Difference between revisions of "Part:BBa K239001:Design"

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===Design Notes===
 
===Design Notes===
 
Detect and remove possible restriction sites: XbaI, EcoRI, PstI, SpeI, AgeI, BamHI, BglII, NogMIV, NotI and XhoI. No restriction site had to be removed. Sequence starts 3 bp before the first BaeR binding site and ends 5 pb after the -10 box.
 
Detect and remove possible restriction sites: XbaI, EcoRI, PstI, SpeI, AgeI, BamHI, BglII, NogMIV, NotI and XhoI. No restriction site had to be removed. Sequence starts 3 bp before the first BaeR binding site and ends 5 pb after the -10 box.
−
 
−
 
  
 
===Source===
 
===Source===
Line 16: Line 14:
 
===References===
 
===References===
  
−
A third envelope stress signal transduction pathway in Escherichia coli.
+
Baranova, N., and H. Nikaido (2002) The BaeSR two-component regulatory
−
Robert G. Raffa and Tracy L. Raivio*
+
system activates transcription of the yegMNOB (mdtABCD) transporter gene
−
Molecular Microbiology (2002) 45(6), 1599–1611
+
cluster in Escherichia coli and increases its resistance to novobiocin and
 +
deoxycholate. J. Bacteriol. 184:4168–4176.
 +
 
 +
 
 +
DiGiuseppe, P. A., and T. J. Silhavy (2003) Signal detection and target gene
 +
induction by the CpxRA two-component system. J. Bacteriol. 185:2432–
 +
2440.
 +
 
 +
 
 +
Hagenmaier, S., Stierhof, Y.D., and Henning, U. (1997) A
 +
new periplasmic protein of Escherichia coli which is synthesized
 +
in spheroplasts but not in intact cells. J Bacteriol
 +
179: 2073–2076.
 +
 
 +
 
 +
Kunihiko Nishino, Eiji Nikaido, and Akihito Yamaguchi (2007) Regulation of Multidrug Efflux Systems Involved in Multidrug and
 +
Metal Resistance of Salmonella enterica Serovar Typhimurium. JOURNAL OF BACTERIOLOGY, Dec. 2007, p. 9066–9075
 +
 
 +
 
 +
Nishino, K., T. Honda, and A. Yamaguchi. (2005) Genome-wide analyses of
 +
Escherichia coli gene expression responsive to the BaeSR two-component
 +
regulatory system. J. Bacteriol. 187:1763–1772.
 +
 
 +
 
 +
Price, N. L., and T. L. Raivio. (2009) Characterization of the Cpx Regulon in Escherichia coli Strain MC4100
 +
JOURNAL OF BACTERIOLOGY, Mar. 2009, p. 1798–1815
 +
 
 +
 
 +
Raffa, R. G., and T. L. Raivio. (2002) A third envelope stress signal transduction
 +
pathway in Escherichia coli. Mol. Microbiol. 45:1599–1611.
 +
 
  
 +
Raivio, T. L., M. W. Laird, J. C. Joly, and T. J. Silhavy. (2000) Tethering of
 +
CpxP to the inner membrane prevents spheroplast induction of the cpx
 +
envelope stress response. Mol. Microbiol. 37:1186–1197.
  
  
−
Genome-Wide Analyses of Escherichia coli Gene Expression Responsive to the BaeSR Two-Component Regulatory System
+
Snyder, Larry., and Wendy Champness. (2007) Molecular genetics of bacteria, 3rd ed.
−
Kunihiko Nishino, Takeshi Honda, and Akihito Yamaguchi
+
ASM Press. Washington, DC.
−
J Bacteriol. 2005 March; 187(5): 1763–1772. doi: 10.1128/JB.187.5.1763-1772.2005.
+
−
PMCID: PMC1063996
+
  
  
−
The BaeSR two-component regulatory system mediates resistance to condensed tannins in Escherichia coli.
+
Wulf, P.D., McGuire, A.M., Liu, X., and Lin, E.C.C. (2002)
−
Zoetendal EG, Smith AH, Sundset MA, Mackie RI. 2008
+
Genome-wide profiling of promoter recognition by the twocomponent
−
Appl Environ Microbiol. 2008 Jan;74(2):535-9. Epub 2007 Nov 26.
+
response regulator CpxR-P in Escherichia coli.
 +
J Biol Chem 277: 26652–26661.
  
  
−
Global Analysis of Extracytoplasmic Stress Signaling in Escherichia coli
+
Yamamoto, K., Ishihama, A. (2005) Transcriptional response of Escherichia
−
Stéphanie Bury-Moné, Yanoura Nomane, Nancie Reymond, Romain Barbet, Eric Jacquet, Sandrine Imbeaud, Annick Jacq, and Philippe Bouloc
+
coli to external copper. Mol. Microbiol. 56, 215–227.
−
PLoS Genet. 2009 September; 5(9): e1000651. Published online 2009 September 18. doi: 10.1371/journal.pgen.1000651.
+
−
PMCID: PMC2731931
+
  
  
−
Signal Detection and Target Gene Induction by the CpxRA Two-Component System
+
Yamamoto K, Ogasawara H, Ishihama A (2008) "Involvement of multiple transcription factors for metal-induced spy gene expression in Escherichia coli." J Biotechnol 133(2):196-200. PMID: 17884222
−
Patricia A. DiGiuseppe and Thomas J. Silhavy
+
−
J Bacteriol. 2003 April; 185(8): 2432–2440. doi: 10.1128/JB.185.8.2432-2440.2003.
+
−
PMCID: PMC152615
+

Latest revision as of 19:24, 21 October 2009

Spy promoter, activated by Phosporylated CpxR, BaeR and Sigma70


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]


Design Notes

Detect and remove possible restriction sites: XbaI, EcoRI, PstI, SpeI, AgeI, BamHI, BglII, NogMIV, NotI and XhoI. No restriction site had to be removed. Sequence starts 3 bp before the first BaeR binding site and ends 5 pb after the -10 box.

Source

Genomic sequence from biocyc, Escherichia coli K-12. Native unmodified sequence.

References

Baranova, N., and H. Nikaido (2002) The BaeSR two-component regulatory system activates transcription of the yegMNOB (mdtABCD) transporter gene cluster in Escherichia coli and increases its resistance to novobiocin and deoxycholate. J. Bacteriol. 184:4168–4176.


DiGiuseppe, P. A., and T. J. Silhavy (2003) Signal detection and target gene induction by the CpxRA two-component system. J. Bacteriol. 185:2432– 2440.


Hagenmaier, S., Stierhof, Y.D., and Henning, U. (1997) A new periplasmic protein of Escherichia coli which is synthesized in spheroplasts but not in intact cells. J Bacteriol 179: 2073–2076.


Kunihiko Nishino, Eiji Nikaido, and Akihito Yamaguchi (2007) Regulation of Multidrug Efflux Systems Involved in Multidrug and Metal Resistance of Salmonella enterica Serovar Typhimurium. JOURNAL OF BACTERIOLOGY, Dec. 2007, p. 9066–9075


Nishino, K., T. Honda, and A. Yamaguchi. (2005) Genome-wide analyses of Escherichia coli gene expression responsive to the BaeSR two-component regulatory system. J. Bacteriol. 187:1763–1772.


Price, N. L., and T. L. Raivio. (2009) Characterization of the Cpx Regulon in Escherichia coli Strain MC4100 JOURNAL OF BACTERIOLOGY, Mar. 2009, p. 1798–1815


Raffa, R. G., and T. L. Raivio. (2002) A third envelope stress signal transduction pathway in Escherichia coli. Mol. Microbiol. 45:1599–1611.


Raivio, T. L., M. W. Laird, J. C. Joly, and T. J. Silhavy. (2000) Tethering of CpxP to the inner membrane prevents spheroplast induction of the cpx envelope stress response. Mol. Microbiol. 37:1186–1197.


Snyder, Larry., and Wendy Champness. (2007) Molecular genetics of bacteria, 3rd ed. ASM Press. Washington, DC.


Wulf, P.D., McGuire, A.M., Liu, X., and Lin, E.C.C. (2002) Genome-wide profiling of promoter recognition by the twocomponent response regulator CpxR-P in Escherichia coli. J Biol Chem 277: 26652–26661.


Yamamoto, K., Ishihama, A. (2005) Transcriptional response of Escherichia coli to external copper. Mol. Microbiol. 56, 215–227.


Yamamoto K, Ogasawara H, Ishihama A (2008) "Involvement of multiple transcription factors for metal-induced spy gene expression in Escherichia coli." J Biotechnol 133(2):196-200. PMID: 17884222