Difference between revisions of "Help:Plasmid backbones/Glossary"

m (Help:Plasmids/Construction Plasmids moved to Help:Plasmids/Glossary)
Line 3: Line 3:
 
|colspan=2|
 
|colspan=2|
 
Here at the Registry, we use the term "plasmid" in three different ways:
 
Here at the Registry, we use the term "plasmid" in three different ways:
−
*"<b>[[Help:Plasmids/Construction Plasmids#Plasmid (backbone)|Plasmid (backbone)]]</b>" - the vector alone, WITHOUT BioBrick(s)
+
*"<b>[[Help:Plasmids/Construction Plasmids#Plasmid backbone|Plasmid backbone]]</b>" - the vector alone, WITHOUT any BioBrick part
−
*"<b>[[Help:Plasmids/Construction Plasmids#Construction Plasmid|Construction Plasmid]]</b>" - Plasmid backbones WITH specialized BioBricks to help you with [[Help:BioBrick Assembly| assembly]]
+
*"<b>[[Help:Plasmids/Construction Plasmids#Construction plasmid|Construction plasmid]]</b>" - Plasmid backbones WITH specialized BioBrick part(s) to help you with [[Help:BioBrick Assembly| assembly]]
−
*"<b>[[Help:Plasmids/Construction Plasmids#Plasmid (with any BioBrick)|Plasmid (with any BioBrick)]]</b>" - Plasmid backbone WITH some BioBrick(s).   
+
*"<b>[[Help:Plasmids/Construction Plasmids#Plasmid with any BioBrick part(s)|Plasmid with any BioBrick part(s)]]</b>" - Plasmid backbone WITH some BioBrick part(s).   
−
 
+
 
|-
 
|-
 
|colspan=2|
 
|colspan=2|
−
==Plasmid (backbone)==
+
==Plasmid backbone==
 
|-
 
|-
−
|valign='top'|
+
|valign='top'| [[Image:Plasmid_nobb.png]]
−
https://static.igem.org/mediawiki/parts/3/3d/Plasmid_nobb.png
+
| BioBrick plasmids form the "backbone" of all BioBrick parts.  Every BioBrick part is maintained on at least one BioBrick plasmid.  Sometimes, a part is maintained on multiple BioBrick plasmid backbones, which vary in antibiotic resistance and replication origin (plasmid copy number).
−
|
+
−
BioBrick plasmids form the "backbone" of all BioBrick parts.  Every BioBrick part is maintained on at least one BioBrick plasmid.  Sometimes, a part is maintained on multiple BioBrick plasmid backbones, which vary in antibiotic resistance and copy number.
+
 
|-
 
|-
 
|colspan=2|
 
|colspan=2|
 
*An example of a BioBrick plasmid without a part insert is '''[[Part:pSB1A3|pSB1A3]]'''.  You can find more on plasmid naming [[Help:Plasmids/Nomenclature|here]]
 
*An example of a BioBrick plasmid without a part insert is '''[[Part:pSB1A3|pSB1A3]]'''.  You can find more on plasmid naming [[Help:Plasmids/Nomenclature|here]]
−
*To find a plasmid part using the "jump to part" sidebar function, erase the default "BBa_" prefix, and enter only the [[Help:Plasmids/Nomenclature|plasmid part name]] (''e.g.,'' pSBxyz).
+
*To find a plasmid part using the "jump to part" sidebar function, erase the default "BBa_" prefix, and enter only the [[Help:Plasmids/Nomenclature|plasmid part name]] (e.g., pSB4K5 or pSB3K3 or pSB1AC3).
 
|-
 
|-
 
|colspan=2|
 
|colspan=2|
  
−
==Construction Plasmid==
+
==Construction plasmid==
 
|-
 
|-
 
|valign='top'|
 
|valign='top'|
Line 36: Line 33:
 
|-
 
|-
 
|colspan=2|
 
|colspan=2|
−
 
+
==Plasmid with any BioBrick part(s)==
−
==Plasmid (with any BioBrick)==
+
 
|-
 
|-
−
|
+
| [[Image:MultiPartsinplasmid.png]]
−
https://static.igem.org/mediawiki/parts/2/22/MultiPartsinplasmid.png
+
| This term refers to a plasmid backbone with one or more BioBrick parts inserted.  An example of this can be seen to the left, where BioBrick parts [[Part:BBa_B0034|BBa_B0034]], [[Part:BBa_C0010|BBa_C0010]] & [[Part:BBa_B0015|BBa_B0015]] have been inserted into an ampicillin resistant plasmid.
−
|
+
−
This term refers to a plasmid backbone with singular or multiple BioBricks inserted.  An example of this can be seen to the left, where BioBrick parts [[Part:BBa_B0034|BBa_B0034]], [[Part:BBa_C0010|BBa_C0010]] & [[Part:BBa_B0015|BBa_B0015]] have been inserted into an ampicillin resistant plasmid.
+
−
|-
+
−
|colspan=2|
+
−
----
+
−
[[Help:Plasmids|'''Back to 'Plasmids' Overview''']]  |[https://parts.igem.org/cgi/partsdb/pgroup.cgi?pgroup=Plasmid '''Browse plasmid parts'''][[Image:Part icon plasmid.png]]
+
 
|}
 
|}

Revision as of 14:37, 25 January 2008

Here at the Registry, we use the term "plasmid" in three different ways:

Plasmid backbone

Plasmid nobb.png BioBrick plasmids form the "backbone" of all BioBrick parts. Every BioBrick part is maintained on at least one BioBrick plasmid. Sometimes, a part is maintained on multiple BioBrick plasmid backbones, which vary in antibiotic resistance and replication origin (plasmid copy number).
  • An example of a BioBrick plasmid without a part insert is pSB1A3. You can find more on plasmid naming here
  • To find a plasmid part using the "jump to part" sidebar function, erase the default "BBa_" prefix, and enter only the plasmid part name (e.g., pSB4K5 or pSB3K3 or pSB1AC3).

Construction plasmid

Plasmid_const.png

If you just want one of the BioBrick plasmids, it is probably available in the iGEM DNA distribution with the part BBa_P1010, BBa_I52001 or BBa_I52002 in the cloning site. You will need the cell strain DB3.1 since each of these three parts constitutively expresses the protein CcdB which is toxic to most strains.

When making a brand new BioBrick part, you will need to choose an appropriate BioBrick plasmid (with the right antibiotic resistance marker, copy number etc.) for your construction purposes. To make construction and assembly of BioBrick parts easier, most BioBrick plasmids include the ccdB positive selection marker (encoded in BioBrick parts BBa_P1010, BBa_I52001 and BBa_I52002) by default. The ccdB positive selection marker produces a toxic protein which kills most E. coli strains. Successful insertion of a BioBrick part into a BioBrick vector replaces the ccdB gene and enables cells to grow and divide to form colonies. A common problem during BioBrick part construction and assembly is that BioBrick vectors are not 100% digested when cut with restriction enzymes. The ccdB toxic gene ensures that cells transformed with uncut or religated plasmids do not grow. Thus, any colonies you obtain after a BioBrick part construction or assembly are more likely to be correct.

Plasmid with any BioBrick part(s)

MultiPartsinplasmid.png This term refers to a plasmid backbone with one or more BioBrick parts inserted. An example of this can be seen to the left, where BioBrick parts BBa_B0034, BBa_C0010 & BBa_B0015 have been inserted into an ampicillin resistant plasmid.