Epidemic population structure of extraintestinal pathogenic Escherichia coli determined by single nucleotide polymorphism pyrosequencing

被引：3

作者：

Fernandez-Romero, Natalia ^{[1
]}

Pilar Romero-Gomez, Maria ^{[1
]}

Rosa Gomez-Gil, Maria ^{[1
]}

Mingorance, Jesus ^{[1
]}

机构：

[1] Hosp Univ La Paz, Microbiol Serv, IdiPAZ, Madrid 28046, Spain

来源：

INFECTION GENETICS AND EVOLUTION | 2011年 / 11卷 / 07期

关键词：

Bacterial population structure; SNP; MLST; Escherichia coli; Bacteremia; Urinary tract infection; VIRULENCE; COMMENSAL; GENETICS; STRAINS; IDENTIFICATION; INTERROGATION; PHYLOGENY; EVOLUTION; EBURST; COMMON;

D O I：

10.1016/j.meegid.2011.06.010

中图分类号：

R51 [传染病];

学科分类号：

100401 ;

摘要：

We have developed an MLST-based scheme for typing Escherichia coli isolates using pyrosequencing of single nucleotide polymorphic positions (SNP). The SNP sequences are converted into allelic patterns and analyzed using the same approach used for MLST analyses. We have tested the method in two unselected collections of clinical isolates of E. coli obtained from blood and urine cultures. The two collections had a similar structure, 25% of the profiles (representing 68% of the isolates) were common to both, and 62% of the profiles (nearly 20% of the isolates) were unique. The four major profiles accounted for 44% of the isolates, and among these the most frequent one was related to the pandemic ST131 clone. The method is easy to implement and might be useful for typing large microbial collections. (C) 2011 Elsevier B.V. All rights reserved.

引用

页码：1655 / 1663

页数：9

共 42 条

[31] Identification and interrogation of highly informative single nucleotide polymorphism sets defined by bacterial multilocus sequence typing databases [J].

Robertson, GA ;

Thiruvenkataswamy, V ;

Shilling, H ;

Price, EP ;

Huygens, F ;

Henskens, FA ;

Giffard, PM .

JOURNAL OF MEDICAL MICROBIOLOGY, 2004, 53 (01) :35-45

[32] Escherichia coli O25b-ST131: a pandemic, multiresistant, community-associated strain [J].

Rogers, Benjamin A. ;

Sidjabat, Hanna E. ;

Paterson, David L. .

JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY, 2011, 66 (01) :1-14

[33] Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities [J].

Schloss, Patrick D. ;

Westcott, Sarah L. ;

Ryabin, Thomas ;

Hall, Justine R. ;

Hartmann, Martin ;

Hollister, Emily B. ;

Lesniewski, Ryan A. ;

Oakley, Brian B. ;

Parks, Donovan H. ;

Robinson, Courtney J. ;

Sahl, Jason W. ;

Stres, Blaz ;

Thallinger, Gerhard G. ;

Van Horn, David J. ;

Weber, Carolyn F. .

APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 2009, 75 (23) :7537-7541

[34]

Selander R.K., 1987, ESCHERICHIA COLI SAL, P1625

[35] Highly Discriminatory Single-Nucleotide Polymorphism Interrogation of Escherichia coli by Use of Allele-Specific Real-Time PCR and eBURST Analysis [J].

Sheludchenko, Maxim S. ;

Huygens, Flavia ;

Hargreaves, Megan H. .

APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 2010, 76 (13) :4337-4345

[36] HOW CLONAL ARE BACTERIA [J].

SMITH, JM ;

SMITH, NH ;

OROURKE, M ;

SPRATT, BG .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1993, 90 (10) :4384-4388

[37] A multiplex single nucleotide polymorphism typing assay for detecting mutations that result in decreased fluoroquinolone susceptibility in Salmonella enterica serovars Typhi and Paratyphi A [J].

Song, Yajun ;

Roumagnac, Philippe ;

Weill, Francois-Xavier ;

Wain, John ;

Dolecek, Christiane ;

Mazzoni, Camila J. ;

Holt, Kathryn E. ;

Achtman, Mark .

JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY, 2010, 65 (08) :1631-1641

[38] MEGA4: Molecular evolutionary genetics analysis (MEGA) software version 4.0 [J].

Tamura, Koichiro ;

Dudley, Joel ;

Nei, Masatoshi ;

Kumar, Sudhir .

MOLECULAR BIOLOGY AND EVOLUTION, 2007, 24 (08) :1596-1599

[39] The population genetics of commensal Escherichia coli [J].

Tenaillon, Olivier ;

Skurnik, David ;

Picard, Bertrand ;

Denamur, Erick .

NATURE REVIEWS MICROBIOLOGY, 2010, 8 (03) :207-217

[40] Organised Genome Dynamics in the Escherichia coli Species Results in Highly Diverse Adaptive Paths [J].

Touchon, Marie ;

Hoede, Claire ;

Tenaillon, Olivier ;

Barbe, Valerie ;

Baeriswyl, Simon ;

Bidet, Philippe ;

Bingen, Edouard ;

Bonacorsi, Stephane ;

Bouchier, Christiane ;

Bouvet, Odile ;

Calteau, Alexandra ;

Chiapello, Helene ;

Clermont, Olivier ;

Cruveiller, Stephane ;

Danchin, Antoine ;

Diard, Mederic ;

Dossat, Carole ;

El Karoui, Meriem ;

Frapy, Eric ;

Garry, Louis ;

Ghigo, Jean Marc ;

Gilles, Anne Marie ;

Johnson, James ;

Le Bouguenec, Chantal ;

Lescat, Mathilde ;

Mangenot, Sophie ;

Martinez-Jehanne, Vanessa ;

Matic, Ivan ;

Nassif, Xavier ;

Oztas, Sophie ;

Petit, Marie Agnes ;

Pichon, Christophe ;

Rouy, Zoe ;

Saint Ruf, Claude ;

Schneider, Dominique ;

Tourret, Jerome ;

Vacherie, Benoit ;

Vallenet, David ;

Medigue, Claudine ;

Rocha, Eduardo P. C. ;

Denamur, Erick .

PLOS GENETICS, 2009, 5 (01)

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