittencourt, C.I., Chartone-Souza, E., and Nascimento, A.M.A. 2007. Molecular approaches: advantages and artifacts in assessing bacterial diversity. J. Ind. Microbiol. Biotechnol.. doi:10.1007/s10295-007- 0219-3.
31. Saitou, N., and Nei, M. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4: 406-425.
32. Schwartz, T., Kohnen, W., Jansen, B., and Obst, U. 2003. Detection of antibiotic-resistant bacteria and their resistance genes in wastewater, surface water, and drinking water biofilms. FEMS Microbiol. Ecol. 43: 325-335.
33. Stock, I., and Wiedemann, B. 2001. Natural antibiotic susceptibility of strains of the Enterobacter cloacae complex. Int. J. Antimicrob. Agents, 18: 537-545.
34. Stumpf, A.N., Roggenkamp, A., and Hoffmann, H. 2005. Specificity of enterobacterial repetitive intergenic consensus and repetitive extragenic palindromic polymerase chain reaction for the detection of clonality within the Enterobacter cloacae complex. Diagn. Microbiol. Infect. Dis. 53: 9-16. doi:10.1016/j.diagmicrobio.2005.04.003.
35. Talon, D., Menget, P., Thouverez, M., Thiriez, G., Gbaguidi Haore, H., Fromentin, C., Muller, A., and Bertrand, X. 2004. Emergence of Enterobacter cloacae as a common pathogen in neonatal units: pulsed-field gel electrophoresis analysis. J. Hosp. Infect. 57: 119-125. doi:10.1016/j.jhin.2004.01.023.
36. Tang, Y.W., Ellis, N.M., Hopkins, M.K., Smith, D.H., Dodge, D.E., and Persing, D.H. 1998. Comparison of phenotypic and genotypic techniques for identification of unusual aerobic pathogenic Gram-negative bacilli. J. Clin. Microbiol. 36: 3674-3679.
37. Versalovic, J., Koeuth, T., and Lupski, J.R. 1991. Distribution of repetitive DNA sequences in eubacteria and application to fingerprinting of bacterial genomes. Nucleic Acids Res. 19: 6823-6831. doi:10.1093/nar/19. 24.6823.
38. Watanabe, K., Kodama, Y., and Harayama, S. 2001. Design and evaluation of PCR primers to amplify 16S ribosomal DNA fragments used for community fingerprinting. J. Microbiol. Methods, 44: 253-262. doi:10.1016/S0167- 7012(01)00220-2.
39. Welsh, J., and McClelland, M. 1991. Genomic fingerprints produced by PCR with consensus tRNA gene primers. Nucleic Acids Res. 19: 861-866. doi:10.1093/nar/19.4.861.
40. Zaher, A., and Cimolai, N. 1998. ERIC-PCR typing profiles of Enterobacter cloacae are stable after development of advanced cephalosporin resistance. Int. J. Antimicrob. Agents, 9: 165-167.