Difference between revisions of "Part:BBa K3905013"
 
(7 intermediate revisions by the same user not shown)
Line 2: Line 2:
 
__NOTOC__
 
__NOTOC__
 
<partinfo>BBa_K3905013 short</partinfo>
 
<partinfo>BBa_K3905013 short</partinfo>
 +
<h4>This is one of the two probes required for the isothermal amplification of miR-517-5p. </h4>
  
 
<h2> How our miRPA works </h2>
 
<h2> How our miRPA works </h2>
  
 
<html>
 
<html>
 +
<centre>
 
<figure>
 
<figure>
−
<img width="500px" src="https://2021.igem.org/wiki/images/1/1b/T--City_of_London_UK--RPA2.png">
+
<img width="500px" src="https://2021.igem.org/wiki/images/7/73/T--City_of_London_UK--Hardware_miRPA1.png">
 
</figure>
 
</figure>
 +
</centre>
 
</html>
 
</html>
 +
 +
 +
As seen in the diagram above, two DNA probes, one with 5’ phosphorylation, bind to the miRNA, and are ligated together by DNA ligase. Then, primers are added, with DNA polymerase, and complementary strands to the ligated probes are synthesised. Then, RPA can take place: primers, associated with recombinase protein so they can dislodge the strands, replicating them in a similar method to PCR, but as no heat cycles are required to break up the strands, the process can take place isothermally.
 +
 +
 +
<html>
 +
<centre>
 +
<figure>
 +
<img width="600px" src="https://2021.igem.org/wiki/images/9/95/T--City_of_London_UK--GRPA2.png">
 +
</figure>
 +
</centre>
 +
</html>
 +
 +
In order for the miRNA to be detected, we decided to use ‘asymmetric RPA’: an excess of forward primers are added (usually 5x the amount), so an excess of the strand that was originally miRNA form, so there is now ssDNA with the miRNA code in DNA. This can be detected by our toehold switches.
 +
 +
 +
<html>
 +
<centre>
 +
<figure>
 +
<img width="600px" src="https://2021.igem.org/wiki/images/thumb/9/90/T--City_of_London_UK--Hardware_miRPA3.png/974px-T--City_of_London_UK--Hardware_miRPA3.png">
 +
</figure>
 +
</centre>
 +
</html>
 +
 +
 +
<html>
 +
<centre>
 +
<figure>
 +
<img width="600px" src="https://2021.igem.org/wiki/images/0/04/T--City_of_London_UK--grpa4.png">
 +
</figure>
 +
</centre>
 +
</html>
 +
 +
  
 
<!-- Add more about the biology of this part here
 
<!-- Add more about the biology of this part here

Latest revision as of 22:51, 21 October 2021


517-5 Probe 1

This is one of the two probes required for the isothermal amplification of miR-517-5p.

How our miRPA works


As seen in the diagram above, two DNA probes, one with 5’ phosphorylation, bind to the miRNA, and are ligated together by DNA ligase. Then, primers are added, with DNA polymerase, and complementary strands to the ligated probes are synthesised. Then, RPA can take place: primers, associated with recombinase protein so they can dislodge the strands, replicating them in a similar method to PCR, but as no heat cycles are required to break up the strands, the process can take place isothermally.


In order for the miRNA to be detected, we decided to use ‘asymmetric RPA’: an excess of forward primers are added (usually 5x the amount), so an excess of the strand that was originally miRNA form, so there is now ssDNA with the miRNA code in DNA. This can be detected by our toehold switches.




Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]