20.109(F11): Journal Club I

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20.109(F11): Laboratory Fundamentals of Biological Engineering

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Contents

Focus: Two Component Signaling

Paper Options

The list of papers below is provided as a guideline for the types of papers that might be relevant for your presentation. You are not limited to the primary research articles on this list. The list is provided simply to give you an idea of the kinds of subjects that could make suitable presentations for the class. Search pubmed yourself to find articles of interest to you.

Note: If you have trouble accessing your article directly, go to http://libraries.mit.edu/vera, which is MIT's collection of journals online. Try selecting "exact title" from the search pulldown menu if the name of your journal is a common word such as Science. For older articles, you need to choose the JSTOR rather than Highwire interface.

Logistics of Paper Selection

  • Once you have decided on a paper for your presentation, please email it to nkuldell or astachow AT mit DOT edu, and also "reserve" it by putting your (initials/lab section/team color) next to the listing here.
  • For visibility, please use the following format to sign up if possible, substituting in your own initials and team color: [ANS/WF/Purple]. Thanks!
  • A paper may be presented only once.

As you prepare your talk be sure to follow the specific guidelines for oral presentations in this class.

  • Please email your finished journal club presentation to the Stellar site associated with our subject no later than 11 AM on the day of your presentation. The order in which your presentations are uploaded to Stellar will determine the order of speakers.
  • Presentations will take place in room 16-336.

Two Component Regulatory Systems

Interesting Examples of Two Component Regulatory Systems

  1. Control of CydB and GltA1 expression by the SenX3 RegX3 two component regulatory system of Mycobacterium tuberculosis. Roberts G, Vadrevu IS, Madiraju MV, Parish T. PLoS One. 2011;6(6):e21090. PMID: 21698211
  2. The novel two-component regulatory system BfiSR regulates biofilm development directly through CafA by its control over the small RNA rsmZ.Petrova OE, Sauer K. J Bacteriol. 2010 Jul 23. PMID: 20656909[DF/WF/Pink]
  3. CrdS and CrdA Comprise a Two-Component System That Is Cooperatively Regulated by the Che3 Chemosensory System in Myxococcus xanthus.Willett JW, Kirby JR.MBio. 2011 Aug 2;2(4). pii: e00110-11.PMID: 21810965[BCD/WF/Yellow]
  4. The Two-Component Signal Transduction System CopRS of Corynebacterium glutamicum Is Required for Adaptation to Copper-Excess Stress.Schelder S, Zaade D, Litsanov B, Bott M, Brocker M.PLoS One. 2011;6(7):e22143.PMID: 21799779
  5. The GacS/GacA signal transduction system of Pseudomonas aeruginosa acts exclusively through its control over the transcription of the RsmY and RsmZ regulatory small RNAs. Brencic A, McFarland KA, McManus HR, Castang S, Mogno I, Dove SL, Lory S. Mol Microbiol. 2009 Aug;73(3):434-45. PMID: 19602144
  6. OmpA influences Escherichia coli biofilm formation by repressing cellulose production through the CpxRA two-component system. Ma Q, Wood TK. Environ Microbiol. 2009 Jul 6. PMID: 19601955
  7. Kinetic buffering of cross talk between bacterial two-component sensors. Groban ES, Clarke EJ, Salis HM, Miller SM, Voigt CA. J Mol Biol. 2009 Jul 17;390(3):380-93. PMID: 19445950
  8. Mutations that alter the kinase and phosphatase activities of the two-component sensor EnvZ. Hsing W, Russo FD, Bernd KK, Silhavy TJ. J Bacteriol. 1998 Sep;180(17):4538-46. PMID: 9721293 RY/WF/YELLOW
  9. Cross-talk suppression between the CpxA-CpxR and EnvZ-OmpR two-component systems in E. coli. Siryaporn A, Goulian M. Mol Microbiol. 2008 Oct;70(2):494-506. PMID: 18761686 NS/TR/PURPLE
  10. Design and signaling mechanism of light-regulated histidine kinases. Möglich A, Ayers RA, Moffat K. J Mol Biol. 2009 Feb 6;385(5):1433-44. PMID: 19109976 HCJ/TR/YELLOW YC/WF/BLUE
  11. EnvZ-OmpR interaction and osmoregulation in Escherichia coli. Cai SJ, Inouye M. J Biol Chem. 2002 Jul 5;277(27):24155-61. PMID: 11973328
  12. Cross-talk between an orphan response regulator and a noncognate histidine kinase in Streptomyces coelicolor. Wang W, Shu D, Chen L, Jiang W, Lu Y. FEMS Microbiol Lett. 2009 May;294(2):150-6. PMID: 19341396
  13. Histidine kinase and response regulator genes as they relate to salinity tolerance in rice. Karan R, Singla-Pareek SL, Pareek A. Funct Integr Genomics. 2009 Aug;9(3):411-7. PMID: 19277738KV/TR/ORANGE
  14. Signal transduction and adaptive regulation through bacterial two-component systems: the Escherichia coli AtoSC paradigm. Kyriakidis DA, Tiligada E. Amino Acids. 2009 Feb 8. PMID: 19198978
  15. A bifunctional kinase-phosphatase in bacterial chemotaxis. Porter SL, Roberts MA, Manning CS, Armitage JP. Proc Natl Acad Sci U S A. 2008 Nov 25;105(47):18531-6. PMID: 19020080TT/TR/ORANGE
  16. Global transcriptional response of Lactobacillus reuteri to the sourdough environment.Hüfner E, Britton RA, Roos S, Jonsson H, Hertel C. Syst Appl Microbiol. 2008 Oct;31(5):323-38. PMID: 18762399
  17. Integrating anaerobic/aerobic sensing and the general stress response through the ArcZ small RNA. Mandin P, Gottesman S. EMBO J. 2010 Aug 3. PMID: 20683441
  18. Characterization of a functional C-terminus of the Mycobacterium tuberculosis MtrA responsible for both DNA binding and interaction with its two-component partner protein, MtrB.Li Y, Zeng J, He ZG. J Biochem. 2010 Jul 29. PMID: 20671191 [LAS/TR/Red]

Interesting Ways to Study Two Component Regulatory Systems

  1. Investigation of the Staphylococcus aureus GraSR Regulon Reveals Novel Links to Virulence, Stress Response and Cell Wall Signal Transduction Pathways.Falord M, Mäder U, Hiron A, Débarbouillé M, Msadek T.PLoS One. 2011;6(7):e21323. PMID: 21765893
  2. Comparative Genomic and Phylogenetic Analyses Reveal the Evolution of the Core Two-Component Signal Transduction Systems in Enterobacteria.Qi M, Sun FJ, Caetano-Anollés G, Zhao Y.J Mol Evol. 2010 Jan 5.PMID: 20049425
  3. Expression, purification, crystallization and preliminary X-ray analysis of the DNA-binding domain of a Chlamydia trachomatis OmpR/PhoB-subfamily response regulator homolog, ChxR. Hickey JM, Hefty PS, Lamb AL. Acta Crystallogr Sect F Struct Biol Cryst Commun. 2009 Aug 1;65(Pt 8):791-4. PMID: 19652341 [MF/WF/Pink]
  4. Global Transcriptional Analysis of Acid-Inducible Genes in Streptococcus mutans: Multiple Two-Component Systems Involved in Acid Adaptation. Gong Y, Tian XL, Sutherland T, Sisson G, Mai J, Ling J, Li YH. Microbiology. 2009 Jul 16. PMID: 19608608
  5. Discovery of novel inhibitors of Streptococcus pneumoniae based on the virtual screening with the homology-modeled structure of histidine kinase (VicK). Li N, Wang F, Niu S, Cao J, Wu K, Li Y, Yin N, Zhang X, Zhu W, Yin Y. BMC Microbiol. 2009 Jun 27;9:129. PMID: 19558698 [SA/TR/RED]
  6. Genetic analysis of activation of the Vibrio cholerae Cpx pathway. Slamti L, Waldor MK. J Bacteriol. 2009 Aug;191(16):5044-56. PMID: 19542291
  7. SpaK/SpaR two-component system characterized by a structure-driven domain-fusion method and in vitro phosphorylation studies. Chakicherla A, Ecale Zhou CL, Dang ML, Rodriguez V, Hansen JN, Zemla A. PLoS Comput Biol. 2009 Jun;5(6):e1000401. PMID: 19503843
  8. The GacS-GacA two-component regulatory system of Pseudomonas fluorescens: a bacterial two-hybrid analysis.Workentine ML, Chang L, Ceri H, Turner RJ. FEMS Microbiol Lett. 2009 Mar;292(1):50-6. PMID: 19191877
  9. Identification of direct residue contacts in protein-protein interaction by message passing.Weigt M, White RA, Szurmant H, Hoch JA, Hwa T. Proc Natl Acad Sci U S A. 2009 Jan 6;106(1):67-72. PMID: 19116270
  10. High stimulus unmasks positive feedback in an autoregulated bacterial signaling circuit.Miyashiro T, Goulian M. Proc Natl Acad Sci U S A. 2008 Nov 11;105(45):17457-62. PMID: 18987315
  11. System-level mapping of Escherichia coli response regulator dimerization with FRET hybrids. Gao R, Tao Y, Stock AM. Mol Microbiol. 2008 Sep;69(6):1358-72. PMID: 18631241
  12. Information processing and signal integration in bacterial quorum sensingPankaj Mehta, Sidhartha Goyal, Tao Long, Bonnie L Bassler & Ned S WingreenMolecular Systems Biology2009 5:325.doi:10.1038/msb.2009.79
  13. Engineering key components in a synthetic eukaryotic signal transduction pathway Antunes MS, Morey KJ, Tewari-Singh N, Bowen TA, Smith JJ, Webb CT, Hellinga HW, Medford JI.Mol Syst Biol 2009;5:270. PMID: 19455134 [CB/TR/Yellow]
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