Frederick R. Blattner

Oliver Smithies Professor of Genetics, Emeritus
University of Wisconsin–Madison

  • B.Sc. (Physics), Oberlin College, 1962
  • Ph.D. (Biophysics), The Johns Hopkins University, 1968
  • Postdoctoral Research: Harvard Medical School
  • Postdoctoral Research: McArdle Laboratory for Cancer Research, University of Wisconsin

Lab Home Page



Frederick Blattner  
Scarab Genomics, LLC
1202 Ann Street
Madison, WI 53713


Research Description

Genomics, gene regulation, bacteria, bioinformatics, DNA chips, genome engineering

One of the early leaders of the genomics revolution, Fred Blattner was the first to propose sequencing the entire genome of an organism. After accomplishing that, sequencing the genome of Escherichia coli K-12, his lab turned to large scale functional genomics of E. coli through DNA chip analysis of global gene expression, and by phenotypic analysis of conditional knock-out mutations.

Interested in hypothesis-driven comparative and evolutionary genomics, the lab sequenced the genomes of several pathogens related to E. coli K-12. The first strain selected for comparison was the infamous O157:H7 “hamburger strain” of E. coli, followed by a uropathogenic strain of E. coli and a strain causing neonatal sepsis and meningitis. They also sequenced Yersinia pestis (plague), Shigella flexneri (dysentary), and Salmonella Typhi (typhoid fever). It turns out that many virulence determinants of the different pathogens are similar, allowing identification of a “pathosphere” of virulence genes that make up the pathogenic potential of these bacteria.

Other interests include bioinformatics, technology development, and genetic engineering/re-engineering of bacterial genomes. Dr. Blattner retired from the university in July, 2011, but remains active at the helm of two companies he founded. DNASTAR, Inc., established in 1984, develops bioinformatics software for scientists to analyze DNA sequences, gene expression, protein structure, and more. Scarab Genomics, LLC was established in 2002 to commercialize the reduced genome technology arising from research in his campus lab. A third company, NimbleGen Systems, was created in 1999 based on the work of Blattner, UW scientists Franco Cerrina and Michael Sussman, and then-graduate student Roland Green. The company developed a faster, less-expensive way to make gene chips and was sold to Swiss pharmaceutical giant Roche in 2007.

Representative Publications

Search PubMed for more publications by Frederick Blattner
  1. Z. Lipinszki, V. Vernyik, N. Farago, T. Sari, L. G. Puskas, F. R. Blattner, G. Pósfai, & Z. Györfy (2018) Enhancing the translational capacity of E. coli by resolving the codon bias. ACS Synth Biol 7(11):2656-2664. Epub 2018 Nov 2. [PubMed]
  2. I. Karcagi, G. Draskovits, K. Umenhoffer, G. Fekete, K. Kovács, O. Méhi, G. Balikó, B. Szappanos, Z. Györfy, T. Fehér, B. Bogos, F. R. Blattner, C. Pál, G. Pósfai, & B. Papp (2016) Indispensability of horizontally transferred genes and its impact on bacterial genome streamlining. Mol Biol Evol 33(5):1257-1269. Epub 2016 Jan 14. [PubMed]
  3. Z. Györfy, G. Draskovits, V. Vernyik, F. R. Blattner, T. Gaal, & G. Pósfai (2015) Engineered ribosomal RNA operon copy-number variants of E. coli reveal the evolutionary trade-offs shaping rRNA operon number. Nucleic Acids Res 43(3):1783-1794. Epub 2015 Jan 23. [PubMed]
  4. T. Fehér, I. Karcagi, F. R. Blattner, & G. Pósfai (2012) Bacteriophage recombineering in the lytic state using the lambda red recombinases. Microb Biotechnol 5(4):466-476. Epub 2011 Sep 13. [PubMed]
  5. S. Förster, M. Brandt, D. S. Mottok, A. Zschüttig, K. Zimmermann, F. R. Blattner, F. Gunzer, & C. Pöhlmann (2013) Secretory expression of biologically active human Herpes virus interleukin-10 analogues in Escherichia coli via a modified Sec-dependent transporter construct. BMC Biotechnol 13, article number 82. [PubMed].
  6. Csörgo, T. Fehér, E. Tímár, F. R. Blattner, & G. Pósfai (2012) Low-mutation-rate, reduced-genome Escherichia coli: an improved host for faithful maintenance of engineered genetic constructs. Microb Cell Fact 11, article number 11. [PubMed]
  7. C. Pöhlmann, M. Brandt, D. S. Mottok, A. Zschüttig, J. W. Campbell, F. R. Blattner, D. Frisch, & F. Gunzer (2012) Periplasmic delivery of biologically active human interleukin-10 in Escherichia coli via a sec-dependent signal peptide. J Mol Microbiol Biotechnol 22(1):1-9. Epub Feb 21. [PubMed]
  8. K. Umenhoffer, T. Fehér, G. Balikó, F. Ayaydin, J. Pósfai, F. R. Blattner, & G. Pósfai (2010) Reduced evolvability of Escherichia coli MDS42, an IS-less cellular chassis for molecular and synthetic biology applications. Microb Cell Fact 9, article number 38. [PubMed]
  9. J. H. Lee, B. H. Sung, M. S. Kim, F. R. Blattner, B. H. Yoon, J. H. Kim, & S. C. Kim (2009) Metabolic engineering of a reduced-genome strain of Escherichia coli for L-threonine production. Microb Cell Fact 8, article number 2. [PubMed]
  10. T. Durfee, A. M. Hansen, H. Zhi, F. R. Blattner, & D. J. Jin (2008) Transcription profiling of the stringent response in Escherichia coli. J Bacteriol 190(3):1084-1096. Epub 2007 Nov 26. [PubMed]
  11. T. Durfee, R. Nelson, S. Baldwin, G. Plunkett III, V. Burland, B. Mau, J. F. Petrosino, X. Qin, D. M. Muzny, M. Ayele, R. A. Gibbs, B. Csörgo, G. Pósfai, G. M. Weinstock, & F. R. Blattner (2008) The complete genome sequence of Escherichia coli DH10B: insights into the biology of a laboratory workhorse. J Bacteriol 190(7):2597-2606. Epub 2008 Feb 1. [PubMed]
  12. J. D. Glasner, G. Plunkett III, B. D. Anderson, D. J. Baumler, B. S. Biehl, V. Burland, E. L. Cabot, A. E. Darling, B. Mau, E. C. Neeno-Eckwall, D. Pot, Y. Qiu, A. I. Rissman, S. Worzella, S. Zaremba, J. Fedorko, T. Hampton, P. Liss, M. Rusch, M. Shaker, L. Shaull, P. Shetty, S. Thotakura, J. Whitmore, F. R. Blattner, J. M. Greene, & N. T. Perna (2008) Enteropathogen Resource Integration Center (ERIC): bioinformatics support for research on biodefense-relevant enterobacteria. Nucleic Acids Res 36(Database issue):D519-523. Epub 2007 Nov 13. [PubMed]
  13. J. M. Greene, G. Plunkett III, V. Burland, J. Glasner, E. Cabot, B. Anderson, E. Neeno-Eckwall, Y. Qiu, B. Mau, M. Rusch, P. Liss, T. Hampton, D. Pot, M. Shaker, L. Shaull, P. Shetty, C. Shi, J. Whitmore, M. Wong, S. Zaremba, F. R. Blattner, & N. T. Perna (2007) 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. Adv Exp Med Biol 603:28-42. [PubMed]
  14. M. R. King, R. P. Vimr, S. M. Steenbergen, L. Spanjaard, G. Plunkett III, F. R. Blattner, & E. R. Vimr (2007) Escherichia coli K1-specific bacteriophage CUS-3 distribution and function in phase-variable capsular polysialic acid O acetylation. J Bacteriol 189(17):6447-6456. Epub 2007 Jun 29. [PubMed]
  15. S. S. Sharma, J. W. Campbell, D. Frisch, F. R. Blattner, & S. W. Harcum (2007) Expression of two recombinant chloramphenicol acetyltransferase variants in highly reduced genome Escherichia coli strains. Biotechnol Bioeng 98(5):1056-1070. [PubMed]
  16. S. S. Sharma, F. R. Blattner, & S. W. Harcum (2007) Recombinant protein production in an Escherichia coli reduced genome strain. Metab Eng 9(2):133-141. Epub 2006 Oct 21. [PubMed]
  17. Y. Xie, V. Kolisnychenko, M. Paul-Satyaseela, S. Elliott, G. Parthasarathy, Y. Yao, G. Plunkett 3rd, F. R. Blattner, & K. S. Kim (2006) Identification and characterization of Escherichia coli RS218-derived islands in the pathogenesis of E. coli meningitis. J Infect Dis 194(3):358-364. Epub 2006 Jun 30. [PubMed]
  18. G. Posfai, G. Plunkett III, T. Feher, D. Frisch, G. M. Keil, K. Umenhoffer, V. Kolisnychenko, B. Stahl, S. S. Sharma, M. de Arruda, V. Burland, S. W. Harcum, & F. R. Blattner (2006) Emergent properties of reduced-genome Escherichia coli. Science 312(5776):1044-1046. Epub 2006 Apr 27. [PubMed]
  19. M. Riley, T. Abe, M. B. Arnaud, M. K. Berlyn, F. R. Blattner, R. R. Chaudhuri, J. D. Glasner, T. Horiuchi, I. M. Keseler, T. Kosuge, H. Mori, N. T. Perna, G. Plunkett III, K. E. Rudd, M. H. Serres, G. H. Thomas, N. R. Thomson, D. Wishart, & B. L. Wanner (2006) Escherichia coli K-12: a cooperatively developed annotation snapshot--2005. Nucleic Acids Res 34(1):1-9. [PubMed]
  20. C. D. Herring, A. Raghunathan, C. Honisch, T. Patel, M. K. Applebee, A. R. Joyce, T. J. Albert, F. R. Blattner, D. van den Boom, C. R. Cantor, & B. Ø. Palsson (2006) Comparative genome sequencing of Escherichia coli allows observation of bacterial evolution on a laboratory timescale. Nat Genet 38(12):1406-1412. Epub 2006 Nov 5. [PubMed]
  21. J. P. Novak, S. Y. Kim, J. Xu, O. Modlich, D. J. Volsky, D. Honys, J. L. Slonczewski, D. A. Bell, F. R. Blattner, E. Blumwald, M. Boerma, M. Cosio, Z. Gatalica, M. Hajduch, J. Hidalgo, R. R. McInnes, M. C. Miller III, M. Penkowa, M. S. Rolph, J. Sottosanto, R. St-Arnaud, M. J. Szego, D. Twell, & C. Wang (2006) Generalization of DNA microarray dispersion properties: microarray equivalent of t-distribution. Biol Direct 1, article number 27. [PubMed]
  22. C. Brinkley, V. Burland, R. Keller, D. J. Rose, A. T. Boutin, S. A. Klink, F. R. Blattner, & J. B. Kaper (2006) Nucleotide sequence analysis of the enteropathogenic Escherichia coli adherence factor plasmid pMAR7. Infect Immun 74(9):5408-5413. [PubMed]
  23. J. L. Giel, D. Rodionov, M. Liu, F. R. Blattner, & P. J. Kiley (2006) IscR-dependent gene expression links iron-sulphur cluster assembly to the control of O2-regulated genes in Escherichia coli. Mol Microbiol 60(4):1058-1075. [PubMed]
  24. B. H. Sung, C. H. Lee, B. J. Yu, J. H. Lee, J. Y. Lee, M. S. Kim, F. R. Blattner, & S. C. Kim (2006) Development of a biofilm production-deficient Escherichia coli strain as a host for biotechnological applications. Appl Environ Microbiol 72(5):3336-3342. [PubMed]
  25. S.S. Fong, A. P. Burgard, C. D. Herring, E. M. Knight, F. R. Blattner, C. D. Maranas, & B. Ø. Palsson (2005) In silico design and adaptive evolution of Escherichia coli for production of lactic acid. Biotechnol Bioeng 91(5):643-648. [PubMed]
  26. A. M. Hansen, Y. Qiu, N. Yeh, F. R. Blattner, T. Durfee, & D. J. Jin (2005) SspA is required for acid resistance in stationary phase by downregulation of H-NS in Escherichia coli. Mol Microbiol 56(3):719-734. [PubMed]
  27. M. Liu, T. Durfee, J. E. Cabrera, K. Zhao, D. J. Jin, & F. R. Blattner (2005) Global transcriptional programs reveal a carbon source foraging strategy by Escherichia coli. J Biol Chem 280(16):15921-15927. Epub 2005 Feb 10. [PubMed]
  28. Y. Kang, K. D. Weber, Y. Qiu, P. J. Kiley, & F. R. Blattner (2005) Genome-wide expression analysis indicates that FNR of Escherichia coli K-12 regulates a large number of genes of unknown function. J Bacteriol 187(3):1135-1160. [PubMed]
  29. S. Zhou, A. Kile, M. Bechner, M. Place, E. Kvikstad, W. Deng, J. Wei, J. Severin, R. Runnheim, C. Churas, D. Forrest, E. T. Dimalanta, C. Lamers, V. Burland, F. R. Blattner, & D. C. Schwartz (2004) Single-molecule approach to bacterial genomic comparisons via optical mapping. J Bacteriol 186(22):7773-7782. [PubMed]
  30. C. D. Herring & F. R. Blattner (2004) Global transcriptional effects of a suppressor tRNA and the inactivation of the regulator frmR. J Bacteriol 186(20):6714-6720. [PubMed]
  31. Y. Kang, T. Durfee, J. D. Glasner, Y. Qiu, D. Frisch, K. M. Winterberg, & F. R. Blattner (2004) Systematic mutagenesis of the Escherichia coli genome. J Bacteriol 186(15):4921-4930. Erratum in: J Bacteriol 186(24):8548. [PubMed]
  32. A. C. Darling, B. Mau, F. R. Blattner, & N. T. Perna (2004) Mauve: multiple alignment of conserved genomic sequence with rearrangements. Genome Res 14(7):1394-1403. [PubMed]
  33. E. L. Buckles, F. K. Bahrani-Mougeot, A. Molina, C. V. Lockatell, D. E. Johnson, C. B. Drachenberg, V. Burland, F. R. Blattner, & M. S. Donnenberg (2004) Identification and characterization of a novel uropathogenic Escherichia coli-associated fimbrial gene cluster. Infect Immun 72(7):3890-3901. [PubMed]
  34. C. D. Herring & F. R. Blattner (2004) Conditional lethal amber mutations in essential Escherichia coli genes. J Bacteriol 186(9):2673-2681. Erratum in: J Bacteriol 186(24):8547. [PubMed]
  35. A. E. Darling, B. Mau, F. R. Blattner, & N. T. Perna (2004) GRIL: genome rearrangement and inversion locator. Bioinformatics 20(1):122-124. [PubMed]
  36. M. B. Lobocka, D. J. Rose, G. Plunkett III, M. Rusin, A. Samojedny, H. Lehnherr, M. B. Yarmolinsky, & F. R. Blattner (2004) Genome of bacteriophage P1. J. Bacteriol 186(21):7032-7068. [PubMed]
  37. R. M. Gutiérrez-Ríos, D. A. Rosenblueth, J. A. Loza, A. M. Huerta, J. D. Glasner, F. R. Blattner, & Collado-Vides J (2003) Regulatory network of Escherichia coli: consistency between literature knowledge and microarray profiles. Genome Res 13(11):2435-2443. [PubMed]
  38. T. E. Allen, M. J. Herrgård, M. Liu, Y. Qiu, J. D. Glasner, F. R. Blattner, & B. Ø. Palsson (2003) Genome-scale analysis of the uses of the Escherichia coli genome: model-driven analysis of heterogeneous data sets. J Bacteriol 185(21):6392-6399. [PubMed]
  39. J. Nishi, J. Sheikh, K. Mizuguchi, B. Luisi, V. Burland, A. Boutin, D. J. Rose, F. R. Blattner, & J. P. Nataro (2003) The export of coat protein from enteroaggregative Escherichia coli by a specific ATP-binding cassette transporter system. J Biol Chem 278(46):45680-45689. Epub 2003 Aug 21. [PubMed]
  40. J. Bockhorst, Y. Qiu, J. Glasner, M. Liu, F. Blattner, & M. Craven (2003) Predicting bacterial transcription units using sequence and expression data. Bioinformatics 19 Suppl 1:i34-i43. [PubMed]
  41. C. D. Herring, J. D. Glasner, & F. R. Blattner (2003) Gene replacement without selection: regulated suppression of amber mutations in Escherichia coli. Gene 311:153-163. [PubMed]
  42. P. L. Roesch, P. Redford, S. Batchelet, R. L. Moritz, S. Pellett, B. J. Haugen, F. R. Blattner, & R. A. Welch (2003) Uropathogenic Escherichia coli use D-serine deaminase to modulate infection of the murine urinary tract. Mol Microbiol 49(1):55-67. [PubMed]
  43. J. Wei, M. B. Goldberg, V. Burland, M. M. Venkatesan, W. Deng, G. Fournier, G. F. Mayhew, G. Plunkett III, D. J. Rose, A. Darling, B. Mau, N. T. Perna, S. M. Payne, L. J. Runyen-Janecky, S. Zhou, D. C. Schwartz, & F. R. Blattner (2003) Complete genome sequence and comparative genomics of Shigella flexneri serotype 2a strain 2457T. Infect Immun 71(5):2775-2786. [PubMed]
  44. W. Deng, S.-R. Liou, G. Plunkett III, G. F. Mayhew, D. J. Rose, V. Burland, V. Kodoyianni, D. C. Schwartz, & F. R. Blattner (2003) Comparative genomics of Salmonella enterica serovar Typhi strains Ty2 and CT18. J Bacteriol 185(7):2330-2337. [PubMed]
  45. J. D. Glasner, P. Liss, G. Plunkett III, A. Darling, T. Prasad, M. Rusch, A. Byrnes, M. Gilson, B. Biehl, F. R. Blattner, & N. T. Perna (2003) ASAP, a systematic annotation package for community analysis of genomes. Nucleic Acids Res 31(1):147-151. [PubMed]
  46. R. A. Welch, V. Burland, G. Plunkett III , P. Redford, P. Roesch, D. Rasko, E. L. Buckles, S.-R. Liou, A. Boutin, J. Hackett, D. Stroud, G. F. Mayhew, D. J. Rose, S. Zhou, D. C. Schwartz, N. T. Perna, H. L. T. Mobley, M. S. Donnenberg & F. R. Blattner (2002) Extensive mosiac structure revealed by the complete genome sequence of uropathogenic Escherichia coli. Proc. Natl. Acad. Sci. USA 99(26):17020-17024. [PubMed]
  47. W. Deng, V. Burland, G. Plunkett III, A. Boutin, G. F. Mayhew, P. Liss, N. T. Perna, D. J. Rose, B. Mau, S. Zhou, D. C. Schwartz, J. D. Fetherston, L. E. Lindler, R. R. Brubaker, G. V. Plano, S. C. Straley, K. A. McDonough, M. L. Nilles, J. S. Matson, F. R. Blattner & R. D. Perry (2002) Genome sequence of Yersinia pestis KIM. J Bacteriol 184(16):4601-4611. [PubMed]
  48. N. T. Perna, G. Plunkett III, V. Burland, B. Mau, J. D. Glasner, J. Kim & F. R. Blattner (2002) Comparative Analyses of Enterobacterial Genomes. pp. 296-301 in: Biology of Plant-Microbe Interactions, Volume 3, S. A. Leong, C. Allen, & E. W. Triplett, eds. International Society for Molecular Plant-Microbe Interactions, St. Paul, Minnesota, U.S.A. (Proceedings of the 10th International Congress on Molecular Plant-Microbe Interactions, Madison, Wisconsin, U.S.A., July 10-14, 2001) [not indexed in PubMed]
  49. V. Kolisnychenko, G. Plunkett III, C. D. Herring, T. Feher, J. Pósfai, F. R. Blattner & G. Pósfai (2002) Engineering a reduced Escherichia coli genome. Genome Res 12(4):640-647. [PubMed]
  50. E. F. Nuwaysir, W. Huang, T. J. Albert, J. Singh, K. Nuwaysir, A. Pitas, T. Richmond, T. Gorski, J. P. Berg, J. Ballin, M. McCormick, J. Norton, T. Pollock, T. Sumwalt, L. Butcher, D. Porter, M. Molla, C. Hall, F. Blattner, M. R. Sussman, R. L. Wallace, F. Cerrina, & R. D. Green (2002) Gene expression analysis using oligonucleotide arrays produced by maskless photolithography. Genome Res 12(11):1749-1755. [PubMed]
  51. A. G. Torres, J. A. Giron, N. T. Perna, V. Burland, F. R. Blattner, F. Avelino-Flores, & J. B. Kaper (2002) Identification and characterization of lpfABCC'DE, a fimbrial operon of enterohemorrhagic Escherichia coli O157:H7. Infect Immun 70(10):5416-5427. [PubMed]
  52. A. G. Torres, N. T. Perna, V. Burland, A. Ruknudin, F. R. Blattner, & J. B. Kaper (2002) Characterization of Cah, a calcium-binding and heat-extractable autotransporter protein of enterohaemorrhagic Escherichia coli. Mol Microbiol 45(4):951-966. [PubMed]
  53. Z. Cheng, F. Dong, T. Langdon, S. Ouyang, C. R. Buell, M. Gu, F. R. Blattner, & J. Jiang (2002) Functional rice centromeres are marked by a satellite repeat and a centromere-specific retrotransposon. Plant Cell 14(8):1691-1704. [PubMed]
  54. D. E. Taylor, M. Rooker, M. Keelan, L. K. Ng, I. Martin, N. T. Perna, V. Burland, & F. R. Blattner (2002) Genomic variability of O islands encoding tellurite resistance in enterohemorrhagic Escherichia coli O157:H7 isolates. J Bacteriol 184(17):4690-4698. [PubMed]
  55. I. T. Kudva, P. S. Evans, N. T. Perna, T. J. Barrett, G. J. DeCastro, F. M. Ausubel, F. R. Blattner, & S. B. Calderwood (2002) Polymorphic amplified typing sequences provide a novel approach to Escherichia coli O157:H7 strain typing. J Clin Microbiol 40(4):1152-1159. [PubMed]
  56. I. T. Kudva, P. S. Evans, N. T. Perna, T. J. Barrett, F. M. Ausubel, F. R. Blattner, & S. B. Calderwood (2002) Strains of Escherichia coli O157:H7 differ primarily by insertions or deletions, not single-nucleotide polymorphisms. J Bacteriol 184(7):1873-1879. [PubMed]
  57. S. R. Heimer, R. A. Welch, N. T. Perna, G. Posfai, P. S. Evans, J. B. Kaper, F. R. Blattner, & H. L. Mobley (2002) Urease of enterohemorrhagic Escherichia coli: evidence for regulation by Fur and a trans-acting factor. Infect Immun 70(2):1027-1031. [PubMed]
  58. M. A. Newton, C. M. Kendziorski, C. S. Richmond, F. R. Blattner, & K. W. Tsui (2001) On differential variability of expression ratios: improving statistical inference about gene expression changes from microarray data. J Comput Biol 8(1):37-52. [PubMed]
  59. M. M. Venkatesan, M. B. Goldberg, D. J. Rose, E. J. Grotbeck, V. Burland, & F. R. Blattner (2001) Complete DNA sequence and analysis of the large virulence plasmid of Shigella flexneri. Infect Immun 69(5):3271-3285. [PubMed]
  60. Y. Dong, J. D. Glasner, F. R. Blattner, & E. W. Triplett (2001) Genomic interspecies microarray hybridization: rapid discovery of three thousand genes in the maize endophyte, Klebsiella pneumoniae 342, by microarray hybridization with Escherichia coli K-12 open reading frames. Appl Environ Microbiol 67(4):1911-1921. [PubMed]
  61. Y. Wei, J. M. Lee, C. Richmond, F. R. Blattner, J. A. Rafalski, & R. A. LaRossa (2001) High-density microarray-mediated gene expression profiling of Escherichia coli. J Bacteriol 183(2):545-556. [PubMed]
  62. N. T. Perna, G. Plunkett III, V. Burland, B. Mau, J. D. Glasner, D. J. Rose, G. F. Mayhew, P. S. Evans, J. Gregor, H. A. Kirkpatrick, G. Pósfai, J. Hackett, S. Klink, A. Boutin, Y. Shao, L. Miller, E. J. Grotbeck, N. W. Davis, A. Lim, E. Dimalanta, K. D. Potamousis, J. Apodaca, T. S. Anantharaman, J. Lin, G. Yen, D. C. Schwartz, R. A. Welch, & F. R. Blattner (2001) Genome sequence of enterohaemorrhagic Escherichia coli O157:H7. Nature 409(6819):529-533. Erratum in: Nature 410(6825):240. [PubMed]
  63. A. Lim, E. T. Dimalanta, K. D. Potamousis, G. Yen, J. Apodoca, C. Tao, J. Lin, R. Qi, J. Skiadas, A. Ramanathan, N. T. Perna, G. Plunkett III, V. Burland, B. Mau, J. Hackett, F. R. Blattner, T. S. Anantharaman, B. Mishra & D. C. Schwartz (2001) Shotgun optical maps of the whole Escherichia coli O157:H7 genome. Genome Res 11(9):1584-1593. [PubMed]
  64. D. W. Selinger, K. J. Cheung, R. Mei, E. M. Johansson, C. S. Richmond, F. R. Blattner, D. J. Lockhart, & G. M. Church (2000) RNA expression analysis using a 30 base pair resolution Escherichia coli genome array. Nat Biotechnol 18(12):1262-1268. [PubMed]
  65. R. H. Ffrench-Constant, N. Waterfield, V. Burland, N. T. Perna, P. J. Daborn, D. Bowen, & F. R. Blattner (2000) A genomic sample sequence of the entomopathogenic bacterium Photorhabdus luminescens W14: potential implications for virulence. Appl Environ Microbiol 66(8):3310-3329. [PubMed]
  66. C. K. Sherburne, T. D. Lawley, M. W. Gilmour, F. R. Blattner, V. Burland, E. Grotbeck, D. J. Rose, & D. E. Taylor (2000) The complete DNA sequence and analysis of R27, a large IncHI plasmid from Salmonella typhi that is temperature sensitive for transfer. Nucleic Acids Res 28(10):2177-2186. [PubMed]
  67. G. Plunkett III, D. J. Rose, T. J. Durfee, & F. R. Blattner (1999) Sequence of Shiga toxin 2 phage 933W from Escherichia coli O157:H7: Shiga toxin as a phage late-gene product. J Bacteriol 181(6):1767-1778. [PubMed]
  68. J. Mahillon, H. A. Kirkpatick, H. L. Kijenski, C. A. Bloch, C. K. Rode, G. F. Mayhew, D. J. Rose, G. Plunkett III, V. Burland, & F. R. Blattner (1998) Subdivision of the Escherichia coli K-12 genome for sequencing: manipulation and DNA sequence of transposable elements introducing unique restriction sites. Gene 223(1-2):47-54. [PubMed]
  69. V. Burland, Y. Shao, N. T. Perna, G. Plunkett III, H. J. Sofia, & F. R. Blattner (1998) The complete DNA sequence and analysis of the large virulence plasmid of Escherichia coli O157:H7. Nucleic Acids Res 26(18):4196-4204. [PubMed]
  70. F. R. Blattner, G. Plunkett III, C. A. Bloch, N. T. Perna, V. Burland, M. Riley, J. Collado-Vides, J. D. Glasner, C. K. Rode, G. F. Mayhew, J. Gregor, N. W. Davis, H. A. Kirkpatrick, M. A. Goeden, D. J. Rose, B. Mau, & Y. Shao (1997) The complete genome sequence of Escherichia coli K-12. Science 277(5331):1453-1462. [PubMed]
  71. F. R. Blattner, G. Plunkett III, G. F. Mayhew, J. Gregor, W. Davis, M. Goeden, N. Perna, D. Rose, Y. Shao, H. Kirkpatrick, C. Bloch, G. Pósfai, & C. Rode (1996) E. coli Genome Project. Microb Comp Genomics 1(4):357. [not indexed in PubMed]
  72. V. Burland, G. Plunkett III, H. J. Sofia, D. L. Daniels, & F. R. Blattner (1995) Analysis of the Escherichia coli genome VI: DNA sequence of the region from 92.8 through 100 minutes. Nucleic Acids Res 23(12):2105-2119. [PubMed]
  73. H. J. Sofia, V. Burland, D. L. Daniels, G. Plunkett III, & F. R. Blattner (1994) Analysis of the Escherichia coli genome. V. DNA sequence of the region from 76.0 to 81.5 minutes. Nucleic Acids Res 22(13):2576-2586. [PubMed]
  74. F. R. Blattner, V. Burland, G. Plunkett III, H. J. Sofia, & D. L. Daniels (1993) Analysis of the Escherichia coli genome. IV. DNA sequence of the region from 89.2 to 92.8 minutes. Nucleic Acids Res 21(23):5408-5417. [PubMed]
  75. S.-E. Chuang, V. Burland, G. Plunkett III, D. L. Daniels, & F. R. Blattner (1993) Sequence analysis of four new heat-shock genes constituting the hslTS/ibpAB and hslVU operons in Escherichia coli. Gene 134(1):1-6. [PubMed]
  76. G. Plunkett III, V. Burland, D. L. Daniels, & F. R. Blattner (1993) Analysis of the Escherichia coli genome. III. DNA sequence of the region from 87.2 to 89.2 minutes. Nucleic Acids Res 21(15):3391-3398. [PubMed]
  77. V. Burland, D. L. Daniels, G. Plunkett III, & F. R. Blattner (1993) Genome sequencing on both strands: the Janus strategy. Nucleic Acids Res 21(15):3385-3390. [PubMed]
  78. V. Burland, G. Plunkett III, D. L. Daniels, & F. R. Blattner (1993) DNA sequence and analysis of 136 kilobases of the Escherichia coli genome: organizational symmetry around the origin of replication. Genomics 16(3):551-561. [PubMed]
  79. F. R. Blattner, D. L. Daniels, V. D. Burland, G. Plunkett III, & S.-E. Chuang (1992) The E. coli genome project: towards the first megabase. pp. 43-59, in: The Chromosome (John Innes Symposium, Norwich, England), J.S. Heslop-Harrison & R.B. Flavell, eds. Bios Scientific Publishers, Oxford, UK. [not indexed in PubMed]
  80. D. L. Daniels, G. Plunkett III, V. Burland, & F. R. Blattner (1992) Analysis of the Escherichia coli genome: DNA sequence of the region from 84.5 to 86.5 minutes. Science 257(5071):771-778. [PubMed]


  1. US 8,367,380 Compositions and methods for amino acid biosynthesis
  2. US 8,178,339 Reduced genome E. coli
  3. US 8,119,365 Insertion sequence-free bacteria
  4. US 8,043,842 Bacteria with reduced genome
  5. US 8,039,243 Insertion sequence-free bacteria
  6. US 8,030,477 Methods for the synthesis of arrays of DNA probes
  7. US 7,989,181 Methods and compositions for producing recombinant proteins using a gene for TRNA
  8. US 7,935,505 Plasmid DNA preparations and methods for producing same
  9. US 7,303,906 Competent bacteria
  10. US 6,989,265 Bacteria with reduced genome
  11. US 6,855,814 Sequences of E. coli O157
  12. US 6,706,522 Plasmid DNA from Yersinia pestis
  13. US 6,649,402 Microfabricated microbial growth assay method and apparatus
  14. US 6,375,903 Method and apparatus for synthesis of arrays of DNA probes
  15. US 6,365,723 Sequences of E. coli O157
  16. US 6,223,128 DNA sequence assembly system
  17. US 5,851,492 Microtiter plate sealing system
  18. US 5,525,515 Process of handling liquids in an automated liquid handling apparatus
  19. US 5,334,353 Micropipette device
  20. US 5,227,288 DNA sequencing vector with reversible insert
  21. US 4,771,384 System and method for fragmentation mapping

Last updated November 14, 2020