Coordinated regulation of gene expression by E ... - Jacobs University

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LIST OF TABLES Supplementary table XI LZ54 wild-type Vs LZ54 ∆fis …...…………. 160 Supplementary table XII LZ41 wild-type Vs LZ41 ∆hns ……….. .….. 167 Supplementary table XIII LZ54 wild-type Vs LZ54 ∆hns ……….. .….. 179 V
LIST OF FIGURES List of Figures Figure 1: Schematic illustration of operation of the genetic system involving an alternation of the digital (discontinuous) and analog (continuous) information. ... 4 Figure 2: Structure of consensus Eσ70 promoter showing functionally important region. ……………………………………………………………………………… 6 Figure 3: Structural profiles of Sigma70 and Sigma54 promoter regions. …….. 7 Figure 4: In vitro transcription from fis & bla promoters at different superhelical densities …………………………………………………………………………….. 8 Figure 5: Schematic representation of core promoters with different spacer length. ……………………………………………………………...………………... 9 Figure 6: Graphical representation of global DNA topology changing with growth ......................................................................................................................................... 12 Figure 7: Abundance of NAPs during different phases of growth . ........................ 13 Figure 8: Growth phase-dependent change in the level of different forms of the RNA polymerase.. ......................................................................................................... 15 Figure 9: Overview of comparative gene expression of wild-type & fis (example) analysis using microarrays. .......................................................................................... 29 Figure 10: Growth curves of CSH50 wild-type and the mutants. ........................... 35 Figure 11: Design of DNA microarray experiments. ................................................ 37 VI
Page 1 and 2: Coordinated regulation of gene expr
Page 3 and 4: Parts of this work has been publish
Page 5 and 6: ABSTRACT promoter region determines
Page 7 and 8: ACKNOWLEDGEMENTS first impression o
Page 9 and 10: TABLE OF CONTENTS 2.2.5 Preparation
Page 11: LIST OF TABLES List of tables Table
Page 15 and 16: ABBREVIATIONS Abbreviations ∆61
Page 17 and 18: ABBREVIATIONS TBE Tris TS tyrT35U t
Page 19 and 20: INTRODUCTION Salmonella: “In more
Page 21 and 22: INTRODUCTION Figure 1: Schematic il
Page 23 and 24: INTRODUCTION UP element -35 -10 Spa
Page 25 and 26: INTRODUCTION can also influence elo
Page 27 and 28: INTRODUCTION have more base-pairs t
Page 29 and 30: INTRODUCTION Figure 6: Graphical re
Page 31 and 32: INTRODUCTION shown that H-NS reache
Page 33 and 34: INTRODUCTION formed as a repercussi
Page 35 and 36: MATERIALS AND METHODS 2 Materials a
Page 37 and 38: MATERIALS AND METHODS NaCl 10 gm YT
Page 39 and 40: MATERIALS AND METHODS LZ41 3 pyrF28
Page 41 and 42: MATERIALS AND METHODS 2.2 Methods 2
Page 43 and 44: MATERIALS AND METHODS given using a
Page 45 and 46: MATERIALS AND METHODS phenol: chlor
Page 47 and 48: MATERIALS AND METHODS Filtered (by
Page 49 and 50: MATERIALS AND METHODS free water (A
Page 51 and 52: RESULTS 3 Results Growth phase-depe
Page 53 and 54: RESULTS Neither the fis nor the hns
Page 55 and 56: RESULTS these identified genes (by
Page 57 and 58: RESULTS furthermore the colour of t
Page 59 and 60: RESULTS During the entire growth cy
Page 61 and 62: RESULTS transcripts of a growth pha
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RESULTS phosphorylation, are associ
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RESULTS Table 4: RT-PCR analysis of
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RESULTS Figure 16: Schematic repres
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RESULTS parC) which allows the supe
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RESULTS Figure 19: In vitro transcr
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RESULTS contrast the tyrTD promoter
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DISCUSSION 4 Discussion The idea of
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DISCUSSION In a study by Balke & Gr
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DISCUSSION cells maintain viability
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DISCUSSION writhe in the UAS by FIS
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DISCUSSION 4.3.2 Mechanism of trans
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CONCLUSION 5 Conclusion Regulation
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REFERENCES Bordes, P., Conter, A.,
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REFERENCES Gruber, T.M., and Gross,
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REFERENCES molecular basis for sele
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REFERENCES Pan, C.Q., Finkel, S.E.,
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REFERENCES Schroder, O., and Wagner
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REFERENCES Willenbrock, H., and Uss
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APPENDIX I gene blattner ratio p-va
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APPENDIX I Supplementary table - VI
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APPENDIX I fabB b2323 0.6336 0.0043
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APPENDIX I ibpA b3687 2.4960 0.0181
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APPENDIX I pepP b2908 1.2182 0.0368
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APPENDIX I speG b1584 0.4151 0.0001
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APPENDIX I ycjX b1321 4.0841 0.0141
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APPENDIX I yhfY b3382 1.4063 0.0453
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APPENDIX I gene blattner ratio A/B
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Statement of sources Declaration I
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