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

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APPENDIX I yfaV b2246 1.1332 0.0162 YfaV yfbP b2275 1.5584 0.0337 hypothetical protein yfcE b2300 1.5089 0.0198 putative metallo-dependent phosphatase yfcF b2301 1.2969 0.0213 putative glutathione S-transferase yfdK b2354 1.7437 0.0090 hypothetical protein yfdS b2362 1.4456 0.0350 hypothetical protein yfeA b2395 0.4562 0.0281 putative membrane protein yfeR b2409 0.9066 0.0367 putative transcriptional regulator LYSR-type yfgA b2516 0.3313 0.0004 putative membrane protein yfgB b2517 0.5090 0.0150 putative pyruvate formate lyase activating enzyme 2 yfgM b2513 0.5801 0.0186 conserved protein yfhG b2555 0.2721 0.0038 conserved protein yfhL b2562 0.2394 0.0380 putative ferredoxin yfiC b2575 0.0971 0.0043 putative enzyme yfiF b2581 0.3560 0.0086 hypothetical protein yfiH b2593 0.6179 0.0045 conserved hypothetical protein yfjG b2619 1.8649 0.0277 toxin of a putative toxin-antitoxin pair yfjH b2623 0.8041 0.0238 putative histone yfjM b2629 0.7850 0.0144 hypothetical protein ygaH b2683 0.2149 0.0002 putative transport protein ygaZ b2682 0.2232 0.0059 hypothetical protein ygcG b2778 1.3701 0.0023 putative membrane protein ygcL b2760 1.1770 0.0296 hypothetical protein with possible relationship to novobiocin and deoxycholate resistance ygdD b2807 0.3655 0.0005 conserved hypothetical protein ygdK b2811 0.5579 0.0386 conserved hypothetical protein ygeA b2840 0.6668 0.0082 putative resistance protein ygeW b2870 1.5976 0.0306 putative carbamoyl transferase ygfS b2886 1.6634 0.0453 putative oxidoreductase, Fe-S subunit ygfZ b2898 0.4766 0.0063 conserved protein yggD b2929 0.6247 0.0483 putative transcriptional regulator yggH b2960 0.3658 0.0154 tRNA (m7G46) methyltransferase yggJ b2946 0.5829 0.0022 conserved hypothetical protein yggL b2959 0.3754 0.0018 conserved hypothetical protein yggN b2958 0.4816 0.0155 conserved hypothetical protein yggR b2950 1.3249 0.0011 putative protein transport yggT b2952 0.6371 0.0193 putative resistance protein yggU b2953 0.6630 0.0123 conserved hypothetical protein yggX b2962 0.2253 0.0002 conserved hypothetical protein with role in oxidation-resistance of iron-sulfur clusters yghQ b2983 1.1911 0.0240 putative serine protease ygiD b3039 1.3052 0.0295 putative enzyme with dioxygenase domain ygiR b3015 0.5716 0.0207 ygjD b3064 0.5170 0.0195 putative O-sialoglycoprotein endopeptidase ygjK b3080 1.6347 0.0393 putative isomerase ygjO b3084 0.2990 0.0067 hypothetical methyltransferase ygjR b3087 0.7899 0.0217 putative NAD(P)-binding dehydrogenase yhaC b3121 1.3252 0.0082 conserved protein yhaL b3107 1.5740 0.0103 hypothetical protein yhbY b3180 1.3778 0.0003 possible RNA-binding protein yhcB b3233 0.3045 0.0076 conserved hypothetical protein yhcD b3216 1.2268 0.0167 putative outer membrane protein yhcM b3232 0.5048 0.0277 hypothetical protein yhdA b3252 0.2359 0.0129 conserved protein yhdJ b3262 1.4149 0.0321 cell cycle-regulated methyltransferase yheN b3345 0.7700 0.0372 conserved hypothetical protein yheO b3346 0.6517 0.0156 hypothetical protein yhfK b3358 1.2451 0.0042 hypothetical protein yhfP b3372 1.6321 0.0166 121
APPENDIX I yhfY b3382 1.4063 0.0453 conserved protein yhhF b3465 0.5337 0.0473 putative methyltransferase yhhQ b3471 0.5279 0.0413 hypothetical protein; gene is a predicted member of the purine regulon yhhW b3439 1.2975 0.0352 conserved hypothetical protein yhiQ b3497 1.2301 0.0328 putative methyltransferase yhjE b3523 1.3547 0.0178 YhjE MFS transporter yhjW b3546 0.4600 0.0499 putative transmembrane protein yhjY b3548 1.4042 0.0366 putative lipase yiaU b3585 1.7518 0.0059 putative transcriptional regulator LYSR-type yibJ b3595 1.6482 0.0413 hypothetical protein yibK b3606 0.6207 0.0426 hypothetical protein yicE b3654 0.1109 0.0096 YicE NCS2 tranporter yidB b3698 0.6946 0.0443 conserved hypothetical protein yieG b3714 0.1975 0.0106 putative membrane / transport protein yieH b3715 0.3625 0.0303 putative enzyme with a phophatase-like domain yieK b3718 1.6885 0.0200 putative 6-phosphogluconolactonase yifK b3795 0.5430 0.0211 YifK APC transporter yihI b3866 0.2921 0.0024 conserved protein yihL b3872 1.4923 0.0255 YihL transcriptional regulator yihO b3876 1.6352 0.0233 YihO GPH transporter yihU b3882 1.3139 0.0204 putative dehydrogenase yjaH b4001 0.7337 0.0240 conserved protein yjbE b4026 1.7450 0.0047 conserved hypothetical protein yjdA b4109 0.1906 0.0022 hypothetical protein yjeB b4178 0.2074 0.0020 conserved protein with a Winged helix domain yjeH b4141 0.5607 0.0389 YjeH APC transporter yjeK b4146 0.3898 0.0150 hypothetical protein yjgA b4234 0.4405 0.0253 putative transport protein (ABC superfamily, atp_bind) yjgP b4261 0.3739 0.0266 putative transmembrane protein possibly involved in transport yjiA b4352 1.5128 0.0062 P-loop guanosine triphosphatase yjjW b4379 1.3791 0.0400 putative activating enzyme ykfG b0247 1.6946 0.0353 putative DNA repair protein ykgE b0306 0.7957 0.0470 putative dehydrogenase subunit ykgH b0310 1.6076 0.0086 conserved protein ylaC b0458 3.0304 0.0296 putative membrane protein ylbE b0519 1.2920 0.0327 conserved protein yliI b0837 1.4805 0.0023 putative dehydrogenase ymcD b0987 1.4309 0.0262 hypothetical protein ymjA b1295 0.3256 0.0039 hypothetical protein yncD b1451 1.8939 0.0328 Probable TonB-dependent receptor yneG b1523 1.1789 0.0050 conserved hypothetical protein ynfB b1583 0.3934 0.0061 conserved hypothetical protein ynfD b1586 2.2054 0.0346 conserved hypothetical protein ynfN b1551 0.8465 0.0196 hypothetical protein ynhG b1678 1.3503 0.0343 putative ATP synthase subunit yoaB b1809 0.6240 0.0129 conserved protein yobA b1841 0.3019 0.0058 hypothetical protein yobF b1824 2.0754 0.0274 hypothetical protein ypdF b2385 1.4856 0.0415 putative peptidase ypfJ b2475 0.2824 0.0036 conserved protein ypjC b2650 1.8240 0.0458 hypothetical protein ypjE b2613 1.5857 0.0110 yqaA b2689 0.4979 0.0431 putative integral membrane protein yqaB b2690 0.4069 0.0160 putative phosphoglucomutase that contains a phophatase-like domain yqcD b2794 0.6900 0.0288 conserved hypothetical protein yqfA b2899 0.6159 0.0239 putative oxidoreductase yqfB b2900 0.4738 0.0088 conserved hypothetical protein yqiA b3031 0.5976 0.0359 putative hydrolase 122
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Coordinated regulation of gene expr
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Parts of this work has been publish
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ABSTRACT promoter region determines
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ACKNOWLEDGEMENTS first impression o
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TABLE OF CONTENTS 2.2.5 Preparation
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LIST OF TABLES List of tables Table
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LIST OF FIGURES List of Figures Fig
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ABBREVIATIONS Abbreviations ∆61
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ABBREVIATIONS TBE Tris TS tyrT35U t
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INTRODUCTION Salmonella: “In more
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INTRODUCTION Figure 1: Schematic il
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INTRODUCTION UP element -35 -10 Spa
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INTRODUCTION can also influence elo
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INTRODUCTION have more base-pairs t
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INTRODUCTION Figure 6: Graphical re
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INTRODUCTION shown that H-NS reache
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INTRODUCTION formed as a repercussi
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MATERIALS AND METHODS 2 Materials a
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MATERIALS AND METHODS NaCl 10 gm YT
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MATERIALS AND METHODS LZ41 3 pyrF28
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MATERIALS AND METHODS 2.2 Methods 2
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MATERIALS AND METHODS given using a
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MATERIALS AND METHODS phenol: chlor
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MATERIALS AND METHODS Filtered (by
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MATERIALS AND METHODS free water (A
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RESULTS 3 Results Growth phase-depe
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RESULTS Neither the fis nor the hns
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RESULTS these identified genes (by
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RESULTS furthermore the colour of t
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RESULTS During the entire growth cy
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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
Page 87 and 88: REFERENCES Bordes, P., Conter, A.,
Page 89 and 90: REFERENCES Gruber, T.M., and Gross,
Page 91 and 92: REFERENCES molecular basis for sele
Page 93 and 94: REFERENCES Pan, C.Q., Finkel, S.E.,
Page 95 and 96: REFERENCES Schroder, O., and Wagner
Page 97 and 98: REFERENCES Willenbrock, H., and Uss
Page 99 and 100: APPENDIX I gene blattner ratio p-va
Page 127 and 128: APPENDIX I Supplementary table - VI
Page 129 and 130: APPENDIX I fabB b2323 0.6336 0.0043
Page 131 and 132: APPENDIX I ibpA b3687 2.4960 0.0181
Page 133 and 134: APPENDIX I pepP b2908 1.2182 0.0368
Page 135 and 136: APPENDIX I speG b1584 0.4151 0.0001
Page 137: APPENDIX I ycjX b1321 4.0841 0.0141
Page 157 and 158: APPENDIX I gene blattner ratio A/B
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APPENDIX I gene blattner ratio p-va
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APPENDIX I gene blattner ratio A/B
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Statement of sources Declaration I
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