Difference between revisions of "Part:BBa K2558003:Experience"

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This experience page is provided so that any user may enter their experience using this part.<BR>Please enter
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==Fluorescence Loss Assays== 
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how you used this part and how it worked out.
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<p>characterised by iGEM19_Wageningen</p>
  
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===dCas9 Fluorescence Loss Assays===
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=== dCas9 - monoplex===
  
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<p>The strength of dCas9 inhibition was measured in an Fluorescence Loss Assay. GFP, under the control of the lacUV5 promoter, is genomically inserted in an <em>E. coli</em> DH10ß strain. Three spacer were designed (Sp1 - 3) targeting either the -10 element of the lacUV5 promoter (Sp1) or the first 100 nucleotides of the GFP cds. A non-targeting Spacer (SpNT) was included as a control. All spacers were expressed via a single guide (sg)RNA expression cassette. Expression of dCas9 was IPTG inducible via the <em>lac</em>I/<em>lac</em> operator system. </p>
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<p>The strength of dCas9 inhibition was measured in an Fluorescence Loss Assay. GFP, under the control of the lacUV5 promoter, is genomically inserted in an <em>E. coli</em> DH10ß strain. Three spacer were designed (Sp1 - 3) targeting either the -10 element of the lacUV5 promoter (Sp1) or the first 100 nucleotides of the GFP cds. A non-targeting Spacer (SpNT) was included as a control. All spacers were expressed via a single guide (sg)RNA expression cassette. Expression of dCas9 is IPTG inducible via the <em>lac</em>I/<em>lac</em> operator system. </p>
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<p>Sp1 - 3 show clear reduction of GFP levels. Leakiness of <em>lac</em>I/<em>lac</em> operator system results in GFP expression even under un-induced conditions. The choice of spacers shows an effect on the efficiency of repression. Targeting the promoter region is more promising for repression of gene expression compared to targeting the beginning of the cds. For recommendations regarding spacer design see Larson et al., 2013. </p>
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<p>Sp1 - 3 show clear reduction of GFP levels. Leakiness of <em>lac</em>I/<em>lac</em> operator system results in GFP repression even under un-induced conditions. The choice of spacers shows an effect on the efficiency of repression. Targeting the promoter region is more promising for repression of gene expression (Sp1) compared to targeting the beginning of the cds (Sp2&3). For recommendations regarding spacer design see Larson et al., 2013. </p>
  
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<p> Complete dCas9 expression cassette: https://parts.igem.org/Part:BBa_K3286008 </p>
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<p> - Complete dCas9 expression cassette: https://parts.igem.org/Part:BBa_K3286008 </p>
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<p> sgRNA expression cassette (single target): https://parts.igem.org/Part:BBa_K3286003 </p>
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<p> - sgRNA expression cassette (single target): https://parts.igem.org/Part:BBa_K3286003 </p>
  
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<p>dCas9 can further be used in a gene circuit under the control of an Anti-CRISPR. For more information see: https://parts.igem.org/Part:BBa_K3286010</p>
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<p> - dCas9 can further be used in a gene circuit under the control of an Anti-CRISPR. For more information see: https://parts.igem.org/Part:BBa_K3286010</p>
  
 
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<img style="width:60%" src="https://static.igem.org/mediawiki/parts/1/12/DCas9_Bronze_monoplex.png">
 
<img style="width:60%" src="https://static.igem.org/mediawiki/parts/1/12/DCas9_Bronze_monoplex.png">
 
<figcaption>
 
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<b>Figure1: Fluorescence Loss Assay. Amount of GFP fluorescence under the induction of dCas9 targeting GFP.</b> <p> The expression of dCas9 is regulated by an IPTG inducible expression system. Sp1 - 3 represent three different spacers targeting GFP or the associated promoter. SpNT represents a non-targeting spacer acting as a control. </p>
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<b>Figure1: Fluorescence Loss Assay. Amount of GFP fluorescence under the induction of dCas9 targeting GFP.</b> <p> The expression of dCas9 is regulated by an IPTG inducible expression system. Sp1 - 3 represent three different spacers targeting GFP or the associated promoter. SpNT represents a non-targeting spacer serving as a control. </p>
 
</figcaption>
 
</figcaption>
 
</figure>
 
</figure>
 
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===dCas9 - multiplex===
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<p>In a similar manner the strength of dCas9 inhibition on two targets, GFP & RFP, was measured simultaneously. GFP & RFP were under the control of the constitutive phage lambda PR & PL promoter, respectively . Sp1 - 3 refer to three different combinations of two spacers targeting each either GFP or RFP. A non-targeting Spacer (SpNT) was included as a control. Sp1 - 3 were expressed via a double sgRNA expression cassette with each sgRNA being linked to either a GFP or RFP targeting spacer. Expression of dCas9 is IPTG inducible via the lacI/lac operator system.</p>
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<p> - Complete dCas9 expression cassette: https://parts.igem.org/Part:BBa_K3286008</p>
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<p> - sgRNA expression cassette (double target): https://parts.igem.org/Part:BBa_K3286011</p>
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<html>
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<figure>
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<img style="width:70%" src="https://static.igem.org/mediawiki/parts/4/4d/DCas9_Bronze_multiplex.png">
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<figcaption>
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<b>Figure2: Fluorescence Loss Assay. Amount of GFP fluorescence under the induction of dCas9 targeting GFP.</b> <p> The expression of dCas9 is regulated by an IPTG inducible expression system. Sp1 - 3 refer to three different combinations of two spacers targeting each either GFP or RFP. SpNT represents a non-targeting spacer serving as a control. </p>
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</figcaption>
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</figure>
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</html>
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===User Reviews===
 
===User Reviews===

Latest revision as of 21:42, 21 October 2019


Fluorescence Loss Assays

characterised by iGEM19_Wageningen

dCas9 - monoplex

The strength of dCas9 inhibition was measured in an Fluorescence Loss Assay. GFP, under the control of the lacUV5 promoter, is genomically inserted in an E. coli DH10ß strain. Three spacer were designed (Sp1 - 3) targeting either the -10 element of the lacUV5 promoter (Sp1) or the first 100 nucleotides of the GFP cds. A non-targeting Spacer (SpNT) was included as a control. All spacers were expressed via a single guide (sg)RNA expression cassette. Expression of dCas9 is IPTG inducible via the lacI/lac operator system.

Sp1 - 3 show clear reduction of GFP levels. Leakiness of lacI/lac operator system results in GFP repression even under un-induced conditions. The choice of spacers shows an effect on the efficiency of repression. Targeting the promoter region is more promising for repression of gene expression (Sp1) compared to targeting the beginning of the cds (Sp2&3). For recommendations regarding spacer design see Larson et al., 2013.

- Complete dCas9 expression cassette: https://parts.igem.org/Part:BBa_K3286008

- sgRNA expression cassette (single target): https://parts.igem.org/Part:BBa_K3286003

- dCas9 can further be used in a gene circuit under the control of an Anti-CRISPR. For more information see: https://parts.igem.org/Part:BBa_K3286010

Figure1: Fluorescence Loss Assay. Amount of GFP fluorescence under the induction of dCas9 targeting GFP.

The expression of dCas9 is regulated by an IPTG inducible expression system. Sp1 - 3 represent three different spacers targeting GFP or the associated promoter. SpNT represents a non-targeting spacer serving as a control.

dCas9 - multiplex

In a similar manner the strength of dCas9 inhibition on two targets, GFP & RFP, was measured simultaneously. GFP & RFP were under the control of the constitutive phage lambda PR & PL promoter, respectively . Sp1 - 3 refer to three different combinations of two spacers targeting each either GFP or RFP. A non-targeting Spacer (SpNT) was included as a control. Sp1 - 3 were expressed via a double sgRNA expression cassette with each sgRNA being linked to either a GFP or RFP targeting spacer. Expression of dCas9 is IPTG inducible via the lacI/lac operator system.

- Complete dCas9 expression cassette: https://parts.igem.org/Part:BBa_K3286008

- sgRNA expression cassette (double target): https://parts.igem.org/Part:BBa_K3286011


Figure2: Fluorescence Loss Assay. Amount of GFP fluorescence under the induction of dCas9 targeting GFP.

The expression of dCas9 is regulated by an IPTG inducible expression system. Sp1 - 3 refer to three different combinations of two spacers targeting each either GFP or RFP. SpNT represents a non-targeting spacer serving as a control.


User Reviews

UNIQ4fa659056d7132b6-partinfo-00000002-QINU UNIQ4fa659056d7132b6-partinfo-00000003-QINU