Difference between revisions of "Part:BBa K1313004"
 
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This gene can be also used as a selective gene for mammalian cells using gentamicin.
 
This gene can be also used as a selective gene for mammalian cells using gentamicin.
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<h2>Contribution from other teams</h2>
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<h3>Toulouse_INSA-UPS 2021's contribution</h3>
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<h4>Characterization</h4>
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<p> <a href="https://2021.igem.org/Team:Toulouse_INSA-UPS">Toulouse_INSA_UPS_2021</a>contributed to the characterization of this part. The part BBa_K1313004 for the <i>neoR</i> gene had not been characterized before in iGEM for yeast selection, but the team showed this year that it is functional for a transformant selection in <i>S. cerevisiae</i>. Check the part of the full construction <a href="https://parts.igem.org/Part:BBa_K3930002" class="pr-0" target="_blank">(BBa_K3930002)</a> for more result details.</p>
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(<small>--[[User:ThomasG|ThomasG]] 16:53, 18 October 2021 (UTC+2)</small>)
  
 
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Characterization iGEM 2019
 
Characterization iGEM 2019
 
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By St_Aandrews 2019
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By St Andrews 2019
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      Characterizing neomycin resistance in E. coli
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        (BBa_K1313004)
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         <h3 style="text-decoration:underline"> Aim
 
         <h3 style="text-decoration:underline"> Aim
 
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To characterize the part responsible for neomycin resistance (BBa_K1313004) and its response to kanamycin in DH5 alpha E. coli cells using OD measurements at 600 nm in the presence or absence of a plasmid containing the resistance sequence.     <p>
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To characterize the part responsible for neomycin resistance (BBa_K1313004) and its response to kanamycin in DH5 alpha E. coli cells using OD measurements at 600 nm in the presence or absence of a plasmid containing the resistance sequence.  
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         <h3 style="text-decoration:underline"> Experimental design
 
         <h3 style="text-decoration:underline"> Experimental design
 
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             Preparation:
 
             Preparation:
 
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          PLBDE2 plasmid was used, however due to it being too big, a digestion was done followed by a ligation. The transformation had been concluded successful. However, the experiments with those cells were only successful if they were done with a double overnight culture.
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PLBDE2 plasmid was used, however due to it being too big, a digestion was done followed by a ligation. The transformation had been concluded successful. However, the experiments with those cells were only successful if they were done with a double overnight culture.
 
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             Experiment
 
             Experiment
 
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             Bacteria with neomycin resistance and bacteria without such have been inoculated overnight.
 
             Bacteria with neomycin resistance and bacteria without such have been inoculated overnight.
 
8 vials were set up with different kanamycin concentrations ranging from 0 µg/µL to 200 µg/µL. In each one were added 100 µL of DH5alphas with neomycin resistance cassette. Another 8 vials with different kanamycin concentrations were prepared and 100 µL of non-resistant DH5 alphas were added in each vial.
 
8 vials were set up with different kanamycin concentrations ranging from 0 µg/µL to 200 µg/µL. In each one were added 100 µL of DH5alphas with neomycin resistance cassette. Another 8 vials with different kanamycin concentrations were prepared and 100 µL of non-resistant DH5 alphas were added in each vial.
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                   <li> We can offer no explanation why the experiment was successful with only double overnight cultures </li>
 
                   <li> We can offer no explanation why the experiment was successful with only double overnight cultures </li>
 
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"https://2019.igem.org/wiki/images/1/1d/T--St_Andrews--neomycingraph.jpg"
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<p style="text-align:center;"><font size=-2>Figure 1. Growth of neomycin resistance DH5alpha cells in different kanamycin concentrations
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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 18:56, 19 October 2021


Neomycin Resistance

Neomycin resistance gene. This gene can be used for selection of cells with an efficient transformation. This gene codes neomycin phosphotransferase which breaks neomycin, kanamycin, and gentamicin molecules. If you use these gene as selectivity gene in bacteria, and your laboratory lacks neomycin, you can replace it for kanamycin by adding 35 mg/ml per liter of LB media. The best concentration of neomycin to use is 80 mg/ml per liter of LB media.

This gene can be also used as a selective gene for mammalian cells using gentamicin.

Contribution from other teams


Toulouse_INSA-UPS 2021's contribution


Characterization

Toulouse_INSA_UPS_2021contributed to the characterization of this part. The part BBa_K1313004 for the neoR gene had not been characterized before in iGEM for yeast selection, but the team showed this year that it is functional for a transformant selection in S. cerevisiae. Check the part of the full construction (BBa_K3930002) for more result details.

(--ThomasG 16:53, 18 October 2021 (UTC+2))

Characterization iGEM 2019

By St Andrews 2019

Aim

To characterize the part responsible for neomycin resistance (BBa_K1313004) and its response to kanamycin in DH5 alpha E. coli cells using OD measurements at 600 nm in the presence or absence of a plasmid containing the resistance sequence.

Experimental design

Preparation:

PLBDE2 plasmid was used, however due to it being too big, a digestion was done followed by a ligation. The transformation had been concluded successful. However, the experiments with those cells were only successful if they were done with a double overnight culture.

Experiment

Bacteria with neomycin resistance and bacteria without such have been inoculated overnight. 8 vials were set up with different kanamycin concentrations ranging from 0 µg/µL to 200 µg/µL. In each one were added 100 µL of DH5alphas with neomycin resistance cassette. Another 8 vials with different kanamycin concentrations were prepared and 100 µL of non-resistant DH5 alphas were added in each vial. OD measurements at 600 nm were taken every 30 minutes to follow colony growth for 4 hours.

Experiment was repeated with higher kanamycin concentrations ranging from 0 µg/µL to 1000 µg/µL and the same observation as the previous experiment could be concluded.

Observations

  • Cells with resistance grew overtime, and the vials containing high kanamycin concentrations produced slower cell growth
  • Cells without resistance grew only in the vial with 0 µg/ µL kanamycin concentration
  • We can offer no explanation why the experiment was successful with only double overnight cultures

"T--St_Andrews--neomycingraph.jpg"

Figure 1. Growth of neomycin resistance DH5alpha cells in different kanamycin concentrations



Sequence and Features


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal PstI site found at 165
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal PstI site found at 165
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal PstI site found at 165
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal PstI site found at 165
    Illegal NgoMIV site found at 616
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal SapI.rc site found at 465
    Illegal SapI.rc site found at 675