Difference between revisions of "Part:BBa K1946005"
 
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Due to unavailability of older XylR coding part BBa_I723017 from iGEM07_Glasgow team, We newly synthesised it and codon optimised for E. Coli from XylR Uniprot amino acid sequence.
 
Due to unavailability of older XylR coding part BBa_I723017 from iGEM07_Glasgow team, We newly synthesised it and codon optimised for E. Coli from XylR Uniprot amino acid sequence.
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We cloned XylR after pL(TetO) promoter which is operated by TetR and sfGFP after pu promoter into pet22b and pZa vectors. We confirmed our cloning with restriction digestion with BglII and NotI. (Fig. 1)
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[[File:BBa_K1946004_figure9.png|500px|thumb|center]]
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Figure 1: Results of restriction enzyme digestion with BglII and NotI for verification of XylR cloning.
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We expect that in the presence of ATC, XylR will be expressed and after XylR expression, in the presence of xylenes or toluene sfGFP will be expressed. We induced our cells ATC and, after 2 hours of incubation, with xylene at different concentrations. SDS-PAGE results showed no over-expression of a protein near 67kDa which is the mass of XylR. (Fig. 2) Unfortunately, we have not seen any difference in sfGFP signal. (Fig. 3) Considering SDS-PAGE and fluorescence measurement result, the reason our construct failing at xylene recognition can be a failure at cloning or design.
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[[File:BBa_K1946004_figure10.png|500px|thumb|center]]
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Figure 2: SDS Page results of empty control, XylR induced with ATC only, XylR induced with ATC and 0.18x xylene, ATC and 0.37x xylene, ATC and 0.75x xylene, ATC and 1.50x xylene, ATC and 3.00x xylene and with ATC and 6.00x xylene in order. The expected band around 67kDa (corresponding to XylR) was not observed in any of the samples.
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[[File:BBa_K1946004_figure11.png|500px|thumb|center]]
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Figure 3:GFP signal levels in empty or samples transformed with XylR induced with increasing concentrations of xylene after 8 hours of induction.  Y axis is fluorescence intensity (A.U.), X axis is amount of xylene added on 3mL culture(uL).Data normalized with respect to OD600 obsorbance.
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<!-- Add more about the biology of this part here
 
<!-- Add more about the biology of this part here

Latest revision as of 20:08, 26 October 2016


XylR

This part codes for the transcriptional regulatory protein XylR from Pseudomonas putida. It activates the TOL plasmid xyl operons in the presence of toluene, m-, p- and o-xylene.

Due to unavailability of older XylR coding part BBa_I723017 from iGEM07_Glasgow team, We newly synthesised it and codon optimised for E. Coli from XylR Uniprot amino acid sequence.

We cloned XylR after pL(TetO) promoter which is operated by TetR and sfGFP after pu promoter into pet22b and pZa vectors. We confirmed our cloning with restriction digestion with BglII and NotI. (Fig. 1)

BBa K1946004 figure9.png

Figure 1: Results of restriction enzyme digestion with BglII and NotI for verification of XylR cloning.


We expect that in the presence of ATC, XylR will be expressed and after XylR expression, in the presence of xylenes or toluene sfGFP will be expressed. We induced our cells ATC and, after 2 hours of incubation, with xylene at different concentrations. SDS-PAGE results showed no over-expression of a protein near 67kDa which is the mass of XylR. (Fig. 2) Unfortunately, we have not seen any difference in sfGFP signal. (Fig. 3) Considering SDS-PAGE and fluorescence measurement result, the reason our construct failing at xylene recognition can be a failure at cloning or design.


BBa K1946004 figure10.png

Figure 2: SDS Page results of empty control, XylR induced with ATC only, XylR induced with ATC and 0.18x xylene, ATC and 0.37x xylene, ATC and 0.75x xylene, ATC and 1.50x xylene, ATC and 3.00x xylene and with ATC and 6.00x xylene in order. The expected band around 67kDa (corresponding to XylR) was not observed in any of the samples.


BBa K1946004 figure11.png

Figure 3:GFP signal levels in empty or samples transformed with XylR induced with increasing concentrations of xylene after 8 hours of induction. Y axis is fluorescence intensity (A.U.), X axis is amount of xylene added on 3mL culture(uL).Data normalized with respect to OD600 obsorbance.


Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BamHI site found at 1665
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal AgeI site found at 937
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI.rc site found at 1082
    Illegal BsaI.rc site found at 1460