Towards a pathogenic escherichia coli detection platform using multiplex SYBR®green real-time PCR methods and high resolution melting analysis

PLoS ONE

Volumn 7, Issue 6, 2012, Pages

  Kagkli, Dafni Maria ^a   Folloni, Silvia ^a   Barbau Piednoir, Elodie ^b   van den Eede, Guy ^a   van den Bulcke, Marc ^a  

^a JOINT RESEARCH CENTRE   (Italy)

^b SCIENTIFIC INSTITUTE OF PUBLIC HEALTH   (Belgium)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BACTERIAL COLONIZATION; BACTERIAL STRAIN; BACTERIAL VIRULENCE; BACTERIUM DETECTION; CAMPYLOBACTER JEJUNI; CITROBACTER FREUNDII; CONTROLLED STUDY; ENTEROBACTER SAKAZAKII; ESCHERICHIA COLI; ESCHERICHIA COLI O103; ESCHERICHIA COLI O104 H2; ESCHERICHIA COLI O104 H4; ESCHERICHIA COLI O111; ESCHERICHIA COLI O145; ESCHERICHIA COLI O157; ESCHERICHIA COLI O26; ESCHERICHIA FERGUSONII; ESCHERICHIA HERMANII; ESCHERICHIA VULNERIS; GENE AMPLIFICATION; HAFNIA ALVEI; HIGH RESOLUTION MELTING ANALYSIS; HIGH THROUGHPUT SCREENING; KLEBSIELLA PNEUMONIAE; LISTERIA MONOCYTOGENES; MULTIPLEX POLYMERASE CHAIN REACTION; NONHUMAN; PROCESS OPTIMIZATION; PROTEUS MIRABILIS; REAL TIME POLYMERASE CHAIN REACTION; SALMONELLA; SALMONELLA CERRO; SALMONELLA ENTERICA; SALMONELLA ENTERITIDIS; SALMONELLA HADAR; SALMONELLA SEFTENBERG; SENSITIVITY AND SPECIFICITY; SHIGELLA BOYDII; SHIGELLA DYSENTERIAE; SHIGELLA FLEXNERI; SHIGELLA SONNEI; STAPHYLOCOCCUS AUREUS; YERSINIA ENTEROCOLITICA;

ESCHERICHIA COLI; FOOD MICROBIOLOGY; FOODBORNE DISEASES; HUMANS; REAL-TIME POLYMERASE CHAIN REACTION; SENSITIVITY AND SPECIFICITY;

EID: 84862682986     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0039287     Document Type: Article

References (39)

1. Gyles CL, (2007) Shiga-toxin producing Escherichia coli: an overview. J Anim Sci 85: E45-E62.
2. Mathusa EC, Chen Y, Enache E, Hontz L, (2010) Non-O157 Shiga toxin-producing Escherichia coli in foods. J Food Prot 73: 1721-1736.
3. Bugarel M, Martin A, Fach P, Beutin L, (2011) Virulence gene profiling of enterohemorrhagic (EHEC) and enteropathogenic (EPEC) Escherichia coli strains: A basis for molecular risk assessment of typical and atypical EPEC strains. BMC Microbiol 11: 142.
4. Pennington H, (2010) Escherichia coli O157. The Lancet 376: 1428-1435.
5. Wu CJ, Hsueh PR, Ko WC, (2011) A new health threat in Europe: Shiga toxin-producing Escherichia coli O104:H4 infections. J Microbiol Immunol Infect 44: 390-393.
6. Konowalchuk J, Speirs JI, Stavric S, (1977) Vero response to a cytotoxin of Escherichia coli. Infect Immun 18: 775-779.
7. Karmali MA, Gannon V, Sargeant JM, (2010) Verocytotoxin-productin Escherichia coli (VTEC). Vet Microbiol 140: 360-370.
8. Rangel JM, Sparling PH, Crowe C, Griffin PM, Swerdlow DL, (2005) Epidemiology of Escherichia coli O157:H7 outbreaks, United States, 1982-2002. Emerg Infect Dis 11: 603-609.
9. Nataro JP, Kaper JB, (1998) Diarrhoeagenic Escherichia coli. Clin Microbiol Rev 11: 142-201.
10. Stein PE, Boodhoo A, Tyrrell GJ, Brunton JL, Read RJ, (1992) Crystal structure of the cell-binding B oligomer of verotoxin-1 from E. coli. Nat 355: 748-750.
11. Martin A, Beutin L, (2011) Characteristics of Shiga toxin-producing Escherichia coli from meat and milk products of different origins and association with food producing animals as main contamination sources. Int J Food Microbiol 146: 99-104.
12. Johannes L, Römer W, (2010) Shiga toxins from cell biology to biomedical applications. Nat Rev Microbiol 8: 105-116.
13. Paton JC, Paton AW, (1998) Pathogenesis and Diagnosis of shiga toxin-producins Escherichia coli infection. Clin Microbiol Rev 11: 450-479.
14. De Grandis S, Ginsberg J, Toone M, Climie S, Friesen J, et al. (1987) Nucleotide sequence and promoter mapping of the Escherichia coli Shiga-like toxin operon of bacteriophage H-19B. J Bacteriol 169: 4313-4319.
15. Lee JE, Reed J, Shields MS, Spiegel KM, Farrell LD, et al. (2007) Phylogenetic analysis of Shiga toxin 1 and Shiga toxin 2 genes associated with disease outbreaks. BMC Microbiol 7: 109.
16. Boerlin P, (1999) Evolution of virulence factors in Shiga-toxin-producing Escherichia coli. Cell Mol Life Sci 56: 735-741.
17. Friedrich AW, Bielaszewska M, Zhang WL, Pulz M, Kuczius T, et al. (2002) Escherichia coli harboring shiga toxin 2 gene variants: Frequency and association with clinical symptoms. J Infect Dis 185: 74-84.
18. Friedrich AW, Borell J, Bielaszewska M, Fruth A, Tschäpe H, et al. (2003) Shiga toxin 1c-producing Escherichia coli strains: Phenotypic and genetic characterization and association with human disease. J Clin Microbiol 41: 2448-2453.
19. Gyles CL, (2011) Relevance in pathogenesis research. Vet Microbiol 153: 2-12.
20. European Food Safety Authority, (2009) Technical specifications for the monitoring and reporting of verotoxigenic Escherichia coli (VTEC) on animals and food (VTEC surveys on animals and food). The EFSA Journal 7: 1366.
21. Kagkli DM, Weber TP, Van den Bulcke M, Folloni S, Morabito S, et al. (2011) Application of the modular approach to an in-house validation study of Real-time PCR methods for the detection and serogroup determination of verocytotoxigenic Escherichia coli. Appl Environ Microbiol 77: 6954-6963.
22. Cheng CJ, Huang CL, Lin CC, Chen CC, Chang YC, et al. (2006) Rapid Detection and identification of clinically important bacteria by high resolution melting analysis after broad-range ribosomal RNA Real-time PCR. Clin Chem 52: 1997-2004.
23. Šimenc J, Potočnik U, (2011) Rapid differentiation of bacterial species by high resolution melting curve analysis. Appl Biochem Microbiol 47: 256-263.
24. Lévesque S, Michaud S, Arbeit RD, Frost EH, (2011) High-resolution melting system to perform multilocus sequence typing of Campylobacter jejuni. PLoS ONE 6: e16167.
25. Norambuena PA, Copeland JA, Krenková P, Stambergová AA, Macek M Jr, (2009) Diagnostic method validation: high resolution melting (HRM) of small amplicons genotyping for the most common variants in MTHFR gene. Clin Biochem 42: 1308-1316.
26. Perelle S, Dilasser F, Grout J, Fach P, (2004) Detection by 5′-nuclease PCR of Shiga-toxin producing Escherichia coli O26, O55, O91, O103, O111, O113, O145 and O157:H7, associated with the world's most frequent clinical cases. Mol Cell Probes 18: 185-192.
27. Møller Nielsen E, Thorup Andersen M, (2003) Detection and Characterization of Verocytotoxin-Producing Escherichia coli by Automated 5′ Nuclease PCR Assay. J Clin Microbiol 41: 2884-2893.
28. Perelle S, Dilasser F, Grout J, Fach P, (2005) Detection of Escherichia coli serogroup O103 by Real-time polymerase chain reaction. J Appl Microbiol 98: 1162-1168.
29. Norme AFNOR XP V03-020-2 (04/2005) Produits alimentaires-Detection et quantification des organismes vegetaux genetiquement modifies et produits derives-Partie 2: methodes basees sur la reaction de polymerisation en chai{dotless}ne.
30. European Food Safety Authority, (2007) Scientific Opinion of the Panel on Biological Hazards on a request from EFSA on monitoring of verotoxigenic Escherichia coli (VTEC) and identification of human pathogenic VTEC types. The EFSA Journal 579: 1-61.
31. European Food Safety Authority, (2011) Joint EFSA/ECDC technical report: Shiga toxin/verotoxin-producing Escherichia coli in humans, food and animals in the EU/EEA, with special reference to the German outbreak strain STEC O104: EFSA-Q-2011-00779.
32. Frank C, Werber D, Cramer JP, Askar M, Faber M, et al. (2011) Epidemic Profile of Shiga-Toxin-Producing Escherichia coli O104:H4 Outbreak in Germany. N Engl J Med 365: 1771-1780.
33. Mellmann A, Harmsen D, Cummings CA, Zentz EB, Leopold SR, et al. (2011) Prospective Genomic Characterization of the German Enterohemorrhagic Escherichia coli O104:H4 Outbreak by Rapid Next Generation Sequencing Technology. PLoS ONE 6: e22751. doi:10.1371/journal.pone.0022751.
34. Pennington H, (2011) Escherichia coli O104, Germany 2011. Lancet Infect Dis 11: 652-653.
35. Brzuszkiewicz E, Thurmer A, Schuldes J, Leimbach A, Liesegang H, et al. (2011) Genome sequence analyses of two isolates from the recent Escherichia coli outbreak in Germany reveal the emergence of a new pathotype: Entero-Aggregative-Haemorrhagic Escherichia coli (EAHEC). Arch Microbiol 193: 883-891.
36. Guion CE, Ochoa TJ, Walker CM, Barletta F, Cleary TG, (2008) Detection of diarrhoeagenic Escherichia coli by use of melting-curve analysis and Real-time multiplex PCR. J Clin Microbiol 46: 1752-1757.
37. Chassagne L, Pradel N, Robin F, Livrelli V, Bonnet R, et al. (2009) Detection of stx1, stx2, and eae genes of enterohemorrhagic Escherichia coli using SYBR Green in a Real-time polymerase chain reaction. Diagn Microbiol Infect Dis 64: 98-101.
38. Kaur P, Chakraborti A, Asea A, (2010) Enteroaggregative Escherichia coli: An Emerging Enteric Food Borne Pathogen. Interdiscip Perspect Infect Dis 2010: 254159.
39. Beijing Genomics Institute website. Available:ftp://ftp.genomics.org.cn/pub/Ecoli_TY-2482/Specific_primers_for_PCR_detection.pdf (accessed 2011 August 15.).