DNA topology-mediated control of global gene expression in Escherichia coli.
暂无分享,去创建一个
G. W. Hatfield | G Wesley Hatfield | C. Benham | Craig J Benham | Andrew M. Hudson | Ian W. Duncan | Alcino J. Silva
[1] D. E. Atkinson,et al. Adenine nucleotide concentrations and turnover rates. Their correlation with biological activity in bacteria and yeast. , 1977, Advances in microbial physiology.
[2] D. Pettijohn,et al. Supercoils in prokaryotic DNA restrained in vivo. , 1980, Proceedings of the National Academy of Sciences of the United States of America.
[3] R. Wells,et al. Stabilization of Z DNA in vivo by localized supercoiling. , 1989, Science.
[4] C. Benham,et al. Torsional stress and local denaturation in supercoiled DNA. , 1979, Proceedings of the National Academy of Sciences of the United States of America.
[5] Robert D. Wells,et al. Left-handed Z-DNA is induced by supercoiling in physiological ionic conditions , 1982, Nature.
[6] J. Wang,et al. DNA supercoiling in vivo. , 1988, Biophysical chemistry.
[7] G. W. Hatfield,et al. Nucleotide sequence and in vivo expression of the ilvY and ilvC genes in Escherichia coli K12. Transcription from divergent overlapping promoters. , 1986, The Journal of biological chemistry.
[8] R. J. Franco,et al. Inhibitors of DNA topoisomerases. , 1988, Biochemistry.
[9] L. Rothman-Denes,et al. Supercoil-induced extrusion of a regulatory DNA hairpin. , 1997, Proceedings of the National Academy of Sciences of the United States of America.
[10] R. Gourse,et al. A third recognition element in bacterial promoters: DNA binding by the alpha subunit of RNA polymerase. , 1993, Science.
[11] H. Westerhoff,et al. Energy buffering of DNA structure fails when Escherichia coli runs out of substrate , 1995, Journal of bacteriology.
[12] R. Gourse,et al. Identification of an UP element consensus sequence for bacterial promoters. , 1998, Proceedings of the National Academy of Sciences of the United States of America.
[13] C. Benham,et al. Stress-induced duplex DNA destabilization in scaffold/matrix attachment regions. , 1997, Journal of molecular biology.
[14] P. Sander,et al. Mechanisms of upstream activation of the rrnD promoter P1 of Escherichia coli. , 1993, The Journal of biological chemistry.
[15] G W Hatfield,et al. Activation of Gene Expression by a Ligand-induced Conformational Change of a Protein-DNA Complex* , 1998, The Journal of Biological Chemistry.
[16] D. Lilley,et al. The inverted repeat as a recognizable structural feature in supercoiled DNA molecules. , 1980, Proceedings of the National Academy of Sciences of the United States of America.
[17] M. Gellert,et al. Regulation of the genes for E. coli DNA gyrase: Homeostatic control of DNA supercoiling , 1983, Cell.
[18] R. Sternglanz,et al. Escherichia coli DNA topoisomerase I mutants have compensatory mutations at or near DNA gyrase genes. , 1983, Cold Spring Harbor symposia on quantitative biology.
[19] G. W. Hatfield,et al. Activation and repression of transcription initiation by a distant DNA structural transition , 2001, Molecular microbiology.
[20] R. Sinden,et al. Reduced 4,5',8-trimethylpsoralen cross-linking of left-handed Z-DNA stabilized by DNA supercoiling. , 1987, Biochemistry.
[21] M. Syvanen,et al. DNA twist as a transcriptional sensor for environmental changes , 1992, Molecular microbiology.
[22] M. Inouye,et al. The cold‐shock response — a hot topic , 1994, Molecular microbiology.
[23] N. Fujita,et al. Promoter selectivity of Escherichia coli RNA polymerase E sigma 70 and E sigma 38 holoenzymes. Effect of DNA supercoiling. , 1996, The Journal of biological chemistry.
[24] G W Hatfield,et al. Inhibition of DNA Supercoiling-dependent Transcriptional Activation by a Distant B-DNA to Z-DNA Transition* , 1999, The Journal of Biological Chemistry.
[25] A. Khodursky,et al. Roles of Topoisomerases in Maintaining Steady-state DNA Supercoiling in Escherichia coli * , 2000, The Journal of Biological Chemistry.
[26] R. Gourse,et al. Molecular anatomy of a transcription activation patch: FIS–RNA polymerase interactions at the Escherichia coli rrnB P1 promoter , 1997, The EMBO journal.
[27] A. Luttinger,et al. The twisted ‘life’ of DNA in the cell: bacterial topoisomerases , 1995, Molecular microbiology.
[28] K. Drlica,et al. Escherichia coli DNA topoisomerase I mutants: Increased supercoiling is corrected by mutations near gyrase genes , 1982, Cell.
[29] F. Neidhardt,et al. Induction of proteins in response to low temperature in Escherichia coli , 1987, Journal of bacteriology.
[30] H V Westerhoff,et al. Control of DNA structure and gene expression. , 1990, Biomedica biochimica acta.
[31] C. Laufer,et al. Genetic analysis of mutations that compensate for loss of Escherichia coli DNA topoisomerase I , 1985, Journal of bacteriology.
[32] J. Dahlberg,et al. Topology and formation of triple-stranded H-DNA. , 1989, Science.
[33] R. Gourse,et al. The transcriptional activator protein FIS: DNA interactions and cooperative interactions with RNA polymerase at the Escherichia coli rrnB P1 promoter. , 1995, Journal of molecular biology.
[34] D. E. Atkinson,et al. Biological feedback control at the molecular level. , 1965, Science.
[35] R. J. Franco,et al. Topoisomerase mutations affect the relative abundance of many Escherichia coli proteins , 1993, Molecular microbiology.
[36] D. E. Atkinson,et al. Adenylate Energy Charge in Escherichia coli During Growth and Starvation , 1971, Journal of bacteriology.
[37] A. Ninfa,et al. DNA supercoiling allows enhancer action over a large distance , 2001, Proceedings of the National Academy of Sciences of the United States of America.
[38] G. W. Hatfield,et al. Multivalent translational control of transcription termination at attenuator of ilvGEDA operon of Escherichia coli K-12. , 1980, Proceedings of the National Academy of Sciences of the United States of America.
[39] G. W. Hatfield,et al. Transcriptional activation at adjacent operators in the divergent-overlapping ilvY and ilvC promoters of Escherichia coli. , 1988, Journal of molecular biology.
[40] Y. Tse‐Dinh. Regulation of the Escherichia coli DNA topoisomerase I gene by DNA supercoiling , 1985, Nucleic Acids Res..
[41] K. Drlica,et al. Cross-talk between topoisomerase I and HU in Escherichia coli. , 1996, Journal of molecular biology.
[42] C. Yanofsky,et al. Transcription attenuation. , 1988, The Journal of biological chemistry.
[43] M. Freundlich,et al. Nucleotide sequence of the ilvB promoter-regulatory region: a biosynthetic operon controlled by attenuation and cyclic AMP. , 1982, Proceedings of the National Academy of Sciences of the United States of America.
[44] S. Wessler,et al. leu operon of Salmonella typhimurium is controlled by an attenuation mechanism. , 1979, Proceedings of the National Academy of Sciences of the United States of America.
[45] C. Benham,et al. Energetics of the strand separation transition in superhelical DNA. , 1992, Journal of molecular biology.
[46] Craig J. Benham,et al. Theoretical analysis of heteropolymeric transitions in superhelical DNA molecules of specified sequence , 1990 .
[47] S. Nedospasov,et al. Histone-like proteins in the purified Escherichia coli deoxyribonucleoprotein. , 1977, Nucleic acids research.
[48] D. Lilley. Understanding DNA: The molecule and how it works , 1993 .
[49] K. Drlica,et al. Control of bacterial DNA supercoiling , 1992, Molecular microbiology.
[50] C. Benham,et al. Duplex destabilization in superhelical DNA is predicted to occur at specific transcriptional regulatory regions. , 1996, Journal of molecular biology.
[51] G W Hatfield,et al. Characterization of the integration host factor binding site in the ilvPG1 promoter region of the ilvGMEDA operon of Escherichia coli. , 1990, The Journal of biological chemistry.
[52] G W Hatfield,et al. DNA supercoiling‐dependent transcriptional coupling between the divergently transcribed promoters of the ilvYC operon of Escherichia coli is proportional to promoter strengths and transcript lengths , 2001, Molecular microbiology.
[53] J. Wang,et al. Supercoiling of the DNA template during transcription. , 1987, Proceedings of the National Academy of Sciences of the United States of America.
[54] L. Fisher,et al. An Escherichia coli DNA topoisomerase I mutant has a compensatory mutation that alters two residues between functional domains of the DNA gyrase A protein , 1992, Journal of bacteriology.
[55] G. W. Hatfield,et al. Effects of Integration Host Factor and DNA Supercoiling on Transcription from the ilvPG Promoter of Escherichia coli* , 1996, The Journal of Biological Chemistry.
[56] H. E. Umbarger. Regulation of the Biosynthesis of the Branched-Chain Amino Acids , 1969 .
[57] C. Higgins,et al. Localized domains of DNA supercoiling: topological coupling between promoters , 1996, Molecular microbiology.
[58] G W Hatfield,et al. Transcriptional coupling between the divergent promoters of a prototypic LysR-type regulatory system, the ilvYC operon of Escherichia coli. , 1999, Proceedings of the National Academy of Sciences of the United States of America.
[59] Craig J. Benham,et al. Activation of Gene Expression by a Novel DNA Structural Transmission Mechanism That Requires Supercoiling-induced DNA Duplex Destabilization in an Upstream Activating Sequence* , 1998, The Journal of Biological Chemistry.
[60] L. Fisher,et al. Regulation of DNA supercoiling in Escherichia coli: Genetic basis of a compensatory mutation in DNA gyrase , 1989, FEBS letters.
[61] C. A. Hauser,et al. Nucleotide sequence of the ilvB multivalent attenuator region of Escherichia coli K12 , 1983, Nucleic Acids Res..
[62] G. Steger,et al. Thermal denaturation of double-stranded nucleic acids: prediction of temperatures critical for gradient gel electrophoresis and polymerase chain reaction. , 1994, Nucleic acids research.
[63] L. Hsieh,et al. Bacterial DNA supercoiling and [ATP]/[ADP] ratio: changes associated with salt shock , 1991, Journal of bacteriology.
[64] Miguel Antonio Aon,et al. Altered topoisomerase activities may be involved in the regulation of DNA supercoiling in aerobic-anaerobic transitions inEscherichia coli , 1993, Molecular and Cellular Biochemistry.
[65] M. Yaniv,et al. E. coli DNA binding protein HU forms nucleosome-like structure with circular double-stranded DNA , 1979, Cell.
[66] H. Blöcker,et al. Predicting DNA duplex stability from the base sequence. , 1986, Proceedings of the National Academy of Sciences of the United States of America.
[67] M. Zacharias,et al. Analysis of the Fis-dependent and Fis-independent transcription activation mechanisms of the Escherichia coli ribosomal RNA P1 promoter. , 1992, Biochemistry.
[68] R. C. Johnson,et al. DNA binding and bending are necessary but not sufficient for Fis-dependent activation of rrnB P1 , 1993, Journal of bacteriology.
[69] D. Lockshon,et al. Escherichia coli DNA topoisomerase III: purification and characterization of a new type I enzyme. , 1984, Biochemistry.
[70] J. Gralla,et al. Supercoiling response of the lac ps promoter in vitro. , 1985, Journal of molecular biology.
[71] K. Drlica,et al. DNA gyrase, topoisomerase IV, and the 4-quinolones , 1997, Microbiology and molecular biology reviews : MMBR.
[72] E. L. Zechiedrich,et al. Topoisomerase IV, alone, unknots DNA in E. coli. , 2001, Genes & development.
[73] Hongzhi Sun,et al. Monte Carlo analysis of conformational transitions in superhelical DNA , 1995 .
[74] C. Calladine,et al. Understanding DNA: The Molecule & How It Works , 1992 .
[75] N. Cozzarelli,et al. Use of site-specific recombination as a probe of DNA structure and metabolism in vivo. , 1987, Journal of molecular biology.
[76] H. Drew,et al. Negative supercoiling induces spontaneous unwinding of a bacterial promoter. , 1985, The EMBO journal.
[77] M. Schell. Molecular biology of the LysR family of transcriptional regulators. , 1993, Annual review of microbiology.
[78] M. Buckle,et al. FIS activates sequential steps during transcription initiation at a stable RNA promoter , 1997, The EMBO journal.
[79] Ian R. Booth,et al. A physiological role for DNA supercoiling in the osmotic regulation of gene expression in S. typhimurium and E. coli , 1988, Cell.
[80] H. E. Umbarger,et al. Nucleotide sequence of ilvGEDA operon attenuator region of Escherichia coli. , 1980, Proceedings of the National Academy of Sciences of the United States of America.
[81] A. Urios,et al. Expression of the recA gene is reduced in Escherichia coli topoisomerase I mutants. , 1990, Mutation research.
[82] Y. Tse‐Dinh,et al. Multiple promoters for transcription of the Escherichia coli DNA topoisomerase I gene and their regulation by DNA supercoiling. , 1988, Journal of molecular biology.
[83] C. Benham,et al. Sites of predicted stress-induced DNA duplex destabilization occur preferentially at regulatory loci. , 1993, Proceedings of the National Academy of Sciences of the United States of America.
[84] S Henikoff,et al. A large family of bacterial activator proteins. , 1988, Proceedings of the National Academy of Sciences of the United States of America.
[85] D. Eick,et al. Multiple single-stranded cis elements are associated with activated chromatin of the human c-myc gene in vivo , 1996, Molecular and cellular biology.
[86] R. Gourse,et al. Both fis-dependent and factor-independent upstream activation of the rrnB P1 promoter are face of the helix dependent. , 1992, Nucleic acids research.
[87] D. E. Atkinson. Regulation of enzyme function. , 1969, Annual review of microbiology.
[88] Dmitry Pokholok,et al. Multiple Mechanisms Are Used for Growth Rate and Stringent Control of leuV Transcriptional Initiation inEscherichia coli , 1999, Journal of bacteriology.
[89] D. Natale,et al. Stable DNA unwinding, not "breathing," accounts for single-strand-specific nuclease hypersensitivity of specific A+T-rich sequences. , 1988, Proceedings of the National Academy of Sciences of the United States of America.
[90] N. Cozzarelli. DNA gyrase and the supercoiling of DNA. , 1980, Science.
[91] L. Rothman-Denes,et al. DNA structure and transcription. , 1999, Current opinion in microbiology.
[92] W. Reznikoff,et al. Escherichia coli DNA Topoisomerase I and Suppression of Killing by Tn5 Transposase Overproduction: Topoisomerase I Modulates Tn5 Transposition , 1998, Journal of bacteriology.
[93] C. Benham. Theoretical analysis of transitions between B- and Z-conformations in torsionally stressed DNA , 1980, Nature.
[94] G. W. Hatfield,et al. The effects of DNA supercoiling on the expression of operons of the ilv regulon of Escherichia coli suggest a physiological rationale for divergently transcribed operons , 2001, Molecular microbiology.
[95] G. W. Hatfield,et al. Transcriptional activation by protein-induced DNA bending: evidence for a DNA structural transmission model. , 1996, Proceedings of the National Academy of Sciences of the United States of America.
[96] F. Neidhardt,et al. Escherichia Coli and Salmonella: Typhimurium Cellular and Molecular Biology , 1987 .
[97] J. Calvo,et al. The leucine-responsive regulatory protein, a global regulator of metabolism in Escherichia coli , 1994, Microbiological reviews.
[98] Craig J. Benham,et al. Exact method for numerically analyzing a model of local denaturation in superhelically stressed DNA , 1999 .
[99] J. Rouvière-Yaniv,et al. Localization of the HU protein on the Escherichia coli nucleoid. , 1978, Cold Spring Harbor symposia on quantitative biology.
[100] R. Gourse,et al. Activation of Escherichia coli leuVTranscription by FIS , 1999, Journal of bacteriology.