Difference between revisions of "Part:BBa P1016"
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__NOTOC__
 
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<partinfo>BBa_P1016 short</partinfo>
 
<partinfo>BBa_P1016 short</partinfo>
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{{Curation/ccdb}}
  
 
{|
 
{|
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|width='35%'|
 
|width='35%'|
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[[Image:CcdB_Plasmid.png]]
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[[Image:BBa P1016.png|450px]]
 
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The CcdB protein, constitutively expressed by P1016, is lethal to most of the [https://parts.igem.org/cgi/partsdb/pgroup.cgi?pgroup=cell BioBrick cell strains], only [[Part:BBa_V1005|DB3.1]] is resistant.
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[[Part:BBa_P1016|BBa_P1016]] encodes the positive selection marker ''ccdB''.  The CcdB protein, constitutively expressed by P1016, is lethal to most of the [https://parts.igem.org/cgi/partsdb/pgroup.cgi?pgroup=cell BioBrick cell strains].  Only [[Part:BBa_V1005|DB3.1]] is resistant.
 
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|}
  
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This part is designed to be located in the multiple cloning site of low copy BioBrick vectors.  [[Part:BBa_P1016|BBa_P1016]] provides selection against non-insert containing clones (see below).
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BioBrick standard vectors are designed be easy to use for their most common purpose: assembly of BioBrick standard biological parts.  To meet this requirement, we included BBa_P1016 within the BioBrick cloning site of BioBrick standard vectors.  [[Part:BBa_P1016|BBa_P1016]] encodes the positive selection marker ''ccdB''.  Positive selection markers prevent one of the most common problems during assembly of BioBrick parts: contamination of the ligation reaction with uncut plasmid DNA.  Any cells transformed with the uncut plasmid DNA produce the lethal protein ccdB and die.  Note, however, that the drawback of this solution is that inclusion of [[Part:BBa_P1016|BBa_P1016]] requires that users propagate both the base vector and any derived vectors in ''E. coli'' strains tolerant of ccdB expression such as [[Part:BBa_V1005|DB3.1]].
  
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P1016 is used when putting BioBrick parts into BioBrick plasmids. The part to be inserted and the plasmid are cut with BioBrick enzymes and mixed. The mixture will include both the original uncut or religated plasmid and the desired structure. However, because of CcdB, all of the cells containing the original plasmid die and the surviving colonies are the desired result.
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A new set of [[Help:Plasmids|BioBrick standard vectors]] are available with the [[Part:BBa_I52001|BBa_I52001]] and [[Part:BBa_I52002|BBa_I52002]] inserts (both of which include [[Part:BBa_P1016|BBa_P1016]]).  See [https://parts.igem.org/cgi/partsdb/dna.cgi?part_name=I52001 I52001 Physical DNA] and [https://parts.igem.org/cgi/partsdb/dna.cgi?part_name=I52002 I52002 Physical DNA] for the current list of plasmids that are available in this form.
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A new set of low copy BioBrick [[Help:Plasmids|plasmids]] are available with the [[Part:BBa_I52001|BBa_I52001]] insert (which includes BBa_P1016).  See [https://parts.igem.org/cgi/partsdb/dna.cgi?part_name=I52001 I52001 Physical DNA] for the current list of plasmids that are available in this form.<br>
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===Usage and Biology===
 
===Usage and Biology===
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For more information on how to use this brick, visit its [[Featured Parts:Cell Death]] page.
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*For more information on how to use this BioBrick part, visit the [[Featured Parts:Cell Death]] page.
  
 
<span class='h3bb'>Sequence and Features</span>
 
<span class='h3bb'>Sequence and Features</span>
 
<partinfo>BBa_P1016 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_P1016 SequenceAndFeatures</partinfo>
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===References===
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*Bernard P, Gabant P, Bahassi EM, Couturier M, Université Libre de Bruxelles. <i>Positive-selection vectors using the F plasmid </i>ccdB<i> killer gene.</i>" Gene 1994 Oct 11;148(1):71-4. pmid:7926841. [http://www.ncbi.nlm.nih.gov/pubmed/7926841 Pubmed]
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*Bernard P, Gabant P, Université Libre de Bruxelles. <i>Cloning and/or sequencing vector</i> US Patent Number 5,910,438, 1999. [http://www.google.com/patents?vid=USPAT5910438 Google Patents]
 +
*Bernard P, Gabant P, Université Libre de Bruxelles. <i>Cloning and/or sequencing vector</i> US Patent Number 6,180,407 B1, 2001. [http://www.google.com/patents?vid=USPAT6180407 Google Patents]
 +
*Bernard P, Gabant P, Université Libre de Bruxelles. <i>Cloning and/or sequencing vector</i> US Patent Number 7,176,029 B2, 2007. [http://www.google.com/patents?vid=USPAT7176029 Google Patents]
 +
* Bahassi, et al., Université Libre de Bruxelles. <i>Interactions of CcdB with DNA gyrase. Inactivation of Gyra, poisoning of the gyrase-DNA complex, and the antidote action of CcdA.</i>, J. Biol. Chem. 1999 274: 10936-10944. pmid:10196173. [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=10196173&query_hl=2&itool=pubmed_ExternalLink Pubmed]
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*Shetty R, Endy D, Knight T. <i>Engineering BioBrick vectors from BioBrick parts.</i> Journal of Biological Engineering 2008 Apr 14;2:5 [http://www.jbioleng.org/content/2/1/5 URL]
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*[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&id=169656096 GenBank EU496090]
  
  

Latest revision as of 18:56, 9 July 2015

ccdB cassette without ccdA-

All ccdb parts have been withdrawn from the Registry. Samples of parts containing the ccdB gene cannot be requested. - iGEM HQ

BBa P1016.png

BBa_P1016 encodes the positive selection marker ccdB. The CcdB protein, constitutively expressed by P1016, is lethal to most of the BioBrick cell strains. Only DB3.1 is resistant.

BioBrick standard vectors are designed be easy to use for their most common purpose: assembly of BioBrick standard biological parts. To meet this requirement, we included BBa_P1016 within the BioBrick cloning site of BioBrick standard vectors. BBa_P1016 encodes the positive selection marker ccdB. Positive selection markers prevent one of the most common problems during assembly of BioBrick parts: contamination of the ligation reaction with uncut plasmid DNA. Any cells transformed with the uncut plasmid DNA produce the lethal protein ccdB and die. Note, however, that the drawback of this solution is that inclusion of BBa_P1016 requires that users propagate both the base vector and any derived vectors in E. coli strains tolerant of ccdB expression such as DB3.1.

A new set of BioBrick standard vectors are available with the BBa_I52001 and BBa_I52002 inserts (both of which include BBa_P1016). See I52001 Physical DNA and I52002 Physical DNA for the current list of plasmids that are available in this form.

Usage and Biology

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
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI site found at 323

References

  • Bernard P, Gabant P, Bahassi EM, Couturier M, Université Libre de Bruxelles. Positive-selection vectors using the F plasmid ccdB killer gene." Gene 1994 Oct 11;148(1):71-4. pmid:7926841. [http://www.ncbi.nlm.nih.gov/pubmed/7926841 Pubmed]
  • Bernard P, Gabant P, Université Libre de Bruxelles. Cloning and/or sequencing vector US Patent Number 5,910,438, 1999. [http://www.google.com/patents?vid=USPAT5910438 Google Patents]
  • Bernard P, Gabant P, Université Libre de Bruxelles. Cloning and/or sequencing vector US Patent Number 6,180,407 B1, 2001. [http://www.google.com/patents?vid=USPAT6180407 Google Patents]
  • Bernard P, Gabant P, Université Libre de Bruxelles. Cloning and/or sequencing vector US Patent Number 7,176,029 B2, 2007. [http://www.google.com/patents?vid=USPAT7176029 Google Patents]
  • Bahassi, et al., Université Libre de Bruxelles. Interactions of CcdB with DNA gyrase. Inactivation of Gyra, poisoning of the gyrase-DNA complex, and the antidote action of CcdA., J. Biol. Chem. 1999 274: 10936-10944. pmid:10196173. [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=10196173&query_hl=2&itool=pubmed_ExternalLink Pubmed]
  • Shetty R, Endy D, Knight T. Engineering BioBrick vectors from BioBrick parts. Journal of Biological Engineering 2008 Apr 14;2:5 [http://www.jbioleng.org/content/2/1/5 URL]
  • [http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&id=169656096 GenBank EU496090]