Part:BBa_K1645998

SgRNA targeting LacI promoter

This part is an sgRNA from the CRISPRi system and is designed to provide (d)Cas9 the specificity to target the promoter of BBa_I20260.

It can be used with Streptococcus pyogenes Cas9 and related variants. Here, we use it in conjunction with flow cytometry to demonstrate its ability to repress RFP expression.

It has been characterized through numerous experiments presented in the next section.

Characterization

Figure 1: Preliminary Exploratory Comparison of RFP Expression with (a) and without (b) a Complete sgRNA-dCas9 pair.

Figure 1: A Comparison of GFP and RFP expression from the Dual Colour Plasmid

We performed a series of experiments to demonstrate that this sgRNA when used with a dCas9 protein is able to repress RFP fluorescence when compared to controls.

Methods and Materials

To produce the data, we inoculated the appropriate E. coli strains into LB and grew it for 4hr to an OD600 of 0.4, followed by induction with IPTG at a final concentration of 1mM for 6hr. For negative controls, we did not add IPTG. Next, we diluted the culture four-fold into chilled formalin (1X PBS, 4% formaldehyde, 1.5% methanol). We used flow cytometry (Aminis ImageStream MKII) to run a sample and detected fluorescence using an excitation laser wavelength of 488nm at 200mW, as well as SSC at 1.5mW. After acquiring data from 20'000 cells in all channels, we performed analysis on the IDEAS Application v.6 software.

This protocol is based off in-house protocols created by previous Waterloo iGEM members and revised over the years by advisors and experienced users.

Results and Discussion

Figure 1. shows that both RFP and GFP are fluorescing, though at different intensities. Overall, GFP's intensity data averages at 502 intensity units and RFP's intensity data averages at 139 intensity units. This means that GFP fluoresces approximately 3.5x more intensely than RFP. Figure 2 shows the frequency at which cells fluoresce at a particular intensity for GFP on the right and RFP on the left.

In all, further experiments can provide more precise measurements of GFP and RFP fluorescence, but we present here adequate fluorescence data for other teams to understand the behavior of the Dual Colour Plasmid in

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
  INCOMPATIBLE WITH RFC[25]

  Illegal AgeI site found at 1708
  Illegal AgeI site found at 1820
  
• 1000
  INCOMPATIBLE WITH RFC[1000]

  Illegal BsaI.rc site found at 706