Specific detection of enteroaggregative hemorrhagic Escherichia coli O104:H4 strains by use of the CRISPR locus as a target for a diagnostic real-time PCR

Journal of Clinical Microbiology

Volumn 50, Issue 11, 2012, Pages 3485-3492

  Delannoy, Sabine ^a   Beutin, Lothar ^b   Burgos, Ylanna ^b   Fach, Patrick ^a  

^a French Agency for Food   (France)

^b FEDERAL INSTITUTE FOR RISK ASSESSMENT   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL ANTIGEN; H ANTIGEN; O ANTIGEN; UNCLASSIFIED DRUG;

ARTICLE; BACTERIAL FLAGELLUM; BACTERIAL GENE; BACTERIAL STRAIN; BACTERIUM DETECTION; BACTERIUM IDENTIFICATION; CLUSTERED REGULARLY INTERSPACED SHORT PALINDROMIC REPEAT; DNA STRUCTURE; ENTEROAGGREGATIVE HEMORRHAGIC ESCHERICHIA COLI; ESCHERICHIA COLI; GENE LOCUS; INTERMETHOD COMPARISON; LIMIT OF DETECTION; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; REAL TIME POLYMERASE CHAIN REACTION; SENSITIVITY AND SPECIFICITY; SEROTYPE; STRAIN DIFFERENCE;

BACTERIOLOGICAL TECHNIQUES; DNA, BACTERIAL; ENTEROHEMORRHAGIC ESCHERICHIA COLI; ESCHERICHIA COLI INFECTIONS; EUROPE; HUMANS; MOLECULAR DIAGNOSTIC TECHNIQUES; MOLECULAR SEQUENCE DATA; REAL-TIME POLYMERASE CHAIN REACTION; SENSITIVITY AND SPECIFICITY; SEQUENCE ANALYSIS, DNA;

EID: 84867509983     PISSN: 00951137     EISSN: 1098660X     Source Type: Journal    
DOI: 10.1128/JCM.01656-12     Document Type: Article

References (26)

1. Askar M, et al. 2011. Update on the ongoing outbreak of haemolytic uraemic syndrome due to Shiga toxin-producing Escherichia coli (STEC) serotype O104, Germany, May 2011. Euro Surveill. 16(22):pii=19883.
2. Beutin L, Jahn S, Fach P. 2009. Evaluation of the 'GeneDisc' real-time PCR system for detection of enterohaemorrhagic Escherichia coli (EHEC) O26, O103, O111, O145 and O157 strains according to their virulence markers and their O- and H-antigen-associated genes. J. Appl. Microbiol. 106:1122-1132.
3. Beutin L, Martin A. 2012. Outbreak of Shiga toxin-producing Escherichia coli (STEC) O104:H4 infection in Germany causes a paradigm shift with regard to human pathogenicity of STEC strains. J. Food Prot. 75:408-418.
4. Bielaszewska M, et al. 2011. Characterisation of the Escherichia coli strain associated with an outbreak of haemolytic uraemic syndrome in Germany, 2011: a microbiological study. Lancet Infect. Dis. 11:671-676.
5. Brzuszkiewicz E, 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.
6. Bugarel M, Beutin L, Fach P. 2010. Low-density macroarray targeting non-locus of enterocyte effacement effectors (nle genes) and major virulence factors of Shiga toxin-producing Escherichia coli (STEC): a new approach for molecular risk assessment of STEC isolates. Appl. Environ. Microbiol. 76:203-211.
7. Bugarel M, Beutin L, Martin A, Gill A, Fach P. 2010. Micro-array for the identification of Shiga toxin-producing Escherichia coli (STEC) seropathotypes associated with hemorrhagic colitis and hemolytic uremic syndrome in humans. Int. J. Food Microbiol. 142:318-329.
8. 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.
9. Coombes BK, et al. 2008. Molecular analysis as an aid to assess the public health risk of non-O157 Shiga toxin-producing Escherichia coli strains. Appl. Environ. Microbiol. 74:2153-2160. (Pubitemid 351522070)
10. Frank C, et al. 2011. HUS investigation team. Large and ongoing outbreak of haemolytic uraemic syndrome, Germany, May 2011. Euro Surveill. 16(21):pii=19878.
11. Germani Y, et al. 1998. Etiologies of acute, persistent, and dysenteric diarrheas in adults in Bangui, Central African Republic, in relation to human immunodeficiency virus serostatus. Am. J. Trop. Med. Hyg. 59:1008-1014. (Pubitemid 29028937)
12. Istituto Superiore di Sanità, Rome, Italy. 2011. Detection and identification of Verocytotoxin-producing Escherichia coli (VTEC) O104:H4 in food by real time PCR. Istituto Superiore di Sanità, Rome, Italy. http://www.iss.it/binary/vtec/cont/Lab-proc-O104-rev2.pdf. Accessed 9 September 2012.
13. Karmali MA, et al. 2003. Association of genomic O island 122 of Escherichia coli EDL 933 with verocytotoxin-producing Escherichia coli seropathotypes that are linked to epidemic and/or serious disease. J. Clin. Microbiol. 41:4930-4940. (Pubitemid 37429898)
14. King LA, et al. 2012. Outbreak of Shiga toxin-producing Escherichia coli O104:H4 associated with organic fenugreek sprouts, France, June 2011. Clin. Infect. Dis. 54(11):1588-1594.
15. Kozub-Witkowski E, et al. 2008. Serotypes and virutypes of enteropathogenic and enterohaemorrhagic Escherichia coli strains from stool samples of children with diarrhoea in Germany. J. Appl. Microbiol. 104:403-410.
16. 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.
17. Mellmann A, et al. 2011. Prospective genomic characterization of the German enterohemorrhagic Escherichia coli O104:H4 outbreak by rapid next generation sequencing technology. PLoS One 6(7):e22751. doi: 10.1371/journal.pone.0022751.
18. Nataro JP, et al. 1993. Aggregative adherence fimbria I expression in enteroaggregative Escherichia coli requires two unlinked plasmid regions. Infect. Immun. 61:1126-1131. (Pubitemid 23059678)
19. Parolis LA, Parolis H, Dutton GG. 1989. Structure of the capsular antigen of Escherichia coli O8:K8:H4. Carbohydr. Res. 193:157-163.
20. Pritchard L, Holden NJ, Bielaszewska M, Karch H, Toth IK. 2012. Alignment-free design of highly discriminatory diagnostic primer sets for Escherichia coli O104:H4 outbreak strains. PLoS One 7(4):e34498. doi: 10.1371/journal.pone.0034498.
21. Qin J, et al. 2011. Identification of the Shiga toxin-producing Escherichia coli O104:H4 strain responsible for a food poisoning outbreak in Germany by PCR. J. Clin. Microbiol. 49:3439-3440.
22. Scheutz F, Strockbine NA. 2005. Genus I. Escherichia, p 607-624. In Garrity GM, Brenner DJ, Krieg NR, Staley JT (ed), Bergey's manual of systematic bacteriology, 2nd ed. Springer, New York, NY.
23. Scheutz F, et al. 3 July 2012. A multi-center evaluation of a sequence-based protocol to subtype Shiga toxins and standardize Stx nomenclature. J. Clin. Microbiol. doi:10.1128/JCM.00860-12.
24. Touchon M, et al. 2011. CRISPR distribution within the Escherichia coli species is not suggestive of immunity-associated diversifying selection. J. Bacteriol. 193:2460-2467.
25. Wang L, et al. 2001. Sequence of the E. coli O104 antigen gene cluster and identification of O104 specific genes. Gene 270:231-236. (Pubitemid 32525819)
26. Zhang W, et al. 2012. Real-time multiplex PCR for detecting Shiga toxin 2-producing Escherichia coli O104:H4 in human stools. J. Clin. Microbiol. 50:1752-1754.