Difference between revisions of "Part:BBa K2259044"

 
(→‎Toehold riboregulators in SynORI)
 
(6 intermediate revisions by 4 users not shown)
Line 3: Line 3:
 
<partinfo>BBa_K2259044 short</partinfo>
 
<partinfo>BBa_K2259044 short</partinfo>
  
−
This construct defines a constitutive copy number of plasmid by using an anderson promoter to transcribe RNA I at a specific rate. RNA I controls the copy number by binding to RNA II (plasmid replication iniator) and inhibiting its ability to form primer for polymerase.
+
The part is composed of the modified cI lambda promoter [[part:BBa_I12006]] activator - cI lambda [[part:BBa_C0051]] which is under the Anderson promoter [[part:BBa_J23104]] followed by a strong RBS [[part:BBa_B0034]].
 +
 
 +
This part is used together with [[part:BBa_K2259042]] and [[part:BBa_K2259043]] to build a 5 plasmid SynORI selection gene circuit.
 +
 
 +
cI lambda upregulates both signal activated trigger 1 [[part:BBa_K2259042]] and trigger 2 [[part:BBa_K2259043]] expression thus activating the translation of both toehold 1 [[part:BBa_K2259014]] and toehold 2 [[part:BBa_K2259015]] locked genes.
  
−
<!-- Add more about the biology of this part here
 
−
===Usage and Biology===
 
  
−
<!-- -->
 
 
<span class='h3bb'>Sequence and Features</span>
 
<span class='h3bb'>Sequence and Features</span>
 
<partinfo>BBa_K2259044 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K2259044 SequenceAndFeatures</partinfo>
Line 17: Line 18:
 
<partinfo>BBa_K2259044 parameters</partinfo>
 
<partinfo>BBa_K2259044 parameters</partinfo>
 
<!-- -->
 
<!-- -->
 +
 +
__TOC__
 +
 +
 +
 +
=Introduction=
 +
==The overview of 5 plasmid system==
 +
 +
[[Image:5plasmid.png|center|500px|thumb|<b>Figure 1. </b> The schematic representation of 5 plasmid SynORI selection system. First plasmid constantly expresses lambda, the activator of the modified phage promoter, which controls the expression of the Trigger 1 and 2. The Triggers unlock the translation of split resistance gene controlled by Toehold 1 and 2. Additionally, 434 repressor is constantly expressed to regulate the modified phage promoter. If any of the plasmid is lost, the cell dies.]]
 +
 +
== Results ==
 +
 +
[[Image:5plasmidresult.jpg|center|500px|thumb|<b>Figure 1. </b> SynORI 5 plasmid co-transformation results. 1 - No trigger 1 (control). 2 - No trigger 2 (control). 3 - No lambda activator plasmid (control). 4 - Full System: lambda activator plasmid; toehold 1 alpha-neo; toehold 2 beta-neo; trigger 1; trigger 2]]
 +
 +
=About SynORI=
 +
[[Image:Sel.png|600px|center|]]
 +
SynORI is a framework for multi-plasmid systems created by ''Vilnius-Lithuania 2017'' which enables quick and easy workflow with multiple plasmids, while also allowing to freely pick and modulate copy number for every unique plasmid group! Read more about [http://2017.igem.org/Team:Vilnius-Lithuania SynORI here]!
 +
 +
==Toehold riboregulators in SynORI==
 +
Toehold switches together with their corresponding RNA triggers and split antibiotic genes completes the dynamic SynORI selection system. The switches lock the translation of downstream split antibiotic genes and form an AND type gate genetic circuit which functions to stably maintain multiple plasmids in the SynORI collection.
 +
 +
SynORI selection gene circuits for multi-plasmid systems:
 +
 +
•  2 plasmids
 +
 +
Consisting of: Two split antibiotic genes ([[part:BBa_K2259018]] and [[part:BBa_K2259019]])
 +
 +
•  3 plasmids
 +
 +
Consisting of:
 +
One Toehold ([[part:BBa_K2259014]] or [[part:BBa_K2259015]]),
 +
one Trigger RNA ([[part:BBa_K2259016]] or [[part:BBa_K2259017]]) and
 +
split neomycin antibiotic resistance genes ([[part:BBa_K2259018]] and [[part:BBa_K2259019]]).
 +
 +
•  4 plasmids
 +
 +
Consisting of: Two Toeholds ([[part:BBa_K2259014]] and [[part:BBa_K2259015]]), two Trigger RNAs ([[part:BBa_K2259016]] and [[part:BBa_K2259017]]) and split neomycin antibiotic resistance genes ([[part:BBa_K2259018]] and [[part:BBa_K2259019]]).
 +
 +
•  5 plasmids
 +
 +
Consisting of: Modified phage control system [[part:BBa_K2259044]], two Toeholds ([[part:BBa_K2259014]] and [[part:BBa_K2259015]]), two repressed Trigger RNAs ([[part:BBa_K2259042]] and [[part:BBa_K2259043]]) and split neomycin antibiotic resistance genes ([[part:BBa_K2259018]] and [[part:BBa_K2259019]]).
 +
 +
===Two groups of Toeholds===
 +
SynORI collection introduces two Toehold sequences termed Toehold 1 and Toehold 2 which only interact with its corresponding Trigger RNA, termed Trigger 1 and Trigger 2 and display no cross interaction.
 +
 +
==References==
 +
Toehold Switches: De-Novo-Designed Regulators of Gene Expression
 +
 +
Green, Alexander A. et al.
 +
Cell, Volume 159, Issue 4, 925 - 939

Latest revision as of 19:29, 1 November 2017


Cl lambda (SynORI framework)

The part is composed of the modified cI lambda promoter part:BBa_I12006 activator - cI lambda part:BBa_C0051 which is under the Anderson promoter part:BBa_J23104 followed by a strong RBS part:BBa_B0034.

This part is used together with part:BBa_K2259042 and part:BBa_K2259043 to build a 5 plasmid SynORI selection gene circuit.

cI lambda upregulates both signal activated trigger 1 part:BBa_K2259042 and trigger 2 part:BBa_K2259043 expression thus activating the translation of both toehold 1 part:BBa_K2259014 and toehold 2 part:BBa_K2259015 locked genes.


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
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]



Introduction

The overview of 5 plasmid system

Figure 1. The schematic representation of 5 plasmid SynORI selection system. First plasmid constantly expresses lambda, the activator of the modified phage promoter, which controls the expression of the Trigger 1 and 2. The Triggers unlock the translation of split resistance gene controlled by Toehold 1 and 2. Additionally, 434 repressor is constantly expressed to regulate the modified phage promoter. If any of the plasmid is lost, the cell dies.

Results

Figure 1. SynORI 5 plasmid co-transformation results. 1 - No trigger 1 (control). 2 - No trigger 2 (control). 3 - No lambda activator plasmid (control). 4 - Full System: lambda activator plasmid; toehold 1 alpha-neo; toehold 2 beta-neo; trigger 1; trigger 2

About SynORI

Sel.png

SynORI is a framework for multi-plasmid systems created by Vilnius-Lithuania 2017 which enables quick and easy workflow with multiple plasmids, while also allowing to freely pick and modulate copy number for every unique plasmid group! Read more about [http://2017.igem.org/Team:Vilnius-Lithuania SynORI here]!

Toehold riboregulators in SynORI

Toehold switches together with their corresponding RNA triggers and split antibiotic genes completes the dynamic SynORI selection system. The switches lock the translation of downstream split antibiotic genes and form an AND type gate genetic circuit which functions to stably maintain multiple plasmids in the SynORI collection.

SynORI selection gene circuits for multi-plasmid systems:

• 2 plasmids

Consisting of: Two split antibiotic genes (part:BBa_K2259018 and part:BBa_K2259019)

• 3 plasmids

Consisting of: One Toehold (part:BBa_K2259014 or part:BBa_K2259015), one Trigger RNA (part:BBa_K2259016 or part:BBa_K2259017) and split neomycin antibiotic resistance genes (part:BBa_K2259018 and part:BBa_K2259019).

• 4 plasmids

Consisting of: Two Toeholds (part:BBa_K2259014 and part:BBa_K2259015), two Trigger RNAs (part:BBa_K2259016 and part:BBa_K2259017) and split neomycin antibiotic resistance genes (part:BBa_K2259018 and part:BBa_K2259019).

• 5 plasmids

Consisting of: Modified phage control system part:BBa_K2259044, two Toeholds (part:BBa_K2259014 and part:BBa_K2259015), two repressed Trigger RNAs (part:BBa_K2259042 and part:BBa_K2259043) and split neomycin antibiotic resistance genes (part:BBa_K2259018 and part:BBa_K2259019).

Two groups of Toeholds

SynORI collection introduces two Toehold sequences termed Toehold 1 and Toehold 2 which only interact with its corresponding Trigger RNA, termed Trigger 1 and Trigger 2 and display no cross interaction.

References

Toehold Switches: De-Novo-Designed Regulators of Gene Expression

Green, Alexander A. et al. Cell, Volume 159, Issue 4, 925 - 939