Complete genome sequence of the epidemic and highly virulent CTX-M-15-producing H30-Rx subclone of Escherichia coli ST131

Genome Announcements

Volumn 1, Issue 6, 2013, Pages

  Andersen, Paal S ^a,b   Stegger, Marc ^a,b   Aziz, Maliha ^b   Contente Cuomo, Tania ^b   Gibbons, Henry S ^c   Keim, Paul ^b,d   Sokurenko, Evgeni V ^e   Johnson, James R ^f   Price, Lance B ^b,g  

^a STATENS SERUM INSTITUT   (Denmark)

^b TRANSLATIONAL GENOMICS RESEARCH INSTITUTE   (United States)

^c EDGEWOOD CHEMICAL BIOLOGICAL CENTER   (United States)

^d NORTHERN ARIZONA UNIVERSITY   (United States)

^e UNIVERSITY OF WASHINGTON SCHOOL OF MEDICINE   (United States)

^f UNIVERSITY OF MINNESOTA   (United States)

^g GEORGE WASHINGTON UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84999723822     PISSN: None     EISSN: 21698287     Source Type: Journal    
DOI: 10.1128/genomeA.00988-13     Document Type: Article

References (17)

1. Johnson JR, Johnston B, Clabots C, Kuskowski MA, Castanheira M. 2010 Escherichia coli sequence type ST131 as the major cause of serious multidrug-resistant E. coli infections in the United States. Clin. Infect. Dis. 51:286-294.
2. Johnson JR, Tchesnokova V, Johnston B, Clabots C, Roberts PL, Billig M, Riddell K, Rogers P, Qin X, Butler-Wu S, Price LB, Aziz M, Nicolas-Chanoine MH, Debroy C, Robicsek A, Hansen G, Urban C, Platell J, Trott DJ, Zhanel G, Weissman SJ, Cookson BT, Fang FC, Limaye AP, Scholes D, Chattopadhyay S, Hooper DC, Sokurenko EV. 2013 Abrupt emergence of a single dominant multidrug-resistant strain of Escherichia coli. J. Infect. Dis. 207:919-928.
3. Coque TM, Novais A, Carattoli A, Poirel L, Pitout J, Peixe L, Baquero F, Cantón R, Nordmann P. 2008. Dissemination of clonally related Escherichia coli strains expressing extended-spectrum beta-lactamase CTX-M-15. Emerg. Infect. Dis. 14:195-200.
4. Nicolas-Chanoine MH, Blanco J, Leflon-Guibout V, Demarty R, Alonso MP, Caniça MM, Park YJ, Lavigne JP, Pitout J, Johnson JR. 2008. Intercontinental emergence of Escherichia coli clone O25:H4-ST131 producing CTX-M-15. J. Antimicrob. Chemother. 61:273-281.
5. Peirano G, Pitout JD. 2010. Molecular epidemiology of Escherichia coli producing CTX-M beta-lactamases: the worldwide emergence of clone ST131 O25:H4. Int. J. Antimicrob. Agents 35:316-321.
6. Price LB, Aziz M, Clabots C, Johnston B, Tchesnokova V, Nordstrom L, Pearson T, Stegger M, Andersen PS, Keim P, Sokurenko EV, Johnson JR. Epidemic clonal expansion of CTX-M-15-producing Escherichia coli ST131. mBio, in press.
7. Owens RC, Jr, Johnson JR, Stogsdill P, Yarmus L, Lolans K, Quinn J. 2011 Community transmission in the United States of a CTX-M-15-producing sequence type ST131 Escherichia coli strain resulting in death. J. Clin. Microbiol. 49:3406-3408.
8. Koren S, Schatz MC, Walenz BP, Martin J, Howard JT, Ganapathy G, Wang Z, Rasko DA, McCombie WR, Jarvis ED, Phillippy AM. 2012. Hybrid error correction and de novo assembly of single-molecule sequencing reads. Nat. Biotechnol. 30:693-700.
9. Chevreux B, Wetter T, Suhai S. 1999. Genome sequence assembly using trace signals and additional sequence information, p 45-56. In Computer science and biology: proceedings of the German Conference on Bioinformatics (GCB). Hannover, Germany.
10. Simpson JT, Wong K, Jackman SD, Schein JE, Jones SJ, Birol I. 2009. ABySS: a parallel assembler for short read sequence data. Genome Res. 19: 1117-1123.
11. English AC, Richards S, Han Y, Wang M, Vee V, Qu J, Qin X, Muzny DM, Reid JG, Worley KC, Gibbs RA. 2012. Mind the gap: upgrading genomes with Pacific Biosciences RS long-read sequencing technology. PLoS One 7:e47768. doi:10.1371/journal.pone.0047768.
12. Swain MT, Tsai IJ, Assefa SA, Newbold C, Berriman M, Otto TD. 2012. A post-assembly genome-improvement toolkit (PAGIT) to obtain annotated genomes from contigs. Nat. Protoc. 7:1260-1284.
13. Aziz RK, Bartels D, Best AA, DeJongh M, Disz T, Edwards RA, Formsma K, Gerdes S, Glass EM, Kubal M, Meyer F, Olsen GJ, Olson R, Osterman AL, Overbeek RA, McNeil LK, Paarmann D, Paczian T, Parrello B, Pusch GD, Reich C, Stevens R, Vassieva O, Vonstein V, Wilke A, Zagnitko O. 2008. The RAST server: rapid annotations using Subsystems Technology. BMC Genomics 9:75.
14. Zankari E, Hasman H, Cosentino S, Vestergaard M, Rasmussen S, Lund O, Aarestrup FM, Larsen MV. 2012. Identification of acquired antimicrobial resistance genes. J. Antimicrob. Chemother. 67:2640-2644.
15. Zhou Y, Liang Y, Lynch KH, Dennis JJ, Wishart DS. 2011. PHAST: a fast phage search tool. Nucleic Acids Res. 39:W347-W352.
16. Avasthi TS, Kumar N, Baddam R, Hussain A, Nandanwar N, Jadhav S, Ahmed N. 2011. Genome of multidrug-resistant uropathogenic Escherichia coli strain NA114 from India. J. Bacteriol. 193:4272-4273.
17. Smet A, Van Nieuwerburgh F, Vandekerckhove TT, Martel A, Deforce D, Butaye P, Haesebrouck F. 2010. Complete nucleotide sequence of CTX-M-15-plasmids from clinical Escherichia coli isolates: insertional events of transposons and insertion sequences. PLoS One 5:e11202. doi:10.1371/journal.pone.0011202.