Long-term experimental evolution in Escherichia coli. IV. Targets of selection and the specificity of adaptation

Genetics

Volumn 143, Issue 1, 1996, Pages 15-26

  Travisano, Michael ^a   Lenski, Richard E ^a  

^a MICHIGAN STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

GLUCOSE; MALTOSE; OUTER MEMBRANE PROTEIN;

ADAPTATION; ARTICLE; ESCHERICHIA COLI; EVOLUTION; GENETIC MARKER; GENETIC SELECTION; GENETIC VARIABILITY; GENOTYPE; GLUCOSE TRANSPORT; NONHUMAN; NUTRIENT; PHENOTYPE; PLEIOTROPY; PRIORITY JOURNAL;

ADAPTATION, PHYSIOLOGICAL; BACTERIAL OUTER MEMBRANE PROTEINS; BIOLOGICAL TRANSPORT; CELL MEMBRANE; CULTURE MEDIA; ESCHERICHIA COLI; EVOLUTION; GENOTYPE; MATHEMATICS; MODELS, BIOLOGICAL; MODELS, GENETIC; PORINS; RECEPTORS, VIRUS; SELECTION (GENETICS); VARIATION (GENETICS);

EID: 0030009207     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (71)

1. BENNETT, A. F., R. E. LENSKI and J. E MITTLER, 1992 Evolutionary adaptation to temperature. I. Fitness responses of Escherichia coli to changes in its thermal environment. Evolution 46: 16-30.
2. BUECHEL, D. E., B. GRONENBORN and B. MUELLER-HILL, 1980 Sequence of the lactose permease gene. Nature 283: 541-545.
3. BULL, J. J., and I. J. MOLINEUX, 1992 Molecular genetics of adaptation in an experimental model of cooperation. Evolution 46: 882-895.
4. BULL, J. J., I. J. MOLINEUX and W. R. RICE, 1991 Selection of benevolence in a host-parasite system. Evolution 45: 875-882.
5. CARLTON, B. C., and B. J. BROWN, 1981 Gene mutation, pp. 222-242 in Manual of Methods for General Bacteriology, edited by P. GERHARDT. American Society for Microbiology, Washington, DC
6. CHAUVIN, F., L. BRAND and S. ROSEMAN, 1994a Sugar transport by the bacterial phosphotransferase system. Characterization of the Escherichia coli enzyme I monomer/dimer equilibrium by fluorescence anisotropy. J. Biol. Chem. 269: 20263-20269.
7. CHAUVIN, F., L. BRAND and S. ROSEMAN, 1994b Sugar transport by the bacterial phosphotransferase system. Characterization of the Escherichia coli enzyme I monomer/dimer transition kinetics by fluorescence anisotropy J. Biol. Chem. 269: 20270-20274.
8. COWAN, S. W., T. SCHIRMER, G. RUMMEL, M STEIERT, R. GHOSH et al., 1992 Crystal structures explain functional properties of two E. coli porins Nature 358: 727-733.
9. DAVIS, T., M. YAMADA, M. ELGORT and M. H. SAIER JR., 1988 Nucleotide sequence of the mannitol (mtl) operon in Escherichia coli. Mol. Microbiol. 2: 405-412.
10. DE REUSE, H., and A. DANCHIN, 1988 The ptsH, ptsI, and crr genes of the Eschirichia coli phosphoenolpyruvate-dependent phosphotransferase system: a complex operon with several modes of transcription. J. Bacteriol. 170: 3827-3837.
11. DE REUSE, H., and A. DANCHIN, 1991 Positive regulation of the pts operon of Escherichia coli: genetic evidence for a signal transduction mechanism. J. Bacteriol. 173: 727-733.
12. DRAKE, J. W., 1991 A constant rate of spontaneous mutation in DNA-based microbes. Proc. Natl. Acad. Sci. USA 88: 7160-7164.
13. DUNNETT, C. W., 1964 New tables for multiple comparisons with a control. Biometrics 20: 482-491.
14. DYKHUIZEN, D. E., 1995 Natural selection and the single gene, pp. 161-174 in Population Genetics of Bacteria, edited by S. BAUMBERG, J. P. W. YOUNG, E. M. H. WELLINGTON and J. R. SAUNDERS Cambridge University Press, Cambridge.
15. DYKHUIZEN, D. E., and A. M. DEAN, 1990 Enzyme activity and fitness: evolution in solution. Trends Ecol. Evol. 5: 257-262.
16. ERNI, B., B. ZANOLARI and H. P. KOCHER, 1987 The mannose permease of Escherichia coli consists of three different proteins. Amino acid sequence and function in sugar transport, sugar phosphorylation, and penetration of phage 1 DNA. J. Biol. Chem. 262: 5238-5247.
17. FARABAUGH, P. J., 1978 Sequence of the lacI gene. Nature 274: 770-775.
18. FERENCI, T., M. SCHWENTORAT, S. ULLRICH and J. VILMART, 1980 Lambda receptor in the outer membrane of Escherichia coli as a binding protein for maltodextrins and starch polysaccharides. J. Bacteriol 142: 521-526.
19. FIGGE, R. M., T. M. RAMSEIER and M. H. SAIER, JR., 1994 The mannitol repressor (mtlR) of Escherichia coli. J. Bacteriol. 176: 840-847.
20. GOULD, S. J., and R. C. LEWONTIN, 1979 The spandrels of San Marco and the Panglossian paradigm: a critique of the adaptationist programme. Proc. R. Soc. Lond. B 205: 581-598.
21. HANCOCK, R. E. W., 1987 Model membrane studies of porin function, pp. 187-225 in Bacterial Outer Membranes as Model Systems, edited by M. INOUYE. John Wiley & Sons, New York.
22. JAHKEIS, K., P. W. POSTMA and J. W. LENGELER, 1991 Nucleotide sequence of the ilvH-fruR gene region of Escherichia coli K12 and Salmonella typhimurium LT2. Mol. Gen. Genet. 226: 332-336.
23. KALNINS, A., K. OTTO, U. RUETHER and B. MUELLER-HILL, 1983 Sequence of the lacZ gene of Escherichia coli. EMBO J. 2: 593-597
24. KIMURA, M., 1983 The Neutral Theory of Molecular Evolution. Cambridge University Press, Cambridge.
25. KLEIN, W., and W. BOOS, 1993 Induction of the Lambda receptor is essential for effective uptake of trehalose in Escherichia coli. J. Bacteriol. 175: 1682-1686.
26. KORNBERG, H. L., 1990 Fructose transport by Escherichia coli. Phil. Trans. R. Soc. Lond. B 326: 505-513.
27. KUKURUZINSKA, M. A., W. F. HARRINGTON and S. ROSEMAN, 1982 Sugar transport by the bacterial phosphotransferase system. Studies on the molecular weight and association of enzyme I. J. Biol. Chem. 257: 14470-14476.
28. LEE, C. A., and M. H. SAIER, JR., 1983 Mannitol-specific enzyme II of the bacterial phosphotransferase system. III. Nucleotide sequence of the permease gene. J. Biol. Chem. 258: 10761-10767.
29. LENSKI, R. E., 1988a Experimental studies of pleiotropy and epistasis in Escherichia coli. I. Variation in competitive fitness among mutants resistant to virus T4. Evolution 42: 425-432.
30. LENSKI, R. E., 1988b Experimental studies of pleiotropy and epistasis in Escherichia coli. II. Compensation for maladaptive effects associated with resistance to virus T4. Evolution 42: 433-440.
31. LENSKI, R E., and M. TRAVISANO, 1994 Dynamics of adaptation and diversification: a 10,000-generation experiment with bacterial populations. Proc. Natl. Acad. Sci. USA 91: 6808-6814.
32. LENSKI, R. E., M. R. ROSE, S. C. SIMPSON and S. C. TADLER, 1991 Long-term experimental evolution in Escherichia coli. I. Adaptation and divergence during 2,000 generations. Am. Nat. 138: 1315-1341.
33. LENSKI, R. E., V. SOUZA, L. P. DUONG, Q., G. PHAN, T. N. M. NGUYEN et al., 1994 Epistatic effects of promoter and repressor functions of the Tn10 tetracycline-resistance operon on the fitness of Escherichia coli. Mol. Ecol. 3: 127-135.
34. LEVIN, B. R., F. M. STEWART and L. CHAO, 1977 Resource-limited growth, competition, and predation: a model and experimental studies with bacteria and bacteriophage. Am. Nat. 111: 3-24.
35. LEWONTIN, R. G., 1974 The Genetic Basis of Evolutionary Change. Columbia University Press, New York.
36. LICALSI, C., T. S. CROCENZI, E. FREIRE and S. ROSEMAN, 1991 Sugar transport by the bacterial phosphotransferase system. Structural and thermodynamic domains of Enzyme I of Salmonella typhimuriurn. J. Biol. Chem. 266: 19519-19527.
37. LILJESTROEM, P. L., and P. LILJESTROEM, 1987 Nucleotide sequence of the melA gene, coding for alpha-galactosidase in Escherichia coli K-12. Nucleic Acids Res. 15: 2213-2220.
38. LIN, E. C. C., 1987 Dissimilatory pathways for sugars, polyols, and carboxylates, pp. 244-284 in Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology, edited by F. C. NEIDHARDT. American Society for Microbiology, Washington, DC.
39. MADDOX, J., 1992 Is molecular biology yet a science? Nature 355: 201.
40. MILES, J. S., and J. R. GUEST, 1984 Nucleotide sequence and transcriptional start point of the phosphomannose isomerase gene (manA) of Escherichia coli. Gene 32: 41-48.
41. MILLER, R. G., JR., 1981 Simultaneous Statistical Inference. Springer, New York
42. MONGOLD, J. A., A. F. BENNETT and R. E. LENSKI, 1996 Evolutionary adaptation to temperature. IV. Adaptation of Escherichia coli at a niche boundary. Evolution 50: 35-43.
43. MUELLER, L. D., 1988 Evolution of competitive ability in Drosophila by density-dependent natural selection. Proc. Natl. Acad. Sci. USA 85: 4383-4386.
44. MURAMATSU, S., and T. MIZUNO, 1989 Nucleotide sequence of the region encompassing the glpKF operon and its upstream region containing a bent DNA sequence of Escherichia coli. Nucleic Acids Res. 17: 4378-4378.
45. NAGYLAKI, T., 1977 Selection in One- and Two-focus Systems. Springer, New York.
46. ORCHARD, L. M. D., and H. L. KORNBERG, 1990 Sequence similarities between the gene specifying 1-phosphofructokinase (fruK), genes specifying other kinases in Escherichia coli K12, and lacC of Staphylococcus aureus. Proc. R. Soc. Lond. B 242: 87-90.
47. PERI, K. G., and E. B. WAYGOOD, 1988 Sequence of cloned enzyme II N-acetylglucosamine of the phosphoenolpyruvate:N-acetylglucosamine phosphotransferase system of Escherichia coli. Biochemistry 27: 6014-6019.
48. PERI, K. G., H. GOLDI and E. B. WAYGOOD, 1990 Cloning and characterization of the N-acetylglucosamine operon of Escherichia coli. Biochem. Cell Biol. 68: 123-137.
49. PLUMBRIDGE J., and A. KOLB, 1991 CAP and Nag repressor binding to the regulatory regions of the nagE-B and manX genes of Escherichia coli. J. Mol. Biol. 217: 661-679.
50. POSTMA, P. W., J. W. LENGELER and G. R. JACOBSEN, 1993 Phosphoenolpyruvate:carbohydrate phosphotransferase systems of bacteria. Microbiol. Rev. 57: 543-594.
51. fru of the phosphoenolpyruvate-dependent sugar phosphotransferase system in Escherichia coli K12. J. Gen. Microbiol. 134: 2757-2768.
52. RAMSEIER, T. M., D. NEGRE, J.-C. CORTAY, M. SCARABEL, A. J. COZZONE et al., 1993 In vitro binding of the pleiotropic transcriptional regulatory protein fruR, to the fru, pps, ace, pts and icd operons of Escherichia coli and Salmonella typhimurium. J. Mol. Biol. 234: 28-44.
53. RICE, W. R., 1989 Analyzing tables of statistical tests. Evolution 43: 223-225.
54. ROSE, M. R., 1984 Laboratory evolution of postponed senescence in Drosophila melanogaster. Evolution 38: 1004-1010.
55. ROSE, M. R., P. M. SERVICE and E. W. HUTCHINSON, 1987 Three approaches to trade-offs in life-history evolution, pp. 91-105 in Genetic Constraints on Adaptive Evolution, edited by V. LOESCHCKE. Springer, Berlin.
56. SAIER, M. H., JR., 1989 Protein phosphorylation and allosteric control of inducer exclusion and catabolite repression by the bacterial phosphoenolpyruvate: sugar phosphotransferase system. Microbiol. Rev. 53: 109-120.
57. SAIER, M. H., JR., and J. REIZER, 1992 Proposed uniform nomenclature for the proteins and protein domains of the bacterial phosphoenolpyruvate:sugar phosphotransferase system. J. Bacteriol. 174: 1433-1438.
58. SAIER, M. H., JR., R. D. SIMONI and S. ROSEMAN, 1970 The physiological behavior of enzyme I and heat-stable protein mutants of a bacterial phosphotransferase system. J. Biol. Chem. 245: 5870-5873.
59. SAIER, M. H., JR., J. REIZER, G. M. PAO, L.-F. WU., J. REIZER et al., 1992 Evolution of the bacterial phosphoenolpyruvate:sugar phosphotransferase system. Section II. Molecular considerations, pp. 171-204 in Evolution of Molecular Function, edited by R. P. MORTLOCK. CRC Press, Boca Raton, FL.
60. SAS INSTITUTE, 1988 SAS/STAT User's Guide, Release 6.03. SAS Institute, Cary, NC.
61. SCHINDLER, H., and J. P. ROSENBUSCH, 1978 Matrix protein from Escherichia coli outer membranes forms voltage-controlled channel lipid bilayers. Proc. Natl. Acad. Sci. USA 75: 3751-3755.
62. TRAVISANO, M., F. VASI and R. E. LENSKI, 1995a Long-term experimental evolution in Escherichia coli. III. Variation among replicate populations in correlated responses to novel environments. Evolution 49: 189-200.
63. TRAVISANO, M., J. A. MONGOLD, A. F. BENNETT and R. E. LENSKI, 1995b Experimental tests of the roles of adaptation, chance, and history in evolution. Science 267: 87-90.
64. VASI, F., M. TRAVISANO and R. E. LENSKI, 1994 Long-term experimental evolution in Escherichia coli. II. Changes in life-history traits during adaptation to a seasonal environment. Am. Nat. 144: 432-456.
65. Glc of the phosphoenolpyruvate-dependent glucose phosphotransferase system in Salmonella typhimurium. J. Bacteriol. 176: 3518-3526.
66. WEBSTER, C., L. GARDNER and S. BUSBY, 1989 The Escherichia coli melR gene encodes a DNA-binding protein with affinity for specific sequences located in the melibiose-operon regulatory region. Gene 83: 207-213.
67. WEISSENBORN, D. L., N. WITTEKINDT and T. J. LARSON, 1992 Structure and regulation of the glpFK operon encoding glycerol diffusion facilitator and glycerol kinase of Escherichia coli. J. Biol. Chem. 267: 6122-6131.
68. YAMADA, M., and M. H. SAIER, JR., 1987 Glucitol-specific enzymes of the phosphotransferase system in Escherichia coli. Nucleotide sequence of the gut operon. J. Biol. Chem. 262: 5455-5463.
69. YAMADA, M., and M. H. SAIER, JR., 1988 Positive and negative regulators for glucitol (gut) operon expression in Escherichia coli. J. Mol. Biol. 203: 569-583.
70. YAZYU, H., S. SHIOTA-NIIYA, T. SHIMAMOTO, H. KANAZAWA, M. FUTAI et al., 1984 Nucleotide sequence of the melB gene and characterization of deduced amino acid sequence of the melibiose carrier in Escherichia coli. J. Biol. Chem. 259: 4320-4326.
71. YE, S., and T. J. LARSON, 1988 Structures of the promoter and operator of the glpD gene encoding aerobic sn-glycerol-3-phosphate dehydrogenase of Escherichia coli K-12. J. Bacteriol. 170: 4209-4215.