Papers that use all or part of the ECOR Collection

  1. Ochman, H., and R. K. Selander. 1984. Standard reference strains of Escherichia coli from natural populations. Journal of Bacteriology 157:690-693. Abstract
  2. Green, L. , R. D. Miller, D. E. Dykhuizen, and D. L. Hartl. 1984. Distribution of DNA insertion element IS5 in natural isolates of Escherichia coli. Proceedings of the National Academy of Sciences USA 81:4500-4504. Abstract
  3. Dykhuizen, D. E., S. A. Sawyer, L. Green, R. D. Miller, and D. L. Hartl. 1985. Joint distribution of insertion elements IS4 and IS5 in natural isolates of Escherichia coli. Genetics 111:219-231. Abstract
  4. Miller, R. D., and D. L. Hartl. 1986. Biotyping confirms a nearly clonal population structure in Escherichia coli. Evolution 40:1-12.
  5. Hartl, D. L., M. Medhora, L. Green, and D. E. Dykhuizen. 1986. The evolution of DNA sequences in Escherichia coli. Phil. Trans. R. Soc. Lond. B 312:191-204. Abstract
  6. Sawyer, S. A., D. E. Dykhuizen, R. F. DuBose, L. Green, T. Mutangadura-Mhlanga, D. F. Wolczyk, and D. L. Hartl. 1987. Distribution and abundance of insertion sequences among natural isolates of Escherichia coli. Genetics 115:51-63. Abstract
  7. Selander, R. K., D. A. Caugant, and T. S. Whittam. 1987. Genetic structure and variation in natural populations of Escherichia coli, p. 1625-1648. In F. C. Neidhardt, J. L. Ingraham, K. B. Low, B. Magasanik, M. Schaechter, and H. E. Umbarger (ed.), Escherichia coli and Salmonella typhimurium: cellular and molecular biology. American Society for Microbiology, Washington, D.C.
  8. Hall, B. G., and P. W. Betts. 1987. Cryptic genes for cellobiose utilization in natural isolates of Escherichia coli. Genetics 115:431-9. Abstract
  9. Hall, B. G. 1988. Widespread distribution of deletions of the bgl operon in natural isolates of Escherichia coli. Molecular Biology and Evolution 5:456-467. Abstract
  10. Stoltzfus, A., J. F. Leslie, and R. Milkman. 1988. Molecular evolution of the Escherichia coli chromosome. I. Analysis of structure and natural variation in a previously uncharacterized region between trp and tonB. Genetics 120:345-358. Abstract
  11. Milkman, R., and A. Stoltzfus. 1988. Molecular evolution of the Escherichia coli chromosome. II. Clonal segments. Genetics 120:359-366. Abstract
  12. DuBose, R. F., D. E. Dykhuizen, and D. L. Hartl. 1988. Genetic exchange among natural isolates of bacteria: recombination within the phoA gene of Escherichia coli. Proceedings of the National Academy of Sciences USA 85:7036-7040. Abstract
  13. Hartl, D. L., and S. A. Sawyer. 1988. Why do unrelated insertion sequences occur together in the genome of Escherichia coli? Genetics 118:537-41.
  14. Gilbert, M. P., and A. O. Summers. 1988. The distribution and divergence of DNA sequences related to Tn21 and TN501 mer operons. Plasmid 20:127-136.
  15. Hall, B. G., L. L. Parker, P. W. Betts, R. F. DuBose, S. A. Sawyer, and D. L. Hartl. 1989. IS103, a new insertion element in Escherichia coli: characterization and distribution in natural populations. Genetics 121:423-31.
  16. Goullet, P., and B. Picard. 1989. Comparative electrophoretic polymorphism of esterases and other enzymes in Escherichia coli. J Gen Microbiol 135:135-43.
  17. Ajioka, J. W., and D. L. Hartl. 1989. Population dynamics of transposable elements, p. 939-958. In D. E. Berg and M. W. Howe (ed.), Mobile DNA. American Society for Microbiology, Washingtion, D.C.
  18. Milkman, R., and M. M. Bridges. 1990. Molecular evolution of the Escherichia coli chromosome. III. Clonal frames. Genetics 126:505-517. Abstract
  19. Wanner, B. L., and J. A. Boline. 1990. Mapping and molecular cloning of the phn (psiD) locus for phosphonate utilization in Escherichia coli. J Bacteriol 172:1186-96.
  20. Herzer, P. J., S. Inouye, M. Inouye, and T. S. Whittam. 1990. Phylogenetic distribution of branched RNA-linked multicopy single- stranded DNA among natural isolates of Escherichia coli. J Bacteriol 172:6175-81.
  21. Nelson, K., T. S. Whittam, and R. K. Selander. 1991. Nucleotide polymorphism and evolution in the glyceraldehyde-3-phosphate dehydrogenase gene (gapA) in natural populations of Salmonella and Escherichia coli. Proceedings of the National Academy of Sciences USA 88:6667-6671. Abstract
  22. Dykhuizen, D. E., and L. Green. 1991. Recombination in Escherichia coli and the definition of biological species. Journal of Bacteriology 173:7257-7268.
  23. Bradley, D. E., and S. P. Howard. 1992. A new colicin that adsorbs to outer-membrane protein Tsx but is dependent on the tonB instead of the tolQ membrane transport system. J Gen Microbiol 138:2721-4.
  24. Gordon, D. M. 1992. Rate of plasmid transfer among Escherichia coli strains isolated from natural populations. Journal of General Microbiology 138:17-21.
  25. Kawaguchi, T., P. J. Herzer, M. Inouye, and S. Inouye. 1992. Sequence diversity of the 1.3 kb retron (retron-Ec107) among three distinct phylogenetic groups of Escherichia coli. Molecular Microbiology 6:355-361.
  26. Smith, D. K., T. Kassam, B. Singh, and J. F. Elliott. 1992. Escherichia coli has two homologous glutamate decarboxylase genes that map to distinct loci. J Bacteriol 174:5820-6.
  27. Hall, B. G., and P. M. Sharp. 1992. Molecular population genetics of Escherichia coli: DNA sequence diversity at the celC, crr, and gutB loci of natural isolates. Mol Biol Evol 9:654-65.
  28. Riley, M. A., and D. M. Gordon. 1992. A survey of Col plasmids in natural isolates of Escherichia coli and an investigation into the stability of Col-plasmid lineages. J Gen Microbiol 138:1345-52.
  29. Marklund, B. I., J. M. Tennent, E. Garcia, A. Hamers, M. Baga, F. Lindberg, W. Gaastra, and S. Normark. 1992. Horizontal gene transfer of the Escherichia coli pap and prs pili operons as a mechanism for the development of tissue-specific adhesive properties. Mol Microbiol 6:2225-42.
  30. Lawrence, J. G., H. Ochman, and D. L. Hartl. 1992. The evolution of insertion sequences within enteric bacteria. Genetics 131:9-20. Abstract
  31. Herzer, P. J., S. Inouye, and M. Inouye. 1992. Retron-Ec107 is inserted into the Escherichia coli genome by replacing a plindromic 34 bp intergenic sequence. Molecular Microbiology 6:345-354.
  32. Milkman, R., and M. M. Bridges. 1993. Molecular evolution of the Escherichia coli chromosome. IV. Sequence comparisons. Genetics 133:455-468. Abstract
  33. Nelson, K., and R. K. Selander. 1994. Intergeneric transfer and recombination of the 6-phosphogluconate dehydrogenase gene (gnd) in enteric bacteria. Proceedings of the National Academy of Sciences USA 91:10227-10231.
  34. Hill, C. W., C. H. Sandt, and D. A. Vlazny. 1994. Rhs elements of Escherichia coli: a family of genetic composites each encoding a large mosaic protein. Molecular Microbiology 12:865-871.
  35. Boyd, E. F., K. Nelson, F.-S. Wang, T. S. Whittam, and R. K. Selander. 1994. Molecular genetic basis of allelic polymorphism in malate dehydrogenase (mdh) in natural populations of Escherichia coli and Salmonella enterica. Proceedings of the National Academy of Sciences USA 91:1280-1284. Abstract
  36. Liu, D., and P. R. Reeves. 1994. Presence of different O antigen forms in three isolates of one clone of Escherichia coli. Genetics 138:7-10.
  37. Ferat, J. L., M. Le Gouar, and F. Michel. 1994. Multiple group II self-splicing introns in mobile DNA from Escherichia coli. C R Acad Sci III 317:141-8.
  38. Milkman, R. 1994. An Escherichia coli homologue of eukaryotic potassium channel proteins. Proc Natl Acad Sci U S A 91:3510-4.
  39. Guttman, D. S., and D. E. Dykhuizen. 1994. Clonal divergence in Escherichia coli as a result of recombination, not mutation. Science 266:1380-3.
  40. Maas, W. K., R. Maas, and E. McFall. 1995. D-Serine deaminase is a stringent selective marker in genetic crosses. Journal of Bacteriology 177:459-461.
  41. Zhao, S., and C. W. Hill. 1995. Reshuffling of Rhs components to create a new element. J Bacteriol 177:1393-8.
  42. Desjardins, P., B. Picard, B. Kaltenbock, J. Elion, and E. Denamur. 1995. Sex in Escherichia coli does not disrupt the clonal structure of the population: evidence from random amplified polymorphic DNA and restriction-fragment-length polymorphism. J Mol Evol 41:440-8.
  43. Saluta, M. V., and I. N. Hirshfield. 1995. The occurrence of duplicate lysyl-tRNA synthetase gene homologs in Escherichia coli and other procaryotes. Journal of Bacteriology 177:1872-8.
  44. Bergthorsson, U., and H. Ochman. 1995. Heterogeneity of genome sizes among natural isolates of Escherichia coli. Journal of Bacteriology 177:5784-5789. Abstract
  45. McKane, M., and R. Milkman. 1995. Transduction, restriction and recombination patterns in Escherichia coli. Genetics 139:35-43. Abstract
  46. Hill, C. W., G. Feulner, M. S. Brody, S. Zhao, A. B. Sadosky, and C. H. Sandt. 1995. Correlation of Rhs elements with Escherichia coli population structure. Genetics 141:15-24.
  47. Barcus, V. A., A. J. Titheradge, and N. E. Murray. 1995. The diversity of alleles at the hsd locus in natural populations of Escherichia coli. Genetics 140:1187-97.
  48. Garcia-Martinez, J., A. Martinez-Murcia, A. I. Anton, and F. Rodriguez-Valera. 1996. Comparison of the small 16S to 23S intergenic spacer region (ISR) of the rRNA operons of some Escherichia coli strains of the ECOR collection and E. coli K-12. J Bacteriol 178:6374-7.
  49. Garcia-Martinez, J., A. J. Martinez-Murcia, F. Rodriguez-Valera, and A. Zorraquino. 1996. Molecular evidence supporting the existence of two major groups in uropathogenic Escherichia coli. FEMS Immunol Med Microbiol 14:231-44.
  50. Whittam, T. S. 1996. Genetic variation and evolutionary processes in natural populations of Escherichia coli, p. 2708-2720. In F. C. Neidhardt, R. C. III, J. L. Ingraham, E. C. C. Lin, K. B. Low, B. Magasanik, W. S. Reznikoff, M. Riley, M. Schaechter, and H. E. Umbarger (ed.), Escherichia coli and Salmonella: Cellular and Molecular Biology, Second Edition. American Society for Microbiology, Washington, D. C.
  51. Boyd, E. F., C. W. Hill, S. M. Rich, and D. L. Hartl. 1996. Mosaic structure of plasmids from natural populations of Escherichia coli. Genetics 143:1091-100.
  52. Mao, J. R., M. Inouye, and S. Inouye. 1996. An unusual bacterial reverse transcriptase having LVDD in the YXDD box from Escherichia coli. Biochem Biophys Res Commun 227:489-93.
  53. Boyd, E. F., and D. L. Hartl. 1997. Nonrandom location of IS1 elements in the genomes of natural isolates of Escherichia coli. Mol Biol Evol 14:725-32.
  54. Blackwood, R. A., C. K. Rode, C. L. Pierson, and C. A. Bloch. 1997. Pulsed-field gel electrophoresis genomic fingerprinting of hospital Escherichia coli bacteraemia isolates. J Med Microbiol 46:506-10.
  55. Nelson, K., F.-S. Wang, E. F. Boyd, and R. K. Selander. 1997. Size and sequence polymorphism in the isocitrate dehydrogenase kinase/phosphatase gene (aceK) and flanking regions in Salmonella enterica and Escherichia coli. Genetics 147:1509-1520.
  56. Sandt, C. H., Y. D. Wang, R. A. Wilson, and C. W. Hill. 1997. Escherichia coli strains with nonimmune immunoglobulin-binding activity. Infect Immun 65:4572-9.
  57. Wang, F. S., T. S. Whittam, and R. K. Selander. 1997. Evolutionary genetics of the isocitrate dehydrogenase gene (icd) in Escherichia coli and Salmonella enterica. J Bacteriol 179:6551-9. Abstract
  58. Rang, C. U., R. Mikkola, S. Molin, and P. L. Conway. 1997. Ribosomal efficiency and growth rates of freshly isolated Escherichia coli strains originating from the gastrointestinal tract. FEBS Lett 418:27-9.
  59. Pupo, G. M., D. K. R. Karaolis, R. Lan, and P. R. Reeves. 1997. Evolutionary relationships among pathogenic and nonpathogenic Escherichia coli strains inferred from multilocus enzyme electrophoresis and mdh sequence studies. Infection and Immunity 65:2685-2692.
  60. Boyd, E. F., and D. L. Hartl. 1998. Chromosomal regions specific to pathogenic isolates of Escherichia coli have a phylogenetically clustered distribution. J Bacteriol 180:1159-65.
  61. Bingen, E., B. Picard, N. Brahimi, S. Mathy, P. Desjardins, J. Elion, and E. Denamur. 1998. Phylogenetic analysis of Escherichia coli strains causing neonatal meningitis suggests horizontal gene transfer from a predominant pool of highly virulent B2 group strains. J Infect Dis 177:642-50.
  62. Rolland, K., N. Lambert-Zechovsky, B. Picard, and E. Denamur. 1998. Shigella and enteroinvasive Escherichia coli strains are derived from distinct ancestral strains of E. coli. Microbiology 144:2667-72.
  63. Lecointre, G., L. Rachdi, P. Darlu, and E. Denamur. 1998. Escherichia coli molecular phylogeny using the incongruence length difference test. Mol Biol Evol 15:1685-95.
  64. Anton, A. I., A. J. Martinez-Murcia, and F. Rodriguez-Valera. 1998. Sequence diversity in the 16S-23S intergenic spacer region (ISR) of the rRNA operons in representatives of the Escherichia coli ECOR collection. J Mol Evol 47:62-72.
  65. Wang, Y. D., S. Zhao, and C. W. Hill. 1998. Rhs elements comprise three subfamilies which diverged prior to acquisition by Escherichia coli. J Bacteriol 180:4102-10.
  66. Martinez-Murcia, A. J., A. I. Anton, and F. Rodriguez-Valera. 1999. Patterns of sequence variation in two regions of the 16S rRNA multigene family of Escherichia coli. Int J Syst Bacteriol 49 Pt 2:601-10.
  67. Souza, V., M. Rocha, A. Valera, and L. E. Eguiarte. 1999. Genetic structure of natural populations of Escherichia coli in wild hosts on different continents. Appl Environ Microbiol 65:3373-85.
  68. Pedersen, K., and K. Gerdes. 1999. Multiple hok genes on the chromosome of Escherichia coli. Mol Microbiol 32:1090-102.
  69. Picard, B., J. S. Garcia, S. Gouriou, P. Duriez, N. Brahimi, E. Bingen, J. Elion, and E. Denamur. 1999. The link between phylogeny and virulence in Escherichia coli extraintestinal infection. Infect Immun 67:546-53.
  70. McGraw, E. A., J. Li, R. K. Selander, and T. S. Whittam. 1999. Molecular evolution and mosaic structure of a, b, and g intimins of pathogenic Escherichia coli. Molecular Evolution and Biology 16:12-22. Abstract
  71. Anton, A. I., A. J. Martinez-Murcia, and F. Rodriguez-Valera. 1999. Intraspecific diversity of the 23S rRNA gene and the spacer region downstream in Escherichia coli. J Bacteriol 181:2703-9.
  72. Hurtado, A., and F. Rodriguez-Valera. 1999. Accessory DNA in the genomes of representatives of the Escherichia coli reference collection. J Bacteriol 181:2548-54.
  73. Arnold, C., L. Metherell, G. Willshaw, A. Maggs, and J. Stanley. 1999. Predictive fluorescent amplified-fragment length polymorphism analysis of Escherichia coli: high-resolution typing method with phylogenetic significance. J Clin Microbiol 37:1274-9.
  74. Wada, A., R. Mikkola, C. G. Kurland, and A. Ishihama.  2000.  Growth phase-coupled changes of the ribosome profile in natural isolates and laboratory strains of Escherichia coli.  J Bacteriol 182:2893-9.
  75. Bonacorsi, S. P., O. Clermont, C. Tinsley, I. Le Gall, J. C. Beaudoin, J. Elion, X. Nassif, and E. Bingen.  2000.  Identification of regions of the Escherichia coli chromosome specific for neonatal meningitis-associated strains.  Infect Immun 68:2096-101.
  76. Prats, G., F. Navarro, B. Mirelis, D. Dalmau, N. Margall, P. Coll, A. Stell, and J. R. Johnson.  2000.  Escherichia coli serotype O15:K52:H1 as a uropathogenic clone.  J Clin Microbiol 38:201-9.
  77. Amor, K., D. E. Heinrichs, E. Frirdich, K. Ziebell, R. P. Johnson, and C. Whitfield.  2000.  Distribution of core oligosaccharide types in lipopolysaccharides from Escherichia coli.  Infect Immun 68:1116-24.
  78. Johnson, J. R., and T. T. O'Bryan.  2000.  Improved repetitive-element PCR fingerprinting for resolving pathogenic and nonpathogenic phylogenetic groups within Escherichia coli.  Clin Diagn Lab Immunol 7:265-73.
  79. Mazel, D., B. Dychinco, V. A. Webb, and J. Davies.  2000.  Antibiotic Resistance in the ECOR Collection: Integrons and Identification of a Novel aad Gene.  Antimicrob Agents Chemother 44:1568-1574.
  80. Sandt, C. H., and C. W. Hill.  2000.  Four different genes responsible for nonimmune immunoglobulin-binding activities within a single strain of Escherichia coli.  Infect Immun 68:2205-14.
  81. Ochman, H., I.B. Jones. 2000. Evolutionary dynamics of full genome content in Escherichia coli. Embo J 19:6637-6643. Abstract
  82. Clermont, O., S. Bonacorsi, E. Bingen. 2001. The Yersinia high- pathogenicity island is highly predominant in virulence-associated phylogenetic groups of Escherichia coli. FEMS Microbiol Lett 196:153-157. Abstract
  83. Clermont, O., C. Cordevant, S. Bonacorsi, A. Marecat, M. Lange, E. Bingen. 2001. Automated Ribotyping Provides Rapid Phylogenetic Subgroup Affiliation of Clinical Extraintestinal Pathogenic Escherichia coli Strains. J Clin Microbiol 39:4549-4553. Abstract
  84. Johnson, J.R., T.T. O'Bryan, M. Kuskowski, J.N. Maslow. 2001. Ongoing horizontal and vertical transmission of virulence genes and papA alleles among Escherichia coli blood isolates from patients with diverse-source bacteremia. Infect Immun 69:5363-5374. Abstract
  85. Johnson, J.R., A.L. Stell, P. Delavari, A.C. Murray, M. Kuskowski, W. Gaastra. 2001. Phylogenetic and pathotypic similarities between Escherichia coli isolates from urinary tract infections in dogs and extraintestinal infections in humans. J Infect Dis 183:897-906. Abstract
  86. Metzgar, D., E. Thomas, C. Davis, D. Field, C. Wills. 2001. The microsatellites of Escherichia coli: rapidly evolving repetitive DNAs in a non-pathogenic prokaryote. Mol Microbiol 39:183-190. Abstract
  87. Sandt, C.H., C.W. Hill. 2001. Nonimmune binding of human immunoglobulin A (IgA) and IgG Fc by distinct sequence segments of the EibF cell surface protein of Escherichia coli. Infect Immun 69:7293-7303. Abstract
  88. Wang, I.N., D.E. Dykhuizen. 2001. Variation of enzyme activities at a branched pathway involved in the utilization of gluconate in Escherichia coli. Evolution Int J Org Evolution 55:897-908. Abstract
  89. Day, W.A., Jr., R.E. Fernandez, A.T. Maurelli. 2001. Pathoadaptive mutations that enhance virulence: genetic organization of the cadA regions of Shigella spp. Infect Immun 69:7471-7480. Abstract

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