Difference between revisions of "Part:BBa K590011"

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<partinfo>BBa_K590011 short</partinfo>
 
<partinfo>BBa_K590011 short</partinfo>
  
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This Gibson Cloning friendly 1C3 plasmid backbone was made by [http://2011.igem.org/Team:Washington UW iGEM Team 2011] as part of the [http://2011.igem.org/Team:Washington/Magnetosomes/GibsonVectors Gibson Assembly toolkit].  
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This Gibson Cloning friendly 1C3 plasmid backbone was made by [http://2011.igem.org/Team:Washington 2011 UW iGEM team] as part of the [http://2011.igem.org/Team:Washington/Magnetosomes/GibsonVectors Gibson Assembly toolkit].  
  
 
===Usage and Biology===
 
===Usage and Biology===
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This is a high copy plasmid backbone which has Chloramphenicol resistance, with pLac promoter and GFP. This is a high efficiency Gibson Assembly vector.
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This is a high copy plasmid backbone which has Chloramphenicol resistance, with pLac promoter and GFP. This is a high efficiency Gibson Assembly vector.  This plasmid has been altered to conform to [http://dspace.mit.edu/handle/1721.1/46747 RFC 21] standards, with arbitrary, Gibson-friendly sequences placed in between the restriction enzyme sites EcoRI-BglII, and BamHI-PstI.
  
 
===Characterization===
 
===Characterization===
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A sister plasmid ([https://parts.igem.org/Part:BBa_K590010 pGA1A3]) with the same BglBrick prefix and suffix regions has been shown to have much higher efficiency than the equivalent pSB vector. On a average of 6 plates, the Gibson efficiency was determined to be 0.991129032 ~ '''99%!'''. See [http://2011.igem.org/Team:Washington/Magnetosomes/GibsonResults#Comparison_between_pGA_and_pSB_vectors Gibson Assembly efficiency assay] page for details on the protocol and efficiency measurements.
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A sister plasmid ([https://parts.igem.org/Part:BBa_K590010 pGA1A3]) with the same BglBrick prefix and suffix regions has been shown to have much higher efficiency than the equivalent pSB vector. We determined the cloning efficiency by dividing the # of bright colonies by the (# of total colonies - # of background colonies). The background colonies were determined by a control sample containing 100 picograms of just the pGA backbone. By averaging results from 6 plates, the Gibson efficiency was determined to be 0.991129032, ~'''99%'''! See [http://2011.igem.org/Team:Washington/Magnetosomes/GibsonResults#Comparison_between_pGA_and_pSB_vectors Gibson Assembly efficiency assay] page for details on the protocol and efficiency measurements.
 
<center>https://static.igem.org/mediawiki/2011/d/d1/Washington_pGAefficiency_summary.jpg</center>
 
<center>https://static.igem.org/mediawiki/2011/d/d1/Washington_pGAefficiency_summary.jpg</center>
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To understand how the copy number varies from plasmid to plasmid, the pGA vectors were transformed into a <i>lacI</i> knockout (strain [http://cgsc.biology.yale.edu/Strain.php?ID=16959 2.320]) and the fluorescence levels were measured by flow cytometry. As expected, we found the high copy pGA1C3 plasmid to express GFP at levels comparable to the other high copy plasmid pGA1A3.
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<center> [[Image:Washington 2011 pGA vector fluorescence means v2.pdf|400px]] </center>
  
 
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Latest revision as of 06:05, 3 November 2011

pGA1C3, Gibson assembly plasmid (bglBrick) with pLac-GFP insert

This Gibson Cloning friendly 1C3 plasmid backbone was made by [http://2011.igem.org/Team:Washington 2011 UW iGEM team] as part of the [http://2011.igem.org/Team:Washington/Magnetosomes/GibsonVectors Gibson Assembly toolkit].

Usage and Biology

This is a high copy plasmid backbone which has Chloramphenicol resistance, with pLac promoter and GFP. This is a high efficiency Gibson Assembly vector. This plasmid has been altered to conform to [http://dspace.mit.edu/handle/1721.1/46747 RFC 21] standards, with arbitrary, Gibson-friendly sequences placed in between the restriction enzyme sites EcoRI-BglII, and BamHI-PstI.

Characterization

A sister plasmid (pGA1A3) with the same BglBrick prefix and suffix regions has been shown to have much higher efficiency than the equivalent pSB vector. We determined the cloning efficiency by dividing the # of bright colonies by the (# of total colonies - # of background colonies). The background colonies were determined by a control sample containing 100 picograms of just the pGA backbone. By averaging results from 6 plates, the Gibson efficiency was determined to be 0.991129032, ~99%! See [http://2011.igem.org/Team:Washington/Magnetosomes/GibsonResults#Comparison_between_pGA_and_pSB_vectors Gibson Assembly efficiency assay] page for details on the protocol and efficiency measurements.

Washington_pGAefficiency_summary.jpg

To understand how the copy number varies from plasmid to plasmid, the pGA vectors were transformed into a lacI knockout (strain [http://cgsc.biology.yale.edu/Strain.php?ID=16959 2.320]) and the fluorescence levels were measured by flow cytometry. As expected, we found the high copy pGA1C3 plasmid to express GFP at levels comparable to the other high copy plasmid pGA1A3.

Washington 2011 pGA vector fluorescence means v2.pdf

Sequence and Features


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Plasmid lacks a prefix.
    Plasmid lacks a suffix.
    Illegal EcoRI site found at 2051
  • 12
    INCOMPATIBLE WITH RFC[12]
    Plasmid lacks a prefix.
    Plasmid lacks a suffix.
    Illegal EcoRI site found at 2051
  • 21
    INCOMPATIBLE WITH RFC[21]
    Plasmid lacks a prefix.
    Plasmid lacks a suffix.
    Illegal EcoRI site found at 2051
    Illegal BglII site found at 2066
    Illegal BamHI site found at 1
    Illegal XhoI site found at 16
    Illegal XhoI site found at 1035
    Illegal XhoI site found at 1927
  • 23
    INCOMPATIBLE WITH RFC[23]
    Plasmid lacks a prefix.
    Plasmid lacks a suffix.
    Illegal EcoRI site found at 2051
  • 25
    INCOMPATIBLE WITH RFC[25]
    Plasmid lacks a prefix.
    Plasmid lacks a suffix.
    Illegal EcoRI site found at 2051
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Plasmid lacks a prefix.
    Plasmid lacks a suffix.