Difference between revisions of "Part:BBa K4806215"

 
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<partinfo>BBa_K4806215 short</partinfo>
 
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    .bild {max-width: 100% ; height: auto;}
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===Usage and Biology===
 
  
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<p>This composite part contains the AβSAP(i)-promotor (<a href=" https://parts.igem.org/Part:BBa_K4806013">BBa_K4806013</a>), the coding sequence of the POR (<a href=" https://parts.igem.org/Part:BBa_K4806003">BBa_K4806003</a>) and CYP2D6 (<a href=" https://parts.igem.org/Part:BBa_K4806001">BBa_K4806001</a>), the HA-tag (<a href=" https://parts.igem.org/Part:BBa_K3002017">BBa_K3002017</a>)<sup>*</sup> for detection and the tRPL23-terminator (<a href="https://parts.igem.org/Part:BBa_K3002006">BBa_K3002006</a>)<sup>*</sup>. Further this part contains an endlinker (<a href=" https://parts.igem.org/Part:BBa_K4806016">BBa_K4806016</a>) for connection with the vector and two dummys (<a href=" https://parts.igem.org/Part:BBa_K4806016">BBa_K4806017</a>, <a href=" https://parts.igem.org/Part:BBa_K4806016">BBa_K4806022</a>). This part is codon-optimized for <i>Chlamydomonas reinhardtii</i> and was built as part of the CYPurify Collection. This level 2 part leads to expression and potential detoxification of specific chemicals (Ohkawa & Inui, 2015).</p>  
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<span class='h3bb'>Sequence and Features</span>
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<partinfo>BBa_K4806215 SequenceAndFeatures</partinfo>
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<h2>Construct</h2>
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  <img class="bild" src="https://static.igem.wiki/teams/4806/wiki/registry/level2/cyp3a4-tandem-construct.png">
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  <div class="unterschrift"><b>Fig.1 Construct design</b><br>
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  This construct was designed using the modular cloning system (MoClo).</div>
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<p><br></p>
  
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<h2>Sequence and Features</h2>
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===Functional Parameters===
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<partinfo>BBa_K4806215 parameters</partinfo>
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<partinfo>BBa_K4806214 SequenceAndFeatures</partinfo>
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<partinfo>BBa_K4806214 parameters</partinfo>
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<h2>Results</h2>
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<p>We detected the expression of CYP3A4 tandem together with the POR with HA-tag (<a href=" https://parts.igem.org/Part:BBa_K4806214">BBa_K4806214</a>) via immunoblotting.</p>
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  <img class="bild" src="https://static.igem.wiki/teams/4806/wiki/registry/level-0/cyp3a4-tandem-por-wb.png">
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  <div class="unterschrift"><b>Fig.2 Expression of CYP3A4 tandem together with the POR with HA-tag</b><br>
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  (a)Level 2 MoClo construct for expression of the enzyme CYP3A4 tandem together with the POR containing the HA-tag was designed (see Fig.1 for part description) <br> (b) Picture of resulting western blot. The enzyme CYP3A4/POR is marked by a black arrow, the white arrow marks a cross reaction of antibodies. For reference, the UVM4 recipient strain and a strain expressing the HA-tagged ribosomal chloroplast 50S protein L5 (RPL5) were used as a negative and positive control, respectively
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  </div>  
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<p>For detection the UVM4 strain was transformed with the construct in (a). 30 hygromycin-resistant transformants were cultivated in TAP medium and samples were taken after 3 days. Whole-cell proteins were extracted and analyzed by SDS-PAGE and immunoblotting using an anti-HA antibody. The expression of CYP3A4 (~ 57 kDa) and the POR (~77 kDa) is visible.</p>
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<p><br></p>
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<h2>Contribution</h2>
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<p>The <sup>*</sup> marked parts were not created by us. Our results can be found on the experience page of each part.</p>
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<p><br></p>
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<h2>The CYurify Collection</h2>
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<p>The world is at a crossroad. We must decide now how we want to continue living in order to survive. To contribute to this cause, we proudly present our CYPURIFY Collection for <i>Chlamydomonas reinhardtii</i>. The contamination of our water with toxic substances is on the rise, damaging ecosystems and eventually impacting us humans. We see it as our duty to take action.</p><p>
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To accomplish this, we designed 23 level 0, 9 level 1 and 24 level 2 parts for bioremediation of toxic wastewater using Modular Cloning. At heart of this collection are the Cytochrome P450 enzymes. Some of these monooxygenases are already used in synthesis or in medicine. We aimed to take a further step in research by expressing these enzymes in <i>Chlamydomonas</i> for the first time. </p><p>
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<i>Chlamydomonas reinhardtii</i> is the perfect fit for our system as a phototrophic organism with cost-effective and sustainable cultivation. Additionally, this organism is well-studied and easy to transform. We have access to a vast library of preexisting parts, all compatible with Modular Cloning.</p><p>
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Modular Cloning is a cloning method based on the Golden Gate System. What makes it unique is the ability to assemble entire genes in a single reaction. This is made possible by using type IIS restriction enzymes, which cut outside their recognition sequence, effectively removing it after ligation into the target vector. Therefore, the reaction proceeds in a specific direction. The parts are divided into level 0,1 and 2. Level 0 parts are basic components such as promotors, terminators or tags. Level 1 parts are combinations of these level 0 parts, forming transcriptional units. Level 2 parts are combinations of level 1 parts, allowing the expression of multiple genes simultaneously. Level 0 parts are assigned one of 10 positions, with standardized overhangs between them, enabling the exchange of parts between laboratories. </p><p>
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With our collection, we aim to contribute to environmental protection. This collection is infinitely expandable with new CYPs that can degrade other toxic substances. So, what are you waiting for?
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</p>
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</html>

Revision as of 14:50, 8 October 2023


POR/CYP2D6 tandem with HA-tag for Chlamydomonas reinhardtii (Phytobrick)

This composite part contains the AβSAP(i)-promotor (BBa_K4806013), the coding sequence of the POR (BBa_K4806003) and CYP2D6 (BBa_K4806001), the HA-tag (BBa_K3002017)* for detection and the tRPL23-terminator (BBa_K3002006)*. Further this part contains an endlinker (BBa_K4806016) for connection with the vector and two dummys (BBa_K4806017, BBa_K4806022). This part is codon-optimized for Chlamydomonas reinhardtii and was built as part of the CYPurify Collection. This level 2 part leads to expression and potential detoxification of specific chemicals (Ohkawa & Inui, 2015).


Construct

Fig.1 Construct design
This construct was designed using the modular cloning system (MoClo).


Sequence and Features


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal PstI site found at 3722
    Illegal PstI site found at 4982
    Illegal PstI site found at 5042
    Illegal PstI site found at 5701
    Illegal PstI site found at 8870
    Illegal PstI site found at 9192
    Illegal PstI site found at 9252
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 2618
    Illegal NheI site found at 4907
    Illegal NheI site found at 7273
    Illegal PstI site found at 3722
    Illegal PstI site found at 4982
    Illegal PstI site found at 5042
    Illegal PstI site found at 5701
    Illegal PstI site found at 8870
    Illegal PstI site found at 9192
    Illegal PstI site found at 9252
    Illegal NotI site found at 5347
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal XhoI site found at 2899
    Illegal XhoI site found at 7554
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal PstI site found at 3722
    Illegal PstI site found at 4982
    Illegal PstI site found at 5042
    Illegal PstI site found at 5701
    Illegal PstI site found at 8870
    Illegal PstI site found at 9192
    Illegal PstI site found at 9252
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal PstI site found at 3722
    Illegal PstI site found at 4982
    Illegal PstI site found at 5042
    Illegal PstI site found at 5701
    Illegal PstI site found at 8870
    Illegal PstI site found at 9192
    Illegal PstI site found at 9252
    Illegal NgoMIV site found at 1270
    Illegal NgoMIV site found at 1452
    Illegal NgoMIV site found at 6630
    Illegal NgoMIV site found at 9114
    Illegal NgoMIV site found at 10618
    Illegal AgeI site found at 2637
    Illegal AgeI site found at 7292
  • 1000
    COMPATIBLE WITH RFC[1000]


Results

We detected the expression of CYP3A4 tandem together with the POR with HA-tag (BBa_K4806214) via immunoblotting.

Fig.2 Expression of CYP3A4 tandem together with the POR with HA-tag
(a)Level 2 MoClo construct for expression of the enzyme CYP3A4 tandem together with the POR containing the HA-tag was designed (see Fig.1 for part description)
(b) Picture of resulting western blot. The enzyme CYP3A4/POR is marked by a black arrow, the white arrow marks a cross reaction of antibodies. For reference, the UVM4 recipient strain and a strain expressing the HA-tagged ribosomal chloroplast 50S protein L5 (RPL5) were used as a negative and positive control, respectively

For detection the UVM4 strain was transformed with the construct in (a). 30 hygromycin-resistant transformants were cultivated in TAP medium and samples were taken after 3 days. Whole-cell proteins were extracted and analyzed by SDS-PAGE and immunoblotting using an anti-HA antibody. The expression of CYP3A4 (~ 57 kDa) and the POR (~77 kDa) is visible.


Contribution

The * marked parts were not created by us. Our results can be found on the experience page of each part.


The CYurify Collection

The world is at a crossroad. We must decide now how we want to continue living in order to survive. To contribute to this cause, we proudly present our CYPURIFY Collection for Chlamydomonas reinhardtii. The contamination of our water with toxic substances is on the rise, damaging ecosystems and eventually impacting us humans. We see it as our duty to take action.

To accomplish this, we designed 23 level 0, 9 level 1 and 24 level 2 parts for bioremediation of toxic wastewater using Modular Cloning. At heart of this collection are the Cytochrome P450 enzymes. Some of these monooxygenases are already used in synthesis or in medicine. We aimed to take a further step in research by expressing these enzymes in Chlamydomonas for the first time.

Chlamydomonas reinhardtii is the perfect fit for our system as a phototrophic organism with cost-effective and sustainable cultivation. Additionally, this organism is well-studied and easy to transform. We have access to a vast library of preexisting parts, all compatible with Modular Cloning.

Modular Cloning is a cloning method based on the Golden Gate System. What makes it unique is the ability to assemble entire genes in a single reaction. This is made possible by using type IIS restriction enzymes, which cut outside their recognition sequence, effectively removing it after ligation into the target vector. Therefore, the reaction proceeds in a specific direction. The parts are divided into level 0,1 and 2. Level 0 parts are basic components such as promotors, terminators or tags. Level 1 parts are combinations of these level 0 parts, forming transcriptional units. Level 2 parts are combinations of level 1 parts, allowing the expression of multiple genes simultaneously. Level 0 parts are assigned one of 10 positions, with standardized overhangs between them, enabling the exchange of parts between laboratories.

With our collection, we aim to contribute to environmental protection. This collection is infinitely expandable with new CYPs that can degrade other toxic substances. So, what are you waiting for?