Open-source genomic analysis of Shiga-toxin-producing E. coli O104:H4

New England Journal of Medicine

Volumn 365, Issue 8, 2011, Pages 718-724

  Rohde, Holger ^a   Qin, Junjie ^b   Cui, Yujun ^b,d   Li, Dongfang ^b   Loman, Nicholas J ^g   Hentschke, Moritz ^a   Chen, Wentong ^b   Pu, Fei ^b   Peng, Yangqing ^b   Li, Junhua ^b,c   Xi, Feng ^b   Li, Shenghui ^b   Li, Yin ^b   Zhang, Zhaoxi ^b   Yang, Xianwei ^b   Zhao, Meiru ^b   Wang, Peng ^b   Guan, Yuanlin ^b   Cen, Zhong ^b   Zhao, Xiangna ^d   Christner, Martin ^a   Kobbe, Robin ^a   Loos, Sebastian ^a   Oh, Jun ^a   Yang, Liang ^a   Danchin, Antoine ^h   Gao, George F ^e,f   Song, Yajun ^d   Li, Yingrui ^b   Yang, Huanming ^b   Wang, Jian ^b   Xu, Jianguo ^f   Pallen, Mark J ^g   Wang, Jun ^b   Aepfelbacher, Martin ^a   Yang, Ruifu ^b,d   more..

^a UNIVERSITY MEDICAL CENTER HAMBURG EPPENDORF   (Germany)

^b BGI SHENZHEN   (China)

^c SOUTH CHINA UNIVERSITY OF TECHNOLOGY   (China)

^d BEIJING INSTITUTE OF MICROBIOLOGY AND EPIDEMIOLOGY   (China)

^e INSTITUTE OF MICROBIOLOGY   (China)

^f CHINESE CENTER FOR DISEASE CONTROL AND PREVENTION   (China)

^g UNIVERSITY OF BIRMINGHAM   (United Kingdom)

^h AMAbiotics   (France)

Author keywords

[No Author keywords available]

Indexed keywords

BILIRUBIN; CREATININE; ECULIZUMAB; HEMOGLOBIN; LACTATE DEHYDROGENASE; POTASSIUM; SHIGA TOXIN;

ABDOMINAL PAIN; ACUTE KIDNEY FAILURE; ADOLESCENT; ARTICLE; BACTERIAL GENE; BACTERIAL STRAIN; BACTERIUM ISOLATE; BLOODY DIARRHEA; CASE REPORT; CHILD; CREATININE BLOOD LEVEL; CULTURE MEDIUM; DNA SEQUENCE; EAE GENE; ENTEROAGGREGATIVE ESCHERICHIA COLI; ENZYME LINKED IMMUNOSORBENT ASSAY; EPIDEMIC; EXTENDED SPECTRUM BETA LACTAMASE GENE; FAMILY STUDY; FATHER; FECES ANALYSIS; FEMALE; GENE CLUSTER; GENE TECHNOLOGY; GENOME ANALYSIS; GERMANY; HEADACHE; HEMOGLOBIN BLOOD LEVEL; HEMOLYTIC ANEMIA; HEMOLYTIC UREMIC SYNDROME; HUMAN; MALAISE; MALE; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; MEAL; NEUROLOGIC DISEASE; PERITONEAL DIALYSIS; PLASMAPHERESIS; PLASMID; POLYMERASE CHAIN REACTION; POTASSIUM BLOOD LEVEL; PRIORITY JOURNAL; SCHOOL CHILD; SHIGA TOXIN PRODUCING ESCHERICHIA COLI; SIBLING; STX1 GENE; STX2 GENE; THROMBOCYTOPENIA; VOMITING; BACTERIAL GENOME; BACTERIUM IDENTIFICATION; CLASSIFICATION; DIARRHEA; ESCHERICHIA COLI INFECTION; FECES; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGY; MOLECULAR GENETICS; PHYLOGENY;

ADOLESCENT; BACTERIAL TYPING TECHNIQUES; CHILD; DIARRHEA; ESCHERICHIA COLI INFECTIONS; FECES; FEMALE; GENOME, BACTERIAL; GERMANY; HEMOLYTIC-UREMIC SYNDROME; HUMANS; MALE; MOLECULAR SEQUENCE DATA; PHYLOGENY; PLASMIDS; POLYMERASE CHAIN REACTION; SEQUENCE ANALYSIS, DNA; SHIGA-TOXIGENIC ESCHERICHIA COLI;

EID: 80052173621     PISSN: 00284793     EISSN: 15334406     Source Type: Journal    
DOI: 10.1056/NEJMoa1107643     Document Type: Article

References (21)

1. Hobman JL, Penn CW, Pallen MJ. Laboratory strains of Escherichia coli: model citizens or deceitful delinquents growing old disgracefully? Mol Microbiol 2007;64:881-5.
2. Kaper JB, Nataro JP, Mobley HL. Pathogenic Escherichia coli. Nat Rev Microbiol 2004;2:123-40. (Pubitemid 39490066)
3. Weintraub A. Enteroaggregative Escherichia coli: epidemiology, virulence and detection. J Med Microbiol 2007;56:4-8. (Pubitemid 46036267)
4. Frank C, Werber D, Cramer JP, et al. Epidemic profile of Shiga-toxin-producing Escherichia coli O104:H4 outbreak in Germany - preliminary report. N Engl J Med 2011. DOI: 10.1056/NEJMoa1106483.
5. Kuijper E, Soonawala D, Vermont C, van Dissel J. Household transmission of haemolytic uraemic syndrome associated with Escherichia coli O104:H4 in the Netherlands. Euro Surveill 2011;16:pii: 19897.
6. Cordesmeyer S, Peitz U, Godde N, Kasper H, Hoffmann M, Allemeyer E. Colonic ischaemia as a severe Shiga toxin/verotoxin producing Escherichia coli O104:H4 complication in a patient without haemolytic uraemic syndrome, Germany, June 2011. Euro Surveill 2011;16:pii:19895.
7. Robert Koch Institute. Information update on EHEC/HUS outbreak, 2011. (http://www.rki.de/nn-217400/EN/Home/PM082011.html.)
8. Scheutz F, Moller Nielsen E, Frimodt-Moller J, et al. Characteristics of the enteroaggregative Shiga toxin/verotoxin-producing Escherichia coli O104:H4 strain causing the outbreak of haemolytic uraemic syndrome in Germany, May to June 2011. Euro Surveill 2011;16:pii:19889.
9. Bae WK, Lee YK, Cho MS, et al. A case of hemolytic uremic syndrome caused by Escherichia coli O104:H4. Yonsei Med J 2006;47:437-9.
10. Chattaway MA, Dallman T, Okeke IN, Wain J. Enteroaggregative E. coli O104 from an outbreak of HUS in Germany 2011, could it happen again? J Infect Dev Ctries 2011;5:425-36.
11. GitHub. E. coli O104:H4 genome analysis crowd sourcing, 2011. (https://github.com/ehec-outbreak-crowdsourced/BGI-data-analysis/wiki.)
12. University College Cork. Escherichia coli MLST Database, 2011. (http://mlst.ucc.ie/mlst/dbs/Ecoli.)
13. Mellmann A, Bielaszewska M, Kock R, et al. Analysis of collection of hemolytic uremic syndrome-associated enterohemorrhagic Escherichia coli. Emerg Infect Dis 2008;14:1287-90.
14. Creuzburg K, Middendorf B, Mellmann A, et al. Evolutionary analysis and distribution of type III effector genes in pathogenic Escherichia coli from human, animal and food sources. Environ Microbiol 2011;13:439-52.
15. Mossoro C, Glaziou P, Yassibanda S, et al. Chronic diarrhea, hemorrhagic colitis, and hemolytic-uremic syndrome associated with HEp-2 adherent Escherichia coli in adults infected with human immunodeficiency virus in Bangui, Central African Republic. J Clin Microbiol 2002;40:3086-8. (Pubitemid 35284997)
16. Tobe T, Beatson SA, Taniguchi H, et al. An extensive repertoire of type III secretion effectors in Escherichia coli O157 and the role of lambdoid phages in their dissemination. Proc Natl Acad Sci U S A 2006;103:14941-6. (Pubitemid 44527833)
17. Bielaszewska M, Mellmann A, Zhang W, et al. Characterisation of the Escherichia coli strain associated with an outbreak of haemolytic uraemic syndrome in Germany, 2011: a microbiological study. Lancet Infect Dis 2011 June 22 (Epub ahead of print).
18. Smet A, Van Nieuwerburgh FV, Vandekerckhove TTM, et al. Complete nucleotide sequence of CTX-M-15-plasmids from clinical Escherichia coli isolates: insertional events of transposons and insertion sequences. PLoS ONE 2010;5(6):e11202.
19. Rasko DA, Webster DR, Sahl JW, et al. Origins of the E. coli strain causing an outbreak of hemolytic-uremic syndrome in Germany. N Engl J Med 2011;365:709-17.
20. Schmidt MA. LEEways: tales of EPEC, ATEC and EHEC. Cell Microbiol 2010;12:1544-52.
21. Itoh Y, Nagano I, Kunishima M, Ezaki T. Laboratory investigation of enteroaggregative Escherichia coli O untypeable:H10 associated with a massive outbreak of gastrointestinal illness. J Clin Microbiol 1997;35:2546-50. (Pubitemid 27402658)