Regulation of Bacterial Gene Expression by Protease-Alleviated Spatial Sequestration (PASS)

ACS Synthetic Biology

Volumn 4, Issue 9, 2015, Pages 966-974

  Pitner, Ragan A ^a   Scarpelli, Andrew H ^b   Leonard, Joshua N ^a,b,c  

^a Northwestern University   (United States)

^b NORTHWESTERN UNIVERSITY   (United States)

^c NORTHWESTERN UNIVERSITY   (United States)

Author keywords

gene regulation; microbiology; signaling; subcellular organization; transcription factor

Indexed keywords

ESCHERICHIA COLI PROTEIN; LAMBDA PHAGE CI PROTEIN; PROTEINASE; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR TETR; UNCLASSIFIED DRUG; ATP SYNTHASE B SUBUNIT, E COLI; BACTERIAL DNA; PROTON TRANSPORTING ADENOSINE TRIPHOSPHATASE; RECOMBINANT PROTEIN; TEV PROTEASE;

ARTICLE; BACTERIAL GENE; CELLULAR DISTRIBUTION; CONTROLLED STUDY; ESCHERICHIA COLI; GENE EXPRESSION; GENE EXPRESSION REGULATION; GENE EXPRESSION SYSTEM; GENETIC ENGINEERING; NONHUMAN; PRIORITY JOURNAL; PROTEASE ALLEVIATED SPATIAL SEQUESTRATION; PROTEIN DEGRADATION; PROTEIN SECRETION; REGULATOR GENE; TRANSCRIPTION INITIATION; TRANSCRIPTION REGULATION; BACTERIAL CHROMOSOME; GENE LOCUS; GENETICS; METABOLISM; PROMOTER REGION;

ATP SYNTHETASE COMPLEXES; CHROMOSOMES, BACTERIAL; DNA, BACTERIAL; ENDOPEPTIDASES; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; GENE EXPRESSION REGULATION, BACTERIAL; GENES, BACTERIAL; GENETIC LOCI; PROMOTER REGIONS, GENETIC; RECOMBINANT PROTEINS; TRANSCRIPTION FACTORS; TRANSCRIPTIONAL ACTIVATION;

EID: 84942043879     PISSN: None     EISSN: 21615063     Source Type: Journal    
DOI: 10.1021/sb500302y     Document Type: Article

References (32)

1. Bohm, A. and Boos, W. (2004) Gene regulation in prokaryotes by subcellular relocalization of transcription factors Curr. Opin. Microbiol. 7, 151-156
2. Gorke, B. (2012) Killing two birds with one stone: an ABC transporter regulates gene expression through sequestration of a transcriptional regulator at the membrane Mol. Microbiol. 85, 597-601
3. Richet, E., Davidson, A. L., and Joly, N. (2012) The ABC transporter MalFGK(2) sequesters the MalT transcription factor at the membrane in the absence of cognate substrate Mol. Microbiol. 85, 632-647
4. Bordignon, E., Grote, M., and Schneider, E. (2010) The maltose ATP-binding cassette transporter in the 21st century-towards a structural dynamic perspective on its mode of action Mol. Microbiol. 77, 1354-1366
5. Dippel, R., Bergmiller, T., Bohm, A., and Boos, W. (2005) The maltodextrin system of Escherichia coli: glycogen-derived endogenous induction and osmoregulation J. Bacteriol. 187, 8332-8339
6. Brown, M. S., Ye, J., Rawson, R. B., and Goldstein, J. L. (2000) Regulated intramembrane proteolysis: a control mechanism conserved from bacteria to humans Cell 100, 391-398
7. Ehrmann, M. and Clausen, T. (2004) Proteolysis as a regulatory mechanism Annu. Rev. Genet. 38, 709-724
8. Dartigalongue, C., Missiakas, D., and Raina, S. (2001) Characterization of the Escherichia coli sigma E regulon J. Biol. Chem. 276, 20866-20875
9. De Las Peñas, A., Connolly, L., and Gross, C. A. (1997) The σE-mediated response to extracytoplasmic stress in Escherichia coli is transduced by RseA and RseB, two negative regulators of σE Mol. Microbiol. 24, 373-385
10. Campbell, E. A., Tupy, J. L., Gruber, T. M., Wang, S., Sharp, M. M., Gross, C. A., and Darst, S. A. (2003) Crystal structure of Escherichia coli sigmaE with the cytoplasmic domain of its anti-sigma RseA Mol. Cell 11, 1067-1078
11. Kanehara, K., Ito, K., and Akiyama, Y. (2002) YaeL (EcfE) activates the sigma(E) pathway of stress response through a site-2 cleavage of anti-sigma(E), RseA Genes Dev. 16, 2147-2155
12. Walsh, N. P., Alba, B. M., Bose, B., Gross, C. A., and Sauer, R. T. (2003) OMP peptide signals initiate the envelope-stress response by activating DegS protease via relief of inhibition mediated by its PDZ domain Cell 113, 61-71
13. Kanehara, K., Ito, K., and Akiyama, Y. (2003) YaeL proteolysis of RseA is controlled by the PDZ domain of YaeL and a Gln-rich region of RseA EMBO J. 22, 6389-6398
14. Tanaka, Y., Itoh, F., Kimata, K., and Aiba, H. (2004) Membrane localization itself but not binding to IICB is directly responsible for the inactivation of the global repressor Mlc in Escherichia coli Mol. Microbiol. 53, 941-951
15. Gorke, B., Reinhardt, J., and Rak, B. (2005) Activity of Lac repressor anchored to the Escherichia coli inner membrane Nucleic Acids Res. 33, 2504-2511
16. Shaner, N. C., Campbell, R. E., Steinbach, P. A., Giepmans, B. N., Palmer, A. E., and Tsien, R. Y. (2004) Improved monomeric red, orange and yellow fluorescent proteins derived from Discosoma sp. red fluorescent protein Nat. Biotechnol. 22, 1567-1572
17. Dmitriev, O., Jones, P. C., Jiang, W., and Fillingame, R. H. (1999) Structure of the membrane domain of subunit b of the Escherichia coli F0F1 ATP synthase J. Biol. Chem. 274, 15598-15604
18. Dougherty, W. G., Parks, T. D., Cary, S. M., Bazan, J. F., and Fletterick, R. J. (1989) Characterization of the catalytic residues of the tobacco etch virus 49-kDa proteinase Virology 172, 302-310
19. Kapust, R. B., Tozser, J., Copeland, T. D., and Waugh, D. S. (2002) The P1′ specificity of tobacco etch virus protease Biochem. Biophys. Res. Commun. 294, 949-955
20. Kapust, R. B. and Waugh, D. S. (2000) Controlled intracellular processing of fusion proteins by TEV protease Protein Expression Purif. 19, 312-318
21. Lutz, R. and Bujard, H. (1997) Independent and tight regulation of transcriptional units in Escherichia coli via the LacR/O, the TetR/O and AraC/I1-I2 regulatory elements Nucleic Acids Res. 25, 1203-1210
22. Michalowski, C. B. and Little, J. W. (2013) Role of cis-acting sites in stimulation of the phage lambda P(RM) promoter by CI-mediated looping J. Bacteriol. 195, 3401-3411
23. Huang, D., Holtz, W. J., and Maharbiz, M. M. (2012) A genetic bistable switch utilizing nonlinear protein degradation J. Biol. Eng. 6, 9
24. Glascock, C. B. and Weickert, M. J. (1998) Using chromosomal lacIQ1 to control expression of genes on high-copy-number plasmids in Escherichia coli Gene 223, 221-231
25. Dinh, T. and Bernhardt, T. G. (2011) Using superfolder green fluorescent protein for periplasmic protein localization studies J. Bacteriol. 193, 4984-4987
26. Ueguchi, C. and Ito, K. (1990) Escherichia coli sec mutants accumulate a processed immature form of maltose-binding protein (MBP), a late-phase intermediate in MBP export J. Bacteriol. 172, 5643-5649
27. Pogliano, J., Ho, T. Q., Zhong, Z., and Helinski, D. R. (2001) Multicopy plasmids are clustered and localized in Escherichia coli Proc. Natl. Acad. Sci. U. S. A. 98, 4486-4491
28. Javer, A., Long, Z., Nugent, E., Grisi, M., Siriwatwetchakul, K., Dorfman, K. D., Cicuta, P., and Cosentino Lagomarsino, M. (2013) Short-time movement of E. coli chromosomal loci depends on coordinate and subcellular localization Nat. Commun. 4, 3003
29. Wehr, M. C., Laage, R., Bolz, U., Fischer, T. M., Grunewald, S., Scheek, S., Bach, A., Nave, K. A., and Rossner, M. J. (2006) Monitoring regulated protein-protein interactions using split TEV Nat. Methods 3, 985-993
30. Williams, D. J., Puhl, H. L., 3rd, and Ikeda, S. R. (2009) Rapid modification of proteins using a rapamycin-inducible tobacco etch virus protease system PLoS One 4, e7474
31. (2014) Registry of Standard Biological Parts, http://parts.igem.org/Main
32. Linnenbrügger, N. (2002) FFTJ and DeconvolutionJ, http://rsb.info.nih.gov/ij/plugins/fftj.html, accessed July 8, 2014.