Difference between revisions of "Part:BBa K1773003:Design"

(→‎Design Notes)
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[[File:Cas3 genolapis1.png|300px|thumb|('''Figure1. Wild type Cas3 plasmid map.''' There are two restriction sites for each restriction enzyme all in close proximity. Restriction sites inside the gene coding reagion were mutated.)|middle]]
 
[[File:Cas3 genolapis1.png|300px|thumb|('''Figure1. Wild type Cas3 plasmid map.''' There are two restriction sites for each restriction enzyme all in close proximity. Restriction sites inside the gene coding reagion were mutated.)|middle]]
  
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These restriction sites were mutated to make this gene biobrick compatible. First multiple mutagenesis attempt was not fully successful, because restriction analysis of mutated plasmids showed, that only two out of three restriction sites were mutated.  
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[[File:Cas3 1.png|300px|thumb|('''Figure 2. First restriction analysis.''' Restriction with EcoRI (E), XbaI (X) and PstI (P) of Wild type (WT) Cas3 gene compared to mutated Cas3 genes. The first mutant plasmid has two successful mutations, whereas the second mutant plasmid only has one successfully mutated restriction site.)|middle]]
  
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[[File:Cas3 2.png|300px|thumb|('''Figure 3. Restriction analysis of Cas3 mutagenesis second run.''' K - undigested Wild type Cas3 plasmid. E - digested with EcoRI; X - digested with XbaI; P - digested with PstI.)|middle]]
 +
 +
These restriction sites were mutated to make this gene biobrick compatible. First multiple mutagenesis attempt was not fully successful, because restriction analysis of mutated plasmids showed, that only two out of three restriction sites were mutated.
  
−
[[File:Cas3 1.png|300px|thumb|('''Figure 2. First restriction analysis.''' Restriction with EcoRI (E), XbaI (X) and PstI (P) of Wild type (WT) Cas3 gene compared to mutated Cas3 genes. The first mutant plasmid has two successful mutations, whereas the second mutant plasmid only has one successfully mutated restriction site.)|left]]
 
  
 
Later we mutagenised the Mutant#1 plasmid, for the third PstI restriction using the same procedure as before. After plasmid restriction analysis (Figure 2) we had many successfully mutated plasmid (all except mutated plasmid #1), which later were sequenced and confirmed.
 
Later we mutagenised the Mutant#1 plasmid, for the third PstI restriction using the same procedure as before. After plasmid restriction analysis (Figure 2) we had many successfully mutated plasmid (all except mutated plasmid #1), which later were sequenced and confirmed.
−
 
−
[[File:Cas3 2.png|300px|thumb|('''Figure 3. Restriction analysis of Cas3 mutagenesis second run.''' K - undigested Wild type Cas3 plasmid. E - digested with EcoRI; X - digested with XbaI; P - digested with PstI.)|middle]]
 
  
 
===Source===
 
===Source===

Revision as of 14:38, 9 September 2015

I-F type CRISPR-Cas Cas3 gene


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


Design Notes

The Wild type Cas3 gene has unwanted EcoRI, XbaI and PstI restriction sites inside the gene.

(Figure1. Wild type Cas3 plasmid map. There are two restriction sites for each restriction enzyme all in close proximity. Restriction sites inside the gene coding reagion were mutated.)
(Figure 2. First restriction analysis. Restriction with EcoRI (E), XbaI (X) and PstI (P) of Wild type (WT) Cas3 gene compared to mutated Cas3 genes. The first mutant plasmid has two successful mutations, whereas the second mutant plasmid only has one successfully mutated restriction site.)
(Figure 3. Restriction analysis of Cas3 mutagenesis second run. K - undigested Wild type Cas3 plasmid. E - digested with EcoRI; X - digested with XbaI; P - digested with PstI.)

These restriction sites were mutated to make this gene biobrick compatible. First multiple mutagenesis attempt was not fully successful, because restriction analysis of mutated plasmids showed, that only two out of three restriction sites were mutated.


Later we mutagenised the Mutant#1 plasmid, for the third PstI restriction using the same procedure as before. After plasmid restriction analysis (Figure 2) we had many successfully mutated plasmid (all except mutated plasmid #1), which later were sequenced and confirmed.

Source

A.actinomycetemcomitans D7-S

References