Genetic diversity in clinical isolates of Escherichia coli by enterobacterial repetitive intergenic consensus (ERIC)-PCR technique in Sanandaj hospitals
Background and Objectives: The Escherichia coli strains are greatly important in nosocomial and community acquired infections. The aim of this study was to determine the transmission of bacterial infections using genetic analysis.
Materials and Methods: Two hundred and thirty Escherichia coli strains, isolated from different clinical samples, were characterized by enterobacterial repetitive intergenic consensus (ERIC)–PCR technique. The results and the similarity between the strains were determined on the basis of Jaccard similarity coefficient in the SAHN program of the NTSYS-pc software.
Results: The ERIC–PCR profiles allowed typing of the 230 isolates into 205 ERIC-types which were grouped into twenty main clusters (C01–C20).The first group makes up 4.34% of the total isolates. Out of the 230 isolates, 34.2% belonged to D phylogenic group which were associated with extra-intestinal samples.
Conclusion: Our results showed high diversity in E. coli isolates indicating low rate of hospital infection in our university hospitals. The majority of the isolates belonged to the D phylogenic group.
Hulton CS, Higgins CF, Sharp PM. ERIC sequences: a novel family of repetitive elements in the genomes of Escherichia coli, Salmonella typhimuirum and other enterobacteria. Mol Microbiol 1991; 5: 825-834.
Versalovic J, Koeuth T, Lupski JR. Distribution of repetitive DNA sequences in eubacteria and application to fingerprinting of bacterial genomes. Nucleic Acids Res 1991; 19: 6823-6831.
Dalla-Costa LM, Irino K, Rodrigues J, Rivera ING, Trabulsi LR. Characterisation of diarrhoeagenic Escherichia coli clones by ribotyping and ERIC-PCR. J Med Microbiol 1998; 47: 227-234.
Chansiripornchai N, Ramasoota P, Sasipreyajan J, Svenson SB. Differentiation of avian Escherichia coli (APEC) isolates by random amplified polymorphic DNA (RAPD) analysis. Vet Microbiol 2001; 80: 75-83.
Schloter M, Lebuhn M, Heulin T, Hartmann A. Ecology and evolution of bacterial microdiversity. FEMS Microbiol Rev 2000; 24: 647-660.
Busch U, Nitschko H. Methods for the differentiation of microorganisms. J Chromatogr 1999; 722: 263-278.
Olive DM, Bean P. Principles and applications of methods for DNA-based typing of microbial organisms. J Clin Microbiol 1999; 37: 1661-1669.
Lupski JR, Weinstock GM. Short, interspersed repetitive DNA sequences in prokaryotic genomes. J Bacteriol 1992; 174: 4525-4529.
Versalovic J, Koeuth T, Lupski JR. Distribution of repetitive DNA sequences in eubacteria and application to fingerprinting of bacterial genomes. Nucleic Acid Res 1991; 19: 6823-6831.
Sharples GJ, Lloyd RG. A novel repeated sequence located in the intergenic regions of bacterial chromosomes. Nucleic Acids Res 1990: 6503-6508.
Hulton CSJ, Higgins CF, Sharp PM. ERIC sequences: a novel family of repetitive elements in the genomes of Escherichia coli, Salmonella typhimurium and other enterobacteria. Mol Microbiol 1991: 825-834.
Sharp PM, Leach DRF. Palindrome-induced deletion in enterobacterial repetitive sequences. Mol Microbiol 1996: 1055-1056.
Cromie G, Collins J, Leach DRF. equence interruptions in enterobacterial repeated elements retain their ability to encode well-folded RNA secondary structure. Mol Microbiol 1997: 1311-1314.
Sharp PM. Insertions within ERIC sequences. Mol Microbiol 1997: 1314-1315.
Duchaud E, Rusniok C, Frangeul L. The genome sequence of the entomopathogenic bacterium Photorhabdus luminescens. Nat Biotechnol 2003; 21: 1307-1313.
Maniatis T, Fritisch EF, Sambrook J. Molecular Clonig: A Laboratory Mannual. Cold Spring Harbor Laboratory Press ISBN 1982: 545.
Sambrook J, Fritsch EF, Maniatis T. Bacterial diseases of potato: relevance to in vitro potato seed production In: Molecular Cloning: A Laboratory Manual 2nd edition ed: Cold Spring Harbor Laboratory Press. ISBN 0-87969-309-6.23; 1999.
Clermont O, Bonacorsi S, Bingen E. Rapid and simple determination of the Escherichia coli phylogenetic group. Appl Environ Microbiol 2000; 66: 4555-4558.
Kidd TJ, Grimwood K, Ramsay KA, Rainey PB, Bell SC. Comparison of three molecular techniques for typing Pseudomonas aeruginosa isolates in sputum samples from patients with cystic fibrosis. J Clin Microbiol 2011;49: 263-268.
Macedo NR, Oliveira SR, Lage AP, Santos JL, Araujo MR, Guedes RM. ERIC-PCR genotyping of Haemophilus parasuis isolates from Brazilian pigs. Vet J 2011; 188: 362-364.
Shuan Ju Teh C, Thong KL, Osawa R, Heng Chua K.Comparative PCR-based fingerprinting of Vibrio cholera isolated in Malaysia. J Gen Appl Microbiol 2011; 57: 19-26.
Guimaraes Ade S, Dorneles EM, Andrade GI, Lage AP, Miyoshi A, Azevedo V, et al. Molecular characterization of Corynebacterium pseudotuberculosis isolates using ERIC-PCR. Vet Microbiol 2011; 153: 299-306.
Nath G, Maurya P, Gulati AK. ERIC PCR and RAPD based fingerprinting of Salmonella Typhi strains isolated over a period of two decades. Infect Genet Evol 2010;10: 530-536.
Valdes I, Jaureguiberry B, Romalde JL, Toranzo AE, Magarinos B, Avendano-Herrera R. Genetic characteri- zation of Streptococcus phocae strains isolated from Atlantic salmon, Salmo salar L., in Chile. J Fish Dis 2009; 32: 351-358.
Munoz V, Ibanez F, Tonelli ML, Valetti L, Anzuay MS, Fabra A. Phenotypic and phylogenetic characterization of native peanut Bradyrhizobium isolates obtained from Cordoba, Argentina. Syst Appl Microbiol 2011; 34: 446-452.
Aquino MH, Filgueiras AL, Matos R, Santos KR, Ferreira T, Ferreira MC, et al. Diversity of Campylobacter jejuni and Campylobacter coli genotypes from human and animal sources from Rio de Janeiro, Brazil. Res Vet Sci 2010; 88: 214-217.
Xia Y, Liang Z, Su X, Xiong Y. Characterization of carbapenemase genes in enterobacteriaceae species exhibiting decreased susceptibility to carbapenems in a university hospital in chongqing, china. Ann Lab Med 2012; 32: 270-275.
Chen Z, Liu W, Zhang Y, Li Y, Jian Z, Deng H, et al. Molecular epidemiology of carbapenem-resistant Acinetobacter spp. from XiangYa Hospital, in Hunan Province, China. J Basic Microbiol 2012 May 14. doi: 10.1002/jobm.201100420. [Epub ahead of print].
Edelstein M, Pimkin M, Palagin I, Edelstein I, Stratchounski L. Prevalence and Molecular Epidemiolo- gy of CTX-M Extended-Spectrum β-Lactamase- Producing Escherichia coli and Klebsiella pneumoniae in Russian Hospitals. Antimicrobial Agents and Chemotherapy 2003; 47: 3724-3732.
Mansouri M, Ramazanzadeh R, Norabadi P.Cefepime resistance and associated risk factors among Escherichia coli strains isolated from clinical specimens. Chemotherapy 2011; 57: 134-137.
Ramazanzadeh R, Chitsaz M, Bahmani N. Prevalence and antimicrobial susceptibility of extended-spectrum beta-lactamase-producing bacteria in intensive care units of Sanandaj general hospitals (Kurdistan, Iran). Chemotherapy 2009; 55: 287-292. 32. Mansouri M, Ramazanzadeh R. Spread of extended- spectrum beta-lactamase producing Escherichia coli clinical isolates in Sanandaj hospitals. Journal of Biological Sciences 2009; 9: 362-366.
Ramazanzadeh R. Prevalence and characterization of extended-spectrum beta-lactamase production in clinical isolates of Klebsiella spp. African Journal of Microbiology Research 2010; 4: 1359-1362.
Ramazanzadeh R. Etiologic agents and extended-spectrum beta-lactamase production in urinary tract infections in Sanandaj, Iran. Eastern Journal of Medicine 2010; 15: 57-62.
Ramazanzadeh R, Farhadifar F, Mansouri M. Etiology and Antibiotic Resistance Patterns of Community- Acquired Extended-Spectrum Beta-Lactamase-Producing Gram Negative Isolates in Sanandaj. Research Journal of Medical Sciences 2010; 4: 243-247.
Hoseini D. The Prevalence of TEM and SHV Genes among Extended-Spectrum Beta-Lactamases Producing Escherichia Coli and Klebsiella Pneumoniae. Iranian Journal of Basic Medical Sciences 2012; 15: 654-660.
Herzer PJ, Inouye S, Inouye M, Whittam TS. Phylogenetic distribution of branched RNA-linked multicopy single- stranded DNA among natural isolates of Escherichia coli. J Bacteriol 1990; 172: 6175-6181.
Johnson JR, Delavari P, Kuskowski M, Stell AL. Phylo- genetic distribution of extraintestinal virulence-associated traits in Escherichia coli. J Infect Dis 2001; 183: 78-88.
|Issue||Vol 5 No 2 (2013)|
|E. colin ERIC–PCR fingerprinting genetic diversity|
|Rights and permissions|
|This work is licensed under a Creative Commons Attribution-NonCommercial 4.0 International License.|