Prokaryotic gene expression:
Gespeichert in:
| Format: | Buch |
|---|---|
| Sprache: | English |
| Veröffentlicht: |
Oxford [u.a.]
Oxford Univ. Press
1999
|
| Ausgabe: | 1. publ. |
| Schriftenreihe: | Frontiers in molecular biology
21 |
| Schlagworte: | |
| Online-Zugang: | Inhaltsverzeichnis |
| Beschreibung: | XX, 325 S. Ill., graph. Darst. |
| ISBN: | 0199636036 0199636044 |
Internformat
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| 245 | 1 | 0 | |a Prokaryotic gene expression |c ed. by Simon Baumberg |
| 250 | |a 1. publ. | ||
| 264 | 1 | |a Oxford [u.a.] |b Oxford Univ. Press |c 1999 | |
| 300 | |a XX, 325 S. |b Ill., graph. Darst. | ||
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| 490 | 1 | |a Frontiers in molecular biology |v 21 | |
| 650 | 4 | |a Expression génique | |
| 650 | 4 | |a Génétique microbienne | |
| 650 | 4 | |a Procaryotes | |
| 650 | 4 | |a Gene Expression | |
| 650 | 4 | |a Gene expression | |
| 650 | 4 | |a Microbial genetics | |
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Datensatz im Suchindex
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| adam_text | Contents
The colour plate is between pages 40 and 41.
List of contributors xvu
Abbreviations xix
1 History and overview l
SIMON BAUMBERG
1. Introduction 1
2. The operon model 1
2.1 Partial diploids and the operator 2
2.2 Developments of the operon model 4
2.3 The operon model becomes biochemistry 5
2.4 The first global regulation system 6
3. Regulation via alternative a factors 7
3.1 Alternative u factors in phage and spore development 7
3.2 Alternative ex factors in metabolic systems 7
4. Separation of signal sensing from control of expression 8
5. A different kind of regulatory mechanism: termination/ 9
anti termination
5.1 Anti terminator proteins 9
5.2 Attenuation: regulation without specific regulatory components 10
6. Post transcriptional control 10
7. The effect of DNA topology 10
8. DNA rearrangements and control of gene expression 11
9. Autoinducers 11
10. Molecular interactions in control of prokaryotic gene expression 12
11. Regulation in specific systems 12
12. Concluding remarks 13
References 14
viii CONTENTS
2 Protein recognition of specific DNA and RNA binding
sites 22
PETER G. STOCKLEY
1. A summary of the field of protein nucleic acid interactions 22
1.1 Introduction 22
1.2 The conformations of nucleic acids 22
1.3 Physical principles of molecular recognition 26
1.4 Nucleic acid binding motifs in proteins 29
2. Examples of protein nucleic acid complexes 33
2.1 Sequence specific DNA protein interactions 33
2.2 Sequence specific RNA protein interactions 44
Postscript 52
Acknowledgements 52
References 52
3 Promoters, sigma factors, and variant RNA
polymerases 59
JOHN D. HELMANN
1. Introduction 59
2. Conserved structure of RNAP 59
2.1 Structure and function of E. coli RNA polymerase 62
3. The bacterial transcription cycle 64
3.1 Promoter localization 64
3.2 Transcript initiation and promoter clearance 66
3.3 Elongation, pausing, and the inchworm model 67
3.4 Termination 69
4. Promoter structure 70
4.1 Discovery of promoter core elements: the 35 and 10 regions 71
4.2 A modern view of promoter structure 71
5. Alternative o factors and their roles 74
5.1 Structural families of alternative sigmas 75
5.2 Regulation of cr factor activity 75
6. Modification of RNAP and transcriptional control 77
6.1 The complex genetic program of phage T4 79
CONTENTS ix
7. Conclusions 79
Acknowledgement 80
References 80
4 Repressors and activators 92
STEPHEN J. W. BUSBY
1. Introduction 92
2. Families of gene regulatory proteins 93
3. Simple activation 93
3.1 Models for activation 93
3.2 The £ coZ; /ac promoter 95
3.3 The phage lambda PRM promoter 97
3.4 otCTD and a70 region 4 both carry contact sites for different activators 97
3.5 MerR and the merT promoter 98
4. Control of transcription factor activity 98
5. Complex activation 100
5.1 Types of complex activation 100
5.2 Mechanisms of complex activation 101
6. Simple repression 105
6.1 The lac repressor 105
6.2 Multiple repressor binding sites 106
6.3 Repressors come in many forms 107
7. Complex repression and anti activation 108
8. Perspectives 108
References 109
5 Post transcriptional control 115
ZHIPING GU AND PAUL S. LOVETT
1. Introduction 115
2. mRNA stability as a regulatory mechanism 116
2.1 The exo ribonucleases 116
2.2 The endo ribonucleases 116
2.3 Control of mRNA stability 117
2.4 Translation effects on mRNA stability 118
x CONTENTS
3. Translational repression 119
3.1 Translational repression of ribosomal protein synthesis 119
3.2 Translational repression in bacteriophage T4 120
3.3 Translational repression in B. subtilis 121
4. Antisense RNA in the control of translation 122
4.1 Osmoregulation of OmpF and OmpC 122
4.2 FinP control of plasmid transfer 123
5. Programmed frame shifting in the post transcriptional control of
release factor 2 123
6. Regulation by translation attenuation 124
6.1 Active role for the regulatory leader 125
7. cis effects of the nascent peptide on translation 126
7.1 Autoinduction of catA86 126
7.2 Ribosome hopping in T4 topoisomerase expression 127
7.3 Rhodanese release from the ribosome is influenced by its N terminal
sequence 128
8. mRNArecoding 128
8.1 Incorporation of selenocysteine at UGA 128
9. Conclusions 129
References 130
6 Prokaryotic DNA topology and gene expression 141
KARL DRLICA, ERDEN DALAI WU, CHANG RUNG CHEN, JIAN YING WANG,
XILIN ZHAO, CHEN XU, LIN QIU, MUHAMMAD MALIK, SAMUEL KAYMAN,
AND S. MARVIN FRIEDMAN
1. Introduction 141
2. DNA topoisomerases 142
2.1 Gyrase and topoisomerase I 142
2.2 Topoisomerase III 143
2.3 Topoisomerase IV 143
3. Cellular energetics, environment, and the control of supercoiling 143
4. DNA relaxation and exposure to high temperature 145
5. Effects of transcription on supercoiling 147
6. DNA twist and transcription initiation 149
7. Bent DNA 151
8. DNA looping 152
CONTENTS xi
9. DNA bending proteins 153
9.1 HU 153
9.2 IHF 154
9.3 FIS 155
9.4 H NS 156
10. Concluding remarks 157
Acknowledgements 158
References 158
7 Integration of control devices: A global regulatory
network in Escherichia coli 169
REGINE HENGGE ARONIS
1. Introduction 169
2. Characteristics of regulatory networks 170
3. The balance between the two primary sigma factors a70 and rs 171
4. Control of the cellular level of cts 173
4.1 rpoS transcription 173
4.2 rpoS translation 174
4.3 cts turnover 174
5. The stationary phase regulatory network 175
5.1 Fine regulation by the cAMP CRP complex, Lrp, IHF, and Fis 177
5.2 The role of the histone like protein H NS 178
5.3 Molecular structure of stationary phase inducible promoter regions 179
5.4 Regulatory cascades within the crs regulon and connections to other
regulatory circuits 179
6. Connections between the responses to stationary phase, high
osmolarity, and oxidative stress 180
7. Signal transduction 182
7.1 Small signal molecules 182
7.2 Two component systems as signal transducers 182
8. Perspectives 184
References 185
8 Two component systems 194
MARIETTE R. ATKINSON AND ALEXANDER J. NINFA
1 Introduction 194
x CONTENTS
3. Translational repression 119
3.1 Translational repression of ribosomal protein synthesis 119
3.2 Translational repression in bacteriophage T4 120
3.3 Translational repression in B. subtilis 121
4. Antisense RNA in the control of translation 122
4.1 Osmoregulation of OmpF and OmpC 122
4.2 FinP control of plasmid transfer 123
5. Programmed frame shifting in the post transcriptional control of
release factor 2 123
6. Regulation by translation attenuation 124
6.1 Active role for the regulatory leader 125
7. cis effects of the nascent peptide on translation 126
7.1 Autoinduction of catA86 126
7.2 Ribosome hopping in T4 topoisomerase expression 127
7.3 Rhodanese release from the ribosome is influenced by its N terminal
sequence 128
8. mRNA recoding 128
8.1 Incorporation of selenocysteine at UGA 128
9. Conclusions 129
References 130
6 Prokaryotic DNA topology and gene expression 141
KARL DRLICA, ERDEN DALAI WU, CHANG RUNG CHEN, JIAN YING WANG,
XILIN ZHAO, CHEN XU, LIN QIU, MUHAMMAD MALIK, SAMUEL KAYMAN,
AND S. MARVIN FRIEDMAN
1. Introduction 141
2. DNA topoisomerases 142
2.1 Gyrase and topoisomerase I 142
2.2 Topoisomerase III 143
2.3 Topoisomerase IV 143
3. Cellular energetics, environment, and the control of supercoiling 143
4. DNA relaxation and exposure to high temperature 145
5. Effects of transcription on supercoiling 147
6. DNA twist and transcription initiation 149
7. Bent DNA 151
8. DNA looping 152
CONTENTS xi
9. DNA bending proteins 153
9.1 HU 153
9.2 IHF 154
9.3 FIS 155
9.4 H NS 156
10. Concluding remarks 157
Acknowledgements 158
References 158
7 Integration of control devices: A global regulatory
network in Escherichia coli 169
REGINE HENGGE ARONIS
1. Introduction 169
2. Characteristics of regulatory networks 170
3. The balance between the two primary sigma factors o 70 and as 171
4. Control of the cellular level of o s 173
4.1 rpoS transcription 173
4.2 rpoS translation 174
4.3 crs turnover 174
5. The stationary phase regulatory network 175
5.1 Fine regulation by the c AMP CRP complex, Lrp, IHF, and Fis 177
5.2 The role of the histone like protein H NS 178
5.3 Molecular structure of stationary phase inducible promoter regions 179
5.4 Regulatory cascades within the crs regulon and connections to other
regulatory circuits 179
6. Connections between the responses to stationary phase, high
osmolarity, and oxidative stress 180
7. Signal transduction 182
7.1 Small signal molecules 182
7.2 Two component systems as signal transducers 182
8. Perspectives 184
References 185
8 Two component systems 194
MARIETTE R. ATKINSON AND ALEXANDER J. NINFA
1 Introduction 194
xii CONTENTS
2. Overview of homologies and domain relationships of the HPK and
RR proteins 201
3. Overview of the phosphotransf er reactions involving HPK and RR
proteins 207
4. Conclusions 214
References 215
9 Switch systems 229
J. R. SAUNDERS
1. Introduction
2. Strand slippage mechanisms and variable gene expression 229
2.1 Transcriptional modulation of phase variation 230
2.2 Translational modulation of variation 233
3. Phase switching by DNA inversion 237
3.1 Type 1 fimbriae in Escherichia coli 237
3.2 Salmonella Hin mediated inversion 238
3.3 Gin and other Hin family invertible systems 239
3.4 Methylation as a controlling switch 239
3.5 Shuffling systems—multiple inversions 241
4. Variation by homologous recombination 243
4.1 Recombinational phase and antigenic variation in pilins of pathogenic
Neisseria 244
4.2 Antigenic variation in Borrelia 247
5. Concluding remarks 247
References 248
10 Integration of control devices. I. Pathogenicity 253
CHARLES J. DORMAN
1. Introduction 253
2. The host as an environment 254
3. Thermo osmotic control of virulence gene expression in Shigellaflexneri 255
3.1 Shigellaflexneri pathogenicity 255
3.2 Virulence plasmid encoded regulators 255
3.3 Negative regulation by H NS 255
3.4 Sensitivity to variations in DNA supercoiling 256
CONTENTS xiii
3.5 Regulatory model 256
3.6 Other regulatory factors 257
3.7 Gene regulation and the ecology of the disease 257
4. Pleiotropic regulators of gene expression and virulence in Salmonella
typhimurium 258
4.1 Salmonella typhimurium is a facultative intracellular pathogen 258
4.2 Gene regulation and Salmonella virulence 258
4.3 cAMP CRP mutants and virulence attenuation 258
4.4 Histidine protein kinase and response regulator two component
systems as regulators of virulence gene expression in Salmonella 259
4.5 The plasmid encoded spv virulence genes: regulation by growth phase 260
4.6 The H NS protein as a regulator of Salmonella virulence 261
4.7 Regulation of Salmonella invasion gene expression 261
5. The virulence gene regulatory cascade of Vibrio cholerae 262
5.1 Cholera and cholera toxin 262
5.2 Cholera toxin genes are subject to amplification 262
5.3 Cholera toxin genes are encoded by a bacteriophage 262
5.4 ToxR, ToxS, and the control of ctxAB expression 263
5.5 Vibrio cholerae has a ToxR dependent virulence gene regulon 263
5.6 ToxT is an intermediate regulator of ToxR dependent genes 264
5.7 The heat shock response and the expression of ToxR 264
5.8 DNA topology and Vibrio cholerae virulence gene expression 264
6. Control of virulence gene expression in Bordetella pertussis 265
6.1 The virulence determinants of Bordetella pertussis 265
6.2 Coordinate control of virulence factor expression 265
6.3 Transcriptional control of BvgAS expression 266
6.4 Temporal control of gene expression in the Bvg regulon 266
6.5 Direct and indirect control of Bvg regulon promoters 266
6.6 Multilevel control of Bordetella pertussis fimbrial gene expression 267
6.7 DNA topology and pertussis toxin gene expression 267
7. Regulation of virulence gene expression in Agrobacterium
tumefaciens, a plant pathogen 268
7.1 The virulence system of Agrobacterium tumefaciens 268
7.2 The infection process and the plant host environment 268
7.3 T DNA transfer and expression 269
7.4 Regulation of virulence gene expression in Agrobacterium tumefaciens 269
8. Autoinducers and virulence gene expression 270
9. Host cell contact and virulence gene expression 271
10. Iron and bacterial virulence gene expression 271
xiv CONTENTS
11. Concluding remarks 272
Acknowledgements 272
References 273
11 Integration of control devices. II. Sporulation and
antibiotic production 281
MICHAEL D. YUDKIN AND KEITH F. CHATER
1. Introduction 281
2. Spore formation in B. subtilis 282
2.1 Morphological changes during sporulation of B. subtilis 282
2.2 spo mutations and sporulation genes 284
2.3 Different forms of RNA polymerase play a central role in sporulation 285
2.4 Initiation of sporulation 285
2.5 Establishing compartment specific gene expression 288
2.6 Gene expression in the forespore after engulfment 290
2.7 Gene expression in the mother cell 291
2.8 Understanding sporulation in B. subtilis is an unfinished story 292
3. The development of spore chains in the aerial mycelium of Streptomyces
coelicolor 292
3.1 Mutations affecting sporulation in S. coelicolor 294
3.2 Initiation of aerial growth: evidence for the involvement of extracellular
signals and specialized codon usage 295
3.3 The early and later stages of sporulation in aerial hyphae of S. coelicolor
appear to be directed by different sigma factors 297
3.4 The genetic determination of physiological processes that occur in two distinct
spatial locations 299
4. Genetic regulation of antibiotic production in sporulating bacteria 301
4.1 Regulation of surfactin biosynthesis in B. subtilis 301
4.2 The expression of antibiotic production genes in Streptomyces spp. 302
5. Perspectives 304
Acknowledgements 305
References 305
12 Evolution of prokaryotic regulatory systems 311
SIMON BAUMBERG
1 Introduction 311
CONTENTS xv
2 Origins of regulatory molecules and sequences 311
3 Selective pressures leading to the evolution of regulatory systems 312
4 Why are there different control mechanisms for the same system in different
organisms? 314
5 Final considerations 315
References 315
Index 317
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| genre | (DE-588)4143413-4 Aufsatzsammlung gnd-content |
| genre_facet | Aufsatzsammlung |
| id | DE-604.BV012486615 |
| illustrated | Illustrated |
| indexdate | 2024-07-09T18:28:26Z |
| institution | BVB |
| isbn | 0199636036 0199636044 |
| language | English |
| oai_aleph_id | oai:aleph.bib-bvb.de:BVB01-008475327 |
| oclc_num | 40395874 |
| open_access_boolean | |
| owner | DE-703 DE-20 DE-12 DE-355 DE-BY-UBR DE-11 |
| owner_facet | DE-703 DE-20 DE-12 DE-355 DE-BY-UBR DE-11 |
| physical | XX, 325 S. Ill., graph. Darst. |
| publishDate | 1999 |
| publishDateSearch | 1999 |
| publishDateSort | 1999 |
| publisher | Oxford Univ. Press |
| record_format | marc |
| series | Frontiers in molecular biology |
| series2 | Frontiers in molecular biology |
| spelling | Prokaryotic gene expression ed. by Simon Baumberg 1. publ. Oxford [u.a.] Oxford Univ. Press 1999 XX, 325 S. Ill., graph. Darst. txt rdacontent n rdamedia nc rdacarrier Frontiers in molecular biology 21 Expression génique Génétique microbienne Procaryotes Gene Expression Gene expression Microbial genetics Prokaryotes Prokaryotic Cells Genexpression (DE-588)4020136-3 gnd rswk-swf Mikroorganismus (DE-588)4039226-0 gnd rswk-swf Prokaryoten (DE-588)4201051-2 gnd rswk-swf Genetik (DE-588)4071711-2 gnd rswk-swf (DE-588)4143413-4 Aufsatzsammlung gnd-content Prokaryoten (DE-588)4201051-2 s Genexpression (DE-588)4020136-3 s DE-604 Genetik (DE-588)4071711-2 s Mikroorganismus (DE-588)4039226-0 s Baumberg, Simon Sonstige oth Frontiers in molecular biology 21 (DE-604)BV010329078 21 HBZ Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=008475327&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis |
| spellingShingle | Prokaryotic gene expression Frontiers in molecular biology Expression génique Génétique microbienne Procaryotes Gene Expression Gene expression Microbial genetics Prokaryotes Prokaryotic Cells Genexpression (DE-588)4020136-3 gnd Mikroorganismus (DE-588)4039226-0 gnd Prokaryoten (DE-588)4201051-2 gnd Genetik (DE-588)4071711-2 gnd |
| subject_GND | (DE-588)4020136-3 (DE-588)4039226-0 (DE-588)4201051-2 (DE-588)4071711-2 (DE-588)4143413-4 |
| title | Prokaryotic gene expression |
| title_auth | Prokaryotic gene expression |
| title_exact_search | Prokaryotic gene expression |
| title_full | Prokaryotic gene expression ed. by Simon Baumberg |
| title_fullStr | Prokaryotic gene expression ed. by Simon Baumberg |
| title_full_unstemmed | Prokaryotic gene expression ed. by Simon Baumberg |
| title_short | Prokaryotic gene expression |
| title_sort | prokaryotic gene expression |
| topic | Expression génique Génétique microbienne Procaryotes Gene Expression Gene expression Microbial genetics Prokaryotes Prokaryotic Cells Genexpression (DE-588)4020136-3 gnd Mikroorganismus (DE-588)4039226-0 gnd Prokaryoten (DE-588)4201051-2 gnd Genetik (DE-588)4071711-2 gnd |
| topic_facet | Expression génique Génétique microbienne Procaryotes Gene Expression Gene expression Microbial genetics Prokaryotes Prokaryotic Cells Genexpression Mikroorganismus Prokaryoten Genetik Aufsatzsammlung |
| url | http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=008475327&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |
| volume_link | (DE-604)BV010329078 |
| work_keys_str_mv | AT baumbergsimon prokaryoticgeneexpression |