Difference between revisions of "Part:BBa K1076004:Design"

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===References===
 
===References===
 +
 +
SIMONS, Robert Walter et al. Regulation of fatty acid degradation in Escherichia coli: isolation and characterization of strains bearing insertion and temperature-sensitive mutations in gene fadR. Journal of bacteriology, v. 142, n. 2, p. 621-632, 1980.
 +
 +
HUGHES, KELLY T.; SIMONS, R. W.; NUNN, W. D. Regulation of fatty acid degradation in Escherichia coli: fadR superrepressor mutants are unable to utilize fatty acids as the sole carbon source. Journal of bacteriology, v. 170, n. 4, p. 1666-1671, 1988.
 +
 +
SCHAFFER, Jean E.; LODISH, Harvey F. Expression cloning and characterization of a novel adipocyte long chain fatty acid transport protein.Cell, v. 79, n. 3, p. 427-436, 1994.
 +
 +
 +
KAZAKOV, Alexey E. et al. Comparative genomics of regulation of fatty acid and branched-chain amino acid utilization in proteobacteria. Journal of bacteriology, v. 191, n. 1, p. 52-64, 2009.
 +
 +
CLARK, DAVID. Regulation of fatty acid degradation in Escherichia coli: analysis by operon fusion. Journal of bacteriology, v. 148, n. 2, p. 521-526, 1981.
 +
 +
 +
MYERS, C. R.; MYERS, J. M. Replication of plasmids with the p15A origin in Shewanella putrefaciens MR‐1. Letters in applied microbiology, v. 24, n. 3, p. 221-225, 1997.
 +
 +
BLACK, Paul N. Primary sequence of the Escherichia coli fadL gene encoding an outer membrane protein required for long-chain fatty acid transport. Journal of bacteriology, v. 173, n. 2, p. 435-442, 1991.
 +
 +
MORGAN-KISS, Rachael M.; CRONAN, John E. The Escherichia coli fadK (ydiD) gene encodes an anerobically regulated short chain acyl-CoA synthetase. Journal of Biological Chemistry, v. 279, n. 36, p. 37324-37333, 2004.
 +
 +
RODIONOV, Dmitry A. et al. Comparative genomic reconstruction of transcriptional networks controlling central metabolism in the Shewanella genus. BMC genomics, v. 12, n. Suppl 1, p. S3, 2011.
 +
 +
FUJITA, Yasutaro; MATSUOKA, Hiroshi; HIROOKA, Kazutake. Regulation of fatty acid metabolism in bacteria. Molecular microbiology, v. 66, n. 4, p. 829-839, 2007.
 +
 +
CHO, Byung-Kwan; KNIGHT, Eric M.; PALSSON, Bernhard Ø. Transcriptional regulation of the fad regulon genes of Escherichia coli by ArcA. Microbiology, v. 152, n. 8, p. 2207-2219, 2006.
 +
 +
EVANS, W. Charles; FUCHS, G. Anaerobic degradation of aromatic compounds. Annual Reviews in Microbiology, v. 42, n. 1, p. 289-317, 1988.

Latest revision as of 23:37, 27 September 2013


FadD, Long-chain-fatty-acid-CoA ligase


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 1729
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BglII site found at 1883
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal NgoMIV site found at 1934
    Illegal NgoMIV site found at 1944
    Illegal AgeI site found at 1462
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal SapI.rc site found at 415


Design Notes

The idea is to compose a part with parts from the Registry powerful promoter, compatible RBS and terminators. The gene was amplified within EcoR1 and Pst1 restriction sites in order to put into pSB1C3. Further subclonning and expression should be done within pSB3C5-152001.

Source

Shewanella putrefaciens genomic sequence

References

SIMONS, Robert Walter et al. Regulation of fatty acid degradation in Escherichia coli: isolation and characterization of strains bearing insertion and temperature-sensitive mutations in gene fadR. Journal of bacteriology, v. 142, n. 2, p. 621-632, 1980.

HUGHES, KELLY T.; SIMONS, R. W.; NUNN, W. D. Regulation of fatty acid degradation in Escherichia coli: fadR superrepressor mutants are unable to utilize fatty acids as the sole carbon source. Journal of bacteriology, v. 170, n. 4, p. 1666-1671, 1988.

SCHAFFER, Jean E.; LODISH, Harvey F. Expression cloning and characterization of a novel adipocyte long chain fatty acid transport protein.Cell, v. 79, n. 3, p. 427-436, 1994.


KAZAKOV, Alexey E. et al. Comparative genomics of regulation of fatty acid and branched-chain amino acid utilization in proteobacteria. Journal of bacteriology, v. 191, n. 1, p. 52-64, 2009.

CLARK, DAVID. Regulation of fatty acid degradation in Escherichia coli: analysis by operon fusion. Journal of bacteriology, v. 148, n. 2, p. 521-526, 1981.


MYERS, C. R.; MYERS, J. M. Replication of plasmids with the p15A origin in Shewanella putrefaciens MR‐1. Letters in applied microbiology, v. 24, n. 3, p. 221-225, 1997.

BLACK, Paul N. Primary sequence of the Escherichia coli fadL gene encoding an outer membrane protein required for long-chain fatty acid transport. Journal of bacteriology, v. 173, n. 2, p. 435-442, 1991.

MORGAN-KISS, Rachael M.; CRONAN, John E. The Escherichia coli fadK (ydiD) gene encodes an anerobically regulated short chain acyl-CoA synthetase. Journal of Biological Chemistry, v. 279, n. 36, p. 37324-37333, 2004.

RODIONOV, Dmitry A. et al. Comparative genomic reconstruction of transcriptional networks controlling central metabolism in the Shewanella genus. BMC genomics, v. 12, n. Suppl 1, p. S3, 2011.

FUJITA, Yasutaro; MATSUOKA, Hiroshi; HIROOKA, Kazutake. Regulation of fatty acid metabolism in bacteria. Molecular microbiology, v. 66, n. 4, p. 829-839, 2007.

CHO, Byung-Kwan; KNIGHT, Eric M.; PALSSON, Bernhard Ø. Transcriptional regulation of the fad regulon genes of Escherichia coli by ArcA. Microbiology, v. 152, n. 8, p. 2207-2219, 2006.

EVANS, W. Charles; FUCHS, G. Anaerobic degradation of aromatic compounds. Annual Reviews in Microbiology, v. 42, n. 1, p. 289-317, 1988.