Difference between revisions of "Part:BBa K4239006"

 
 
(11 intermediate revisions by the same user not shown)
Line 3: Line 3:
 
<partinfo>BBa_K4239006 short</partinfo>
 
<partinfo>BBa_K4239006 short</partinfo>
  
−
aze
+
<html>
  
−
<!-- Add more about the biology of this part here
+
<br>
−
===Usage and Biology===
+
  
−
<!-- -->
+
<h2>Description</h2>
−
<span class='h3bb'>Sequence and Features</span>
+
 
 +
<p><i>fiatluxC</i> <a href="https://parts.igem.org/Part:BBa_K4239001" class="pr-0" target="_blank">(BBa_K4239001)</a> and
 +
<i>fiatluxD</i> <a href="https://parts.igem.org/Part:BBa_K4239002" class="pr-0" target="_blank">(BBa_K4239002)</a> are to be used with
 +
<i>fiatluxE</i> <a href="https://parts.igem.org/Part:BBa_K4239005" class="pr-0" target="_blank">(BBa_K4329005)</a>.
 +
They code for a fatty acid reductase. With the subparts encoded by <i>fiatluxE</i>, they form a complex that recycles fatty acids to fatty aldehydes. Fatty aldehydes will be used as a substrate for the luciferase protein.</p>
 +
 
 +
<p>The system <i>fiatluxC/fiatluxD/fiatluxE</i> is to be used with
 +
<i>fiatluxA</i> <a href="https://parts.igem.org/Part:BBa_K4239003" class="pr-0" target="_blank">(BBa_K4239003)</a> and <i>fiatluxB</i> <a href="https://parts.igem.org/Part:BBa_K4239004" class="pr-0" target="_blank">(BBa_K4239004)</a>, gathered in the <i>fiatluxCDABE</i> operon <a href="https://parts.igem.org/Part:BBa_K4239008" class="pr-0" target="_blank">(BBa_K4239008)</a>. <i>fiatluxA</i> and <i>fiatluxB</i> code for the luciferase protein.</p>
 +
 
 +
<p><i>fiatlux</i> genes come from <i>ilux</i> genes (C, D, A, B, E). They were modified to remove every iGEM restriction site (EcoRI, XbaI, SpeI and PstI) included in genes. They were also adapted to include the biobrick format.</p>
 +
 
 +
<p>The <i>ilux</i> operon was born from a mutated natural luminescence operon present in the bacteria <i>P.luminescens</i>: the <i>lux</i> operon. These mutations were error-prone PCR induced according to Gregor et al.’s study in 2018 (Gregor et al. 2018). The aim was to create a system of genes that produced more light than the <i>lux</i> system.</p>
 +
 
 +
<br>
 +
 
 +
</html>
 +
 
 +
<h2>Sequence and Features</h2>
 
<partinfo>BBa_K4239006 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K4239006 SequenceAndFeatures</partinfo>
 +
 +
<html>
 +
 +
<br>
 +
 +
<h2>Construction</h2>
 +
 +
<p><i>fiatluxCD</i> was directly synthesized with the promoter
 +
J23117 <a href="https://parts.igem.org/Part:BBa_J23117" class="pr-0" target="_blank">(BBa_J23117)</a>. It is a constitutive and weak promoter, so no inducer needs to be added. <i>fiatluxCD</i> and its promoter were ordered in the plasmid pACYDuet-1, a p15A low-copy plasmid, and transformed it into <i>E.coli</i> DH5α. <i>fiatluxCD</i> and the promoter J23117 are with the iGEM format (between EcoRI, XbaI, SpeI and PstI).</p>
 +
 +
<figure><center>
 +
<img
 +
alt="parts2"
 +
src="https://static.igem.wiki/teams/4239/wiki/parts/parts2.png"
 +
width="300"
 +
title="Construction of <i>fiatluxCD</i>">
 +
<figcaption><strong> Figure 1: </strong>Construction of <i>fiatluxCD</i>
 +
</center></figcaption>
 +
</figure>
 +
 +
<br>
 +
 +
<p>pACYDuet-1-J23117-<i>fiatluxCD</i> was requested because its origin of replication (p15A) and its resistance to chloramphenicol makes it compatible in the same bacteria with the plasmid pBAD18-<i>fiatluxABE</i> <a href="https://parts.igem.org/Part:BBa_K4239007" class="pr-0" target="_blank">(BBa_K4239007)</a>
 +
(ori colE1) which carries the resistance to kanamycin. The goal is to insert both plasmids in the same bacteria, to gather the entire <i>fiatluxCDABE</i> operon.</p>
 +
 +
<br>
 +
 +
<h2>Characterization</h2>
 +
 +
<p>To check that the synthesized DNA contains the genes <i>fiatluxCD</i> and the promotor, we carry out a miniprep of the plasmid pACYDuet-1-J23117-<i>fiatluxCD</i>. This last one is digested by two enzymes, EcoR1 and Pst1 (iGEM restriction sites), and a migration on agarose gel was performed. The expected fragments are:
 +
 +
<ul type circle>
 +
<li> Non Digested plasmid: 6488 bp </li>
 +
<li> Double Digested plasmid: 2509 bp + 3979 bp
 +
</ul>
 +
 +
</p>
 +
 +
<p>The strip at 2509 bp indicates that <i>fiatluxCD</i> and the promoter J23117 are indeed in the plasmid.</p>
 +
 +
 +
<figure><center>
 +
<img
 +
alt="parts3"
 +
src="https://static.igem.wiki/teams/4239/wiki/parts/parts3.png"
 +
width="300"
 +
title="Digestion and migration on agarose gel of pACYDuet-1-J23117-<i>fiatluxCD</i>">
 +
<figcaption><strong> Figure 1: </strong>Construction of <i>fiatluxCD</i>
 +
</center></figcaption>
 +
</figure>
 +
 +
<br>
 +
 +
<h2>References</h2>
 +
 +
<p><i> Gregor C, Gwosch KC, Sahl SJ, Hell SW. Strongly enhanced bacterial bioluminescence with the ilux operon for single-cell imaging. Proc Natl Acad Sci U S A. 2018 Jan 30;115(5):962-967. doi: 10.1073/pnas.1715946115. Epub 2018 Jan 16. PMID: 29339494; PMCID: PMC5798359.</i> </p>
 +
 +
 +
<!-- Add more about the biology of this part here
 +
===Usage and Biology===
  
  

Latest revision as of 15:17, 12 October 2022


Enhanced luciferase substrate forming subunits fiatluxCD and the promoter J23117


Description

fiatluxC (BBa_K4239001) and fiatluxD (BBa_K4239002) are to be used with fiatluxE (BBa_K4329005). They code for a fatty acid reductase. With the subparts encoded by fiatluxE, they form a complex that recycles fatty acids to fatty aldehydes. Fatty aldehydes will be used as a substrate for the luciferase protein.

The system fiatluxC/fiatluxD/fiatluxE is to be used with fiatluxA (BBa_K4239003) and fiatluxB (BBa_K4239004), gathered in the fiatluxCDABE operon (BBa_K4239008). fiatluxA and fiatluxB code for the luciferase protein.

fiatlux genes come from ilux genes (C, D, A, B, E). They were modified to remove every iGEM restriction site (EcoRI, XbaI, SpeI and PstI) included in genes. They were also adapted to include the biobrick format.

The ilux operon was born from a mutated natural luminescence operon present in the bacteria P.luminescens: the lux operon. These mutations were error-prone PCR induced according to Gregor et al.’s study in 2018 (Gregor et al. 2018). The aim was to create a system of genes that produced more light than the lux system.


Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 7
    Illegal NheI site found at 30
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BamHI site found at 50
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI.rc site found at 1366


Construction

fiatluxCD was directly synthesized with the promoter J23117 (BBa_J23117). It is a constitutive and weak promoter, so no inducer needs to be added. fiatluxCD and its promoter were ordered in the plasmid pACYDuet-1, a p15A low-copy plasmid, and transformed it into E.coli DH5α. fiatluxCD and the promoter J23117 are with the iGEM format (between EcoRI, XbaI, SpeI and PstI).

parts2
Figure 1: Construction of fiatluxCD

pACYDuet-1-J23117-fiatluxCD was requested because its origin of replication (p15A) and its resistance to chloramphenicol makes it compatible in the same bacteria with the plasmid pBAD18-fiatluxABE (BBa_K4239007) (ori colE1) which carries the resistance to kanamycin. The goal is to insert both plasmids in the same bacteria, to gather the entire fiatluxCDABE operon.


Characterization

To check that the synthesized DNA contains the genes fiatluxCD and the promotor, we carry out a miniprep of the plasmid pACYDuet-1-J23117-fiatluxCD. This last one is digested by two enzymes, EcoR1 and Pst1 (iGEM restriction sites), and a migration on agarose gel was performed. The expected fragments are:

  • Non Digested plasmid: 6488 bp
  • Double Digested plasmid: 2509 bp + 3979 bp

The strip at 2509 bp indicates that fiatluxCD and the promoter J23117 are indeed in the plasmid.

parts3
Figure 1: Construction of fiatluxCD

References

Gregor C, Gwosch KC, Sahl SJ, Hell SW. Strongly enhanced bacterial bioluminescence with the ilux operon for single-cell imaging. Proc Natl Acad Sci U S A. 2018 Jan 30;115(5):962-967. doi: 10.1073/pnas.1715946115. Epub 2018 Jan 16. PMID: 29339494; PMCID: PMC5798359.