Abstract
Genetic polymorphism of 83 isolates ofE. coli, derived from 4 species of artiodactyla animals living in a relatively close contact on the grounds of a theme parkZOO Safarii Świerkocin (Poland) was determined using the rep-PCR fingerprinting method, which utilizes oligonucleotide primers matching interspersed repetitive DNA sequences in PCR reaction to yield DNA fingerprints of individual bacterial isolates based on repetitive extragenic palindrome (REP) primers. The fingerprint patterns demonstrated the essential polymorphism of distribution of REP sequences in genomes of the examined isolates. The arithmetic averages clustering algorithm (UPGMA) statistical analysis of fingerprints with the use of the Jaccard similarity coefficient differentiatedE. coli isolates into three similarity groups containing various numbers of isolates. The groups comprised isolates derived from two, three and four species of the source animals. The isolates derived from each source segregated in the dendrogram in a different way, both within the similarity groups and among them, indicating an individual repertoire ofE. coli in the examined species of animals. The similarity relations amongE. coli derived from the same source, illustrated in a dendrogram with a number of subclusters of a low mutual similarity (≤20%), indicated an essential interstrain differentiation in terms of the distribution of REP sequences. Our results confirmed the hypothesis of the oligoclonal characters of populations obtained from particular sources. The rep-PCR fingerprinting method with REP primers is simple and highly differentiating and can be recommended for use in explorations of large groups of animals and monitoring the variability of strains.
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References
van Belkum A.: DNA fingerprinting of medically important microorganisms by use of PCR.Clin.Microbiol.Rev. 7, 174–184 (1994).
van Belkum A.: The role of short sequence repeats in epidemiology typing.Curr.Opin.Microbiol. 2, 306–311 (1999).
de Bruijn F.J.: Use of repetitive (repetitive extragenic palindromic and enterobacterial intergeneric repetitive consensus) sequences and the polymerase chain reaction to fingerprinting the genomes ofRhizobium meliloti isolates and other soil bacteria.Appl.Environ.Microbiol. 58, 2180–2187 (1992).
Dombek P.E., Johnson L.-A.K., Zimmerley S.T., Sadowsky M.J.: Use of repetitive DNA sequences and the PCR to differentiateEscherichia coli isolates from human and animal sources.Appl.Environ.Microbiol. 66, 2572–2577 (2000).
Fousek J., Mraz I., Petrzik K.: Comparison of genetic variability between Czech and foreign isolates of phytopathogenic bacteriaClavibacter michiganensis subsp.sepedonicus by rep-PCR technique.Folia Microbiol. 47, 450–454 (2002).
Gilson E., Perrin D., Hofnung M.: DNA polymerase I and a protein complex bind specifically toE. coli palindromic unit highly repetitive DNA: implications for bacterial chromosome organization.Nucl.Acids Res. 18, 3941–3952 (1990).
Hultgren S.J., Jones C.H., Normark S.: Bacterial adhesins and their assembly, pp. 2730–2756 in F.C. Neidhardt, R. Curtiss III, J.L. Ingraham, E.C.C. Lin, K.B. Low, B. Magasanik, W.S. Reznikoff, M. Riley, M. Schaechter, H.E. Umbager (Eds):Escherichia coli and Salmonella: Cellular and Molecular Biology. 2nd ed. ASM Press, Washington (DC) 1996.
Hulton C.S.J., Higgins C.F., Sharp P.M.: ERIC sequences: a novel family of repetitive elements in the genomes ofEscherichia coli, Salmonella typhimurium, and other enterobacteria.Mol.Microbiol. 5, 825–834 (1991).
Lipman L.J.A., de Nijs A., Lam T.J.G.M., Gaastra W.: Identification ofEscherichia coli strains from cows with clinical mastitis by serotyping and DNA polymorphism patterns with REP and ERIC primers.Vet.Microbiol. 43, 13–19 (1995).
Louws F.J., Fulbright D.W., Stephensm C.T., de Bruijn F.J.: Specific genomic fingerprints of phytopathogenicXanthomonas andPseudomonas pathovars and strains generated with repetitive sequences and PCR.Appl.Environ.Microbiol. 60, 2286–2295 (1994).
Rademaker J.L.W., de Bruijn F.J.: Characterization and classification of microbes by rep-PCR fingerprinting and computer-assisted pattern analysis.Appl.Environ.Microbiol. 64, 2096–2104 (1998).
Rademaker J.L.W., Hoste B., Louws F.J., Kersters K., Swings J., Vauterin P., de Bruijn F.J.: Comparison of AFLP and rep-PCR genomic fingerprinting with DNA-DNA homology studies:Xanthomonas as model system.Internat.J.Syst.Evol.Microbiol. 50, 665–677 (2000).
Schaechter M.:Escherichia coli andSalmonella — 2000: the view from here.Microbiol.Mol.Biol.Rev. 65, 119–130 (2001).
Sharples G.J., Lloyd R.G.: A novel repeated DNA sequence located in the intergenic regions of bacterial chromosomes.Nucl.Acids Res. 18, 6503–6508 (1990).
Versalovic J., Schneider M., de Brujin F.J., Lupski J.R.: Genomic fingerprinting of bacteria using repetitive sequence-based polymerase chain reaction.Meth.Mol.Cell.Biol. 5, 25–40 (1994).
Versalovic J., de Brujin F.J., Lupski J.R.: Repetitive sequence-based PCR (rep-PCR) DNA fingerprinting of bacterial genomes, pp. 437–454 in F.J. de Brujin, J.R. Lupski, G.M. Weinstock (Eds):Bacterial Genomes: Physical Structure and Analysis. Chapman and Hall, New York 1998.
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Baldy-Chudzik, K., Niedbach, J. & Stosik, M. Heterogeneity ofEscherichia coli derived from artiodactyla animals analyzed with the use of rep-PCR fingerprinting. Folia Microbiol 48, 162–167 (2003). https://doi.org/10.1007/BF02930949
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DOI: https://doi.org/10.1007/BF02930949