Part:BBa_I716462:Experience

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Applications of BBa_I716462

Datasheet for Part BBa_I716462 in E. coli strain DH5alpha.

Characterization by Lethbridge iGEM Team 2011

Introduction

Part I716462 was previously characterized by the UC Berkeley iGEM team in 2007. The purpose of this part was to prevent unwanted cell proliferation by engineering a genetic self-destruct mechanism into bacteria that upon induction would express a genetic material-degrading toxin, the endonuclease BamHI that would kill cells yet preserve their physical integrity. BamHI has a restriction cut site of G'GATCC, generating sticky ends (1). The restriction endonuclease was placed under the control of the arabinose- inducible promoter, pBAD. In 2007, the UC Berkeley iGEM team was able to show that cells lost their ability to reproduce but did not lyse upon induction with arabinose (2). The University of Lethbridge 2011 iGEM team wished to further characterize this part to degrade the genomic DNA of E. coli in order to have a functional chassis for our tailings pond clean-up kit without the risk of DNA contamination. In this way, tight control and regulation over our engineered bacterial cells is possible.

Registry Entry - BBa_I716462

Length – 1918 bp

Characterization

Cell Survival

Materials and Methods

The BamHI construct was overexpressed in E. coli DH5α cells. Cultures were induced with arabinose at an OD₆₀₀ of 0.6 and grown overnight. Samples of the induced culture and an uninduced culture were plated on LB agar plates to monitor growth of colony forming units.

Results

Figure 1. Growth curves of E. coli DH5α cells induced (blue) and uninduced (red) for expression of BamHI. Cultures were induced at an OD₆₀₀ of 0.60.

Figure 2. E. coli DH5α cells containing the BamHI construct from overnight cultures. The samples were plated on LB agar plates and the number of colony forming units (CFU) was counted. Left: culture induced for BamHI expression with arabinose, right: uninduced culture.

Analysis of Genomic DNA

Materials and Methods

E. coli DH5α cells were grown and induced to overexpress one of three samples: BamHI construct induced with arabinose (10µM) at an OD₆₀₀ of 0.6, BamHI construct uninduced, non-BamHI construct induced with arabinose (10µM) at OD₆₀₀ of 0.6. Cells were grown in LB media with 100 ng/mL ampicillin.

Qiagen Blood and Tissue Kit was used to isolate the genomic DNA of gram-negative bacteria. A 0.8% agarose gel was ran at 150 V for 90 minutes to separate the genomic DNA of E. coli DH5α cells collected at different time points (pre-induced and 30 min, 1 hr, 2 hr, and 3 hr post induction) for all three samples. One absorbance unit of cells were collected and analyzed by SDS-PAGE to monitor cellular protein levels.

Results

Figure 3. Induced BamHI. 12% SDS-PAGE of cell lysate from E. coli DH5α cells containing BBa_I716462 induced for overexpression of BamHI. Left to right: protein marker, 0 h, 0.5 h, 1 h, 2 h, and 3 h after induction with lactose.

Figure 4. Induced BamHI. 12% SDS-PAGE of cell lysate from uninduced E. coli DH5α cells containing BBa_I716462. Left to right: protein marker, 0 h, 0.5 h, 1 h, 2 h, and 3 h after induction with lactose.

Figure 5. Uninduced BamHI. 12% SDS-PAGE of cell lysate from E. coli DH5α cells. Left to right: protein marker, 0 h, 0.5 h, 1 h, 2 h, and 3 h after induction with lactose.

Conclusion

Upon induction with arabinose, E. coli DH5α cells containing the BamHI construct did not reproduce as the overexpression of the BamHI endonuclease digested the genomic DNA of the host cell. This is why in Figure 2 there are only 4 colonies seen as opposed to the control which shows a lawn of growth. In Figure 1, the optical density of the BamHI expressing cells reaches a plateau; however, the same sample which has not been induced kept increasing, which indicates that the expression of BamHI is affecting normal growth of the cells.

Samples analyzed by SDS-PAGE after induction of BamHI expression show that protein concentration is not significantly affected (Figures 3-5).

References

(1) Viadiu H, Aggarwal AK (2000). Structure of BamHI bound to nonspecific DNA: a model for DNA sliding. Mol. Cell 5 (5): 889-895.
(2) iGEM 2007. (2011, May 10). BerkiGEM2007Present5. Retrieved from http://2007.igem.org/BerkiGEM2007Present5.

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