Readings

WEEK # TOPICS READINGS
1

Introduction

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[No Readings]
2

The general stress response and sporulation

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Paper 1

Schultz, J. E., G. I. Latter, and A. Matin. "Differential Regulation by Cyclic AMP of Starvation Protein Synthesis in Escherichia coli." J Bacteriol 170 (1988): 3903-9.

Paper 2

Eichenberger, P., M. Fujita, S. T. Jensen, E. M. Conlon, D. Z. Rudner, S. T. Wang, C. Ferguson, K. Haga, T. Sato, J. S. Liu, and R. Losick. "The Program of Gene Transcription for a Single Differentiating Cell Type During Sporulation in Bacillus subtilis." PLoS Biol 2 (2004): 328.

3

Evolution of the general stress response and sporulation

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Paper 1

Zambrano, M. M., D. A. Siegele, M. Almirón, A. Tormo, and R. Kolter. "Microbial Competition: Escherichia Coli Mutants that Take Over Stationary Phase Cultures." Science 259 (1993): 1757-60.

Paper 2

Veening, J. W., E. J. Stewart, T. W. Berngruber, F. Taddei, O. P. Kuipers, and L. W. Hamoen. "Bet-Hedging and Epigenetic Inheritance in Bacterial Cell Development." Proc Natl Acad Sci USA 105 (2008): 4393-8.

4

Protein-protein interactions: Two-component systems

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Paper 1

Bray, D., M. D. Levin, and C. J. Morton-Firth. "Receptor Clustering as a Cellular Mechanism to Control Sensitivity." Nature 393 (1998): 85-8.

Paper 2

Skerker, J. M., B. S. Perchuk, A. Siryaporn, E. A. Lubin, O. Ashenberg, M. Goulian, and M. T. Laub. "Rewiring the Specificity of Two-component Signal Transduction Systems." Cell 133 (2008): 1043-54.

5

sRNAs: Regulating translation mRNA of RpoS (the general stress response activator)

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Paper1

Sledjeski, D. D., A. Gupta, and S. Gottesman. "The Small RNA, DsrA, is Essential for the Low Temperature Expression of RpoS During Exponential Growth in Escherichia Coli." EMBO J 15 (1996): 3993-4000.

Paper 2

Repoila, F., and S. Gottesman. "Signal Transduction Cascade for Regulation of RpoS: Temperature Regulation of DsrA." J Bacteriol 183 (July 2001): 4012-23.

6

Small molecules: The stringent response

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Paper 1

Haseltine, W. A., and R. Block. "Synthesis of Guanosine Tetra and Pentaphosphate Requires the Presence of a Codon-Specific Uncharged Transfer Ribonucleic Acid in the Acceptor Site of Ribosomes." Proc Natl Acad Sci USA 70 (1973): 1564–8.

Paper 2

Kvint, K., A. Farewell, and T. Nyström. "RpoS-Dependent Promoters Require Guanosine Tetraphosphate for Induction Even in the Presence of High Levels of Sigma(s)." J Biol Chem 275 (2000): 14795-8.

7

Field trip to the Laub laboratory

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[No Readings]
8

Pumping out toxins: Antibiotics

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Paper 1

Li, X. Z., D. Ma, D. M. Livermore, and H. Nikaido. "Role of Efflux Pump(s) in Intrinsic Resistance of Pseudomonas Aeruginosa: Active Efflux as a Contributing Factor to Beta-Lactam Resistance." Antimicrob Agents Chemother 38 (August 1994): 1742-52.

Paper 2

Tikhonova, E. B., and H. I. Zgurskaya. "AcrA, AcrB, and TolC of Escherichia coli Form a Stable Intermembrane Multidrug Efflux Complex." J Biol Chem 279, no. 31 (July 30, 2004): 32116-24.

9

Scavenging toxins: Reactive oxidative species

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Paper 1

Carlioz, A., and D. Touati. "Isolation of Superoxide Dismutase Mutants in Escherichia coli: is Superoxide Dismutase Necessary for Aerobic life?" EMBO J 5 (1986): 623-30.

Paper 2

Greenberg, J. T., P. Monach, J. H. Chou, P. D. Josephy, and B. Demple. "Positive Control of a Global Antioxidant Defense Regulon Activated by Superoxide-generating Agents in Escherichia Coli." Proc Natl Acad Sci U S A 87 (August 1990): 6181-5.

10

Promoting tolerance: Extreme heat and cold

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Paper 1

Mogk, A., T. Tomoyasu, P. Goloubinoff, S. Rüdiger, D. Röder, H. Langen, and B. Bukau. "Identification of Thermolabile Escherichia Coli Proteins: Prevention and Reversion of Aggregation by DnaK and ClpB." EMBO J 18 (December 15, 1999): 6934-49.

Paper 2

Guisbert, E., C. Herman, C. Z. Lu, and C. A. Gross. "A Chaperone Network Controls the Heat Shock Response in E. Coli." Genes Dev 18 (2004): 2812-21.

11

Final oral presentations

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[No Readings]
12

Repair calls: Single-stranded DNA damage

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Paper 1

Sancar, A., and W. D. Rupp. "A Novel Repair Enzyme: UVRABC Excision Nuclease of Escherichia Coli Cuts a DNA Strand on Both Sides of the Damaged Region." Cell 33 (May 1983): 249-60.

Paper 2

Mellon, I., and G. N. Champe. "Products of DNA Mismatch Repair Genes mutS and mutL are Required for Transcription-Coupled Nucleotide-Excision Repair of the Lactose Operon in Escherichia Coli." Proc Natl Acad Sci U S A 93 (February 6, 1996): 1292-7.