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Items: 37

1.

In the fast lane: large-scale bacterial genome engineering.

Fehér T, Burland V, Pósfai G.

J Biotechnol. 2012 Jul 31;160(1-2):72-9. doi: 10.1016/j.jbiotec.2012.02.012. Epub 2012 Mar 1. Review.

PMID:
22406111
2.

The complete genome sequence of Escherichia coli DH10B: insights into the biology of a laboratory workhorse.

Durfee T, Nelson R, Baldwin S, Plunkett G 3rd, Burland V, Mau B, Petrosino JF, Qin X, Muzny DM, Ayele M, Gibbs RA, Csörgo B, Pósfai G, Weinstock GM, Blattner FR.

J Bacteriol. 2008 Apr;190(7):2597-606. doi: 10.1128/JB.01695-07. Epub 2008 Feb 1.

3.

Enteropathogen Resource Integration Center (ERIC): bioinformatics support for research on biodefense-relevant enterobacteria.

Glasner JD, Plunkett G 3rd, Anderson BD, Baumler DJ, Biehl BS, Burland V, Cabot EL, Darling AE, Mau B, Neeno-Eckwall EC, Pot D, Qiu Y, Rissman AI, Worzella S, Zaremba S, Fedorko J, Hampton T, Liss P, Rusch M, Shaker M, Shaull L, Shetty P, Thotakura S, Whitmore J, Blattner FR, Greene JM, Perna NT.

Nucleic Acids Res. 2008 Jan;36(Database issue):D519-23. Epub 2007 Nov 13.

4.

A new asset for pathogen informatics--the Enteropathogen Resource Integration Center (ERIC), an NIAID Bioinformatics Resource Center for Biodefense and Emerging/Re-emerging Infectious Disease.

Greene JM, Plunkett G 3rd, Burland V, Glasner J, Cabot E, Anderson B, Neeno-Eckwall E, Qiu Y, Mau B, Rusch M, Liss P, Hampton T, Pot D, Shaker M, Shaull L, Shetty P, Shi C, Whitmore J, Wong M, Zaremba S, Blattner FR, Perna NT.

Adv Exp Med Biol. 2007;603:28-42.

PMID:
17966403
5.

Nucleotide sequence analysis of the enteropathogenic Escherichia coli adherence factor plasmid pMAR7.

Brinkley C, Burland V, Keller R, Rose DJ, Boutin AT, Klink SA, Blattner FR, Kaper JB.

Infect Immun. 2006 Sep;74(9):5408-13.

6.

Emergent properties of reduced-genome Escherichia coli.

Pósfai G, Plunkett G 3rd, Fehér T, Frisch D, Keil GM, Umenhoffer K, Kolisnychenko V, Stahl B, Sharma SS, de Arruda M, Burland V, Harcum SW, Blattner FR.

Science. 2006 May 19;312(5776):1044-6. Epub 2006 Apr 27.

7.

Single-molecule approach to bacterial genomic comparisons via optical mapping.

Zhou S, Kile A, Bechner M, Place M, Kvikstad E, Deng W, Wei J, Severin J, Runnheim R, Churas C, Forrest D, Dimalanta ET, Lamers C, Burland V, Blattner FR, Schwartz DC.

J Bacteriol. 2004 Nov;186(22):7773-82.

8.

Identification and characterization of a novel uropathogenic Escherichia coli-associated fimbrial gene cluster.

Buckles EL, Bahrani-Mougeot FK, Molina A, Lockatell CV, Johnson DE, Drachenberg CB, Burland V, Blattner FR, Donnenberg MS.

Infect Immun. 2004 Jul;72(7):3890-901.

9.

The export of coat protein from enteroaggregative Escherichia coli by a specific ATP-binding cassette transporter system.

Nishi J, Sheikh J, Mizuguchi K, Luisi B, Burland V, Boutin A, Rose DJ, Blattner FR, Nataro JP.

J Biol Chem. 2003 Nov 14;278(46):45680-9. Epub 2003 Aug 21.

10.

Complete genome sequence and comparative genomics of Shigella flexneri serotype 2a strain 2457T.

Wei J, Goldberg MB, Burland V, Venkatesan MM, Deng W, Fournier G, Mayhew GF, Plunkett G 3rd, Rose DJ, Darling A, Mau B, Perna NT, Payne SM, Runyen-Janecky LJ, Zhou S, Schwartz DC, Blattner FR.

Infect Immun. 2003 May;71(5):2775-86. Erratum in: Infect Immun. 2003 Jul;71(7):4223.

11.

Comparative genomics of Salmonella enterica serovar Typhi strains Ty2 and CT18.

Deng W, Liou SR, Plunkett G 3rd, Mayhew GF, Rose DJ, Burland V, Kodoyianni V, Schwartz DC, Blattner FR.

J Bacteriol. 2003 Apr;185(7):2330-7.

12.

Extensive mosaic structure revealed by the complete genome sequence of uropathogenic Escherichia coli.

Welch RA, Burland V, Plunkett G 3rd, Redford P, Roesch P, Rasko D, Buckles EL, Liou SR, Boutin A, Hackett J, Stroud D, Mayhew GF, Rose DJ, Zhou S, Schwartz DC, Perna NT, Mobley HL, Donnenberg MS, Blattner FR.

Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):17020-4. Epub 2002 Dec 5.

13.

A whole-genome shotgun optical map of Yersinia pestis strain KIM.

Zhou S, Deng W, Anantharaman TS, Lim A, Dimalanta ET, Wang J, Wu T, Chunhong T, Creighton R, Kile A, Kvikstad E, Bechner M, Yen G, Garic-Stankovic A, Severin J, Forrest D, Runnheim R, Churas C, Lamers C, Perna NT, Burland V, Blattner FR, Mishra B, Schwartz DC.

Appl Environ Microbiol. 2002 Dec;68(12):6321-31.

14.

Identification and characterization of lpfABCC'DE, a fimbrial operon of enterohemorrhagic Escherichia coli O157:H7.

Torres AG, Giron JA, Perna NT, Burland V, Blattner FR, Avelino-Flores F, Kaper JB.

Infect Immun. 2002 Oct;70(10):5416-27.

15.

Characterization of Cah, a calcium-binding and heat-extractable autotransporter protein of enterohaemorrhagic Escherichia coli.

Torres AG, Perna NT, Burland V, Ruknudin A, Blattner FR, Kaper JB.

Mol Microbiol. 2002 Aug;45(4):951-66.

16.

Genome sequence of Yersinia pestis KIM.

Deng W, Burland V, Plunkett G 3rd, Boutin A, Mayhew GF, Liss P, Perna NT, Rose DJ, Mau B, Zhou S, Schwartz DC, Fetherston JD, Lindler LE, Brubaker RR, Plano GV, Straley SC, McDonough KA, Nilles ML, Matson JS, Blattner FR, Perry RD.

J Bacteriol. 2002 Aug;184(16):4601-11.

17.

Shotgun optical maps of the whole Escherichia coli O157:H7 genome.

Lim A, Dimalanta ET, Potamousis KD, Yen G, Apodoca J, Tao C, Lin J, Qi R, Skiadas J, Ramanathan A, Perna NT, Plunkett G 3rd, Burland V, Mau B, Hackett J, Blattner FR, Anantharaman TS, Mishra B, Schwartz DC.

Genome Res. 2001 Sep;11(9):1584-93.

18.

Complete DNA sequence and analysis of the large virulence plasmid of Shigella flexneri.

Venkatesan MM, Goldberg MB, Rose DJ, Grotbeck EJ, Burland V, Blattner FR.

Infect Immun. 2001 May;69(5):3271-85.

19.

Genome sequence of enterohaemorrhagic Escherichia coli O157:H7.

Perna NT, Plunkett G 3rd, Burland V, Mau B, Glasner JD, Rose DJ, Mayhew GF, Evans PS, Gregor J, Kirkpatrick HA, Pósfai G, Hackett J, Klink S, Boutin A, Shao Y, Miller L, Grotbeck EJ, Davis NW, Lim A, Dimalanta ET, Potamousis KD, Apodaca J, Anantharaman TS, Lin J, Yen G, Schwartz DC, Welch RA, Blattner FR.

Nature. 2001 Jan 25;409(6819):529-33. Erratum in: Nature 2001 Mar 8;410(6825):240.

PMID:
11206551
20.

A genomic sample sequence of the entomopathogenic bacterium Photorhabdus luminescens W14: potential implications for virulence.

Ffrench-Constant RH, Waterfield N, Burland V, Perna NT, Daborn PJ, Bowen D, Blattner FR.

Appl Environ Microbiol. 2000 Aug;66(8):3310-29.

21.

Analysis of the complete nucleotide sequence of the tetracycline-resistance transposon Tn10.

Lawley TD, Burland V, Taylor DE.

Plasmid. 2000 May;43(3):235-9.

PMID:
10783303
22.

The complete DNA sequence and analysis of R27, a large IncHI plasmid from Salmonella typhi that is temperature sensitive for transfer.

Sherburne CK, Lawley TD, Gilmour MW, Blattner FR, Burland V, Grotbeck E, Rose DJ, Taylor DE.

Nucleic Acids Res. 2000 May 15;28(10):2177-86.

23.

Use of a DNA toolbox for the characterization of mutation scanning methods. I: construction of the toolbox and evaluation of heteroduplex analysis.

Highsmith WE Jr, Jin Q, Nataraj AJ, O'Connor JM, Burland VD, Baubonis WR, Curtis FP, Kusukawa N, Garner MM.

Electrophoresis. 1999 Jun;20(6):1186-94.

PMID:
10380758
24.

Subdivision of the Escherichia coli K-12 genome for sequencing: manipulation and DNA sequence of transposable elements introducing unique restriction sites.

Mahillon J, Kirkpatrick HA, Kijenski HL, Bloch CA, Rode CK, Mayhew GF, Rose DJ, Plunkett G 3rd, Burland V, Blattner FR.

Gene. 1998 Nov 26;223(1-2):47-54.

PMID:
9858680
25.

Complete DNA sequence and detailed analysis of the Yersinia pestis KIM5 plasmid encoding murine toxin and capsular antigen.

Lindler LE, Plano GV, Burland V, Mayhew GF, Blattner FR.

Infect Immun. 1998 Dec;66(12):5731-42.

26.

The complete DNA sequence and analysis of the large virulence plasmid of Escherichia coli O157:H7.

Burland V, Shao Y, Perna NT, Plunkett G, Sofia HJ, Blattner FR.

Nucleic Acids Res. 1998 Sep 15;26(18):4196-204.

27.

Long PCR facilitates concise cloning and sequencing with a minimal tiling set of templates.

Burland V, Kusukawa N.

Biotechniques. 1997 Dec;23(6):1070-2, 1074-5.

28.

The complete genome sequence of Escherichia coli K-12.

Blattner FR, Plunkett G 3rd, Bloch CA, Perna NT, Burland V, Riley M, Collado-Vides J, Glasner JD, Rode CK, Mayhew GF, Gregor J, Davis NW, Kirkpatrick HA, Goeden MA, Rose DJ, Mau B, Shao Y.

Science. 1997 Sep 5;277(5331):1453-62.

PMID:
9278503
29.

Agarose gel analysis of 15-40-kb PCR amplimers.

Burland V, Curtis FP, Kusukawa N.

Biotechniques. 1996 Jul;21(1):142-4.

30.

Analysis of the Escherichia coli genome VI: DNA sequence of the region from 92.8 through 100 minutes.

Burland V, Plunkett G 3rd, Sofia HJ, Daniels DL, Blattner FR.

Nucleic Acids Res. 1995 Jun 25;23(12):2105-19.

31.

Analysis of the Escherichia coli genome. V. DNA sequence of the region from 76.0 to 81.5 minutes.

Sofia HJ, Burland V, Daniels DL, Plunkett G 3rd, Blattner FR.

Nucleic Acids Res. 1994 Jul 11;22(13):2576-86.

32.

Sequence analysis of four new heat-shock genes constituting the hslTS/ibpAB and hslVU operons in Escherichia coli.

Chuang SE, Burland V, Plunkett G 3rd, Daniels DL, Blattner FR.

Gene. 1993 Nov 30;134(1):1-6.

PMID:
8244018
33.

Analysis of the Escherichia coli genome. IV. DNA sequence of the region from 89.2 to 92.8 minutes.

Blattner FR, Burland V, Plunkett G 3rd, Sofia HJ, Daniels DL.

Nucleic Acids Res. 1993 Nov 25;21(23):5408-17.

34.

Analysis of the Escherichia coli genome. III. DNA sequence of the region from 87.2 to 89.2 minutes.

Plunkett G 3rd, Burland V, Daniels DL, Blattner FR.

Nucleic Acids Res. 1993 Jul 25;21(15):3391-8.

35.

Genome sequencing on both strands: the Janus strategy.

Burland V, Daniels DL, Plunkett G 3rd, Blattner FR.

Nucleic Acids Res. 1993 Jul 25;21(15):3385-90.

36.
37.

Analysis of the Escherichia coli genome: DNA sequence of the region from 84.5 to 86.5 minutes.

Daniels DL, Plunkett G 3rd, Burland V, Blattner FR.

Science. 1992 Aug 7;257(5071):771-8.

PMID:
1379743

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