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
 +
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.
  
−
Robert G. Raffa and Tracy L. Raivio*.
 
−
Molecular Microbiology (2002) 45(6), 1599–1611
 
  
 +
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.
  
  
−
Genome-Wide Analyses of Escherichia coli Gene Expression Responsive to the BaeSR Two-Component Regulatory System
+
Hagenmaier, S., Stierhof, Y.D., and Henning, U. (1997) A
−
Kunihiko Nishino, Takeshi Honda, and Akihito Yamaguchi
+
new periplasmic protein of Escherichia coli which is synthesized
−
J Bacteriol. 2005 March; 187(5): 1763–1772. doi: 10.1128/JB.187.5.1763-1772.2005.
+
in spheroplasts but not in intact cells. J Bacteriol
−
PMCID: PMC1063996
+
179: 2073–2076.
  
  
−
The BaeSR two-component regulatory system mediates resistance to condensed tannins in Escherichia coli.
+
Kunihiko Nishino, Eiji Nikaido, and Akihito Yamaguchi (2007) Regulation of Multidrug Efflux Systems Involved in Multidrug and
−
Zoetendal EG, Smith AH, Sundset MA, Mackie RI. 2008
+
Metal Resistance of Salmonella enterica Serovar Typhimurium. JOURNAL OF BACTERIOLOGY, Dec. 2007, p. 9066–9075
−
Appl Environ Microbiol. 2008 Jan;74(2):535-9. Epub 2007 Nov 26.
+
  
  
−
Global Analysis of Extracytoplasmic Stress Signaling in Escherichia coli
+
Nishino, K., T. Honda, and A. Yamaguchi. (2005) Genome-wide analyses of
−
Stéphanie Bury-Moné, Yanoura Nomane, Nancie Reymond, Romain Barbet, Eric Jacquet, Sandrine Imbeaud, Annick Jacq, and Philippe Bouloc
+
Escherichia coli gene expression responsive to the BaeSR two-component
−
PLoS Genet. 2009 September; 5(9): e1000651. Published online 2009 September 18. doi: 10.1371/journal.pgen.1000651.
+
regulatory system. J. Bacteriol. 187:1763–1772.
−
PMCID: PMC2731931
+
  
  
−
Signal Detection and Target Gene Induction by the CpxRA Two-Component System
+
Price, N. L., and T. L. Raivio. (2009) Characterization of the Cpx Regulon in Escherichia coli Strain MC4100
−
Patricia A. DiGiuseppe and Thomas J. Silhavy
+
JOURNAL OF BACTERIOLOGY, Mar. 2009, p. 1798–1815
−
J Bacteriol. 2003 April; 185(8): 2432–2440. doi: 10.1128/JB.185.8.2432-2440.2003.
+
−
PMCID: PMC152615
+
  
−
Nishino, K., T. Honda, and A. Yamaguchi. 2005. Genome-wide analyses of
+
 
−
Escherichia coli gene expression responsive to the BaeSR two-component
+
Raffa, R. G., and T. L. Raivio. (2002) A third envelope stress signal transduction
−
regulatory system. J. Bacteriol. 187:1763–1772.
+
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
+
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

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