Forslag til opbygning:

1. Concept

2. Metode and results

3. Summary of results

4. Implications and development

Concept

The concept of our project is to assemble biobricks in to a plasmid and in this way get E. Coli to produce and excrete the quorum quenching protein RIP.

To do this we compose a plasmid containing a promoter, which should either be constitutive or inducible. After the promoter sequence we have a RBS, and then our RIP sequence, which we composted from the amino acid sequence of the protein and made in PCR via two costumed primers. We are working with a clean RIP sequence and a RIP sequence with an export sequence on. After the RIP sequence we have a terminator. It all has to be incorporated into an ampicillin resistant plasmid backbone.

We are trying with the two different promotors, because we don’t know whether a high concentration of RIP will quorum quench the E. Coli it self and it will there for be practical for us to control the rate of transcription. On the other hand we know that a higher concentration of RIP is more efficient at quorum quenching S. Aureus, and it will therefore be more efficient if the plasmid is transcribed at all times. Furthermore if the export of the protein out of the cell is weak, an overproduction of the protein might puncture the cell so RIP will leak out. This will of course kill the cell, but they could be replaced.

Methods

To skip a bacerial growth step, and thereby save some time, our parts where amplified by PCR, as suggested by the ginkogobioworks assembly manual [assembly manual http://ginkgobioworks.com/support/BioBrick_Assembly_Manual.pdf]

The steps was as following:

As seen in the flow chart, it is our plan to put the parts RIP and sRIP into backbone, and afterwards ligating these first into a two brick, and finally assembly a 4-brick. These are the step that we go through.

Interting parts into backbone:

1. amplification by PCR using VF2G01010 and a modified VR2 primer. (See protocol)

2. Digesting with fast digest restriction enzymes EcoRI-HF™ and PstI (See protocol)

3. Ligate with T4 DNA Ligase (See protocol)

4. Transformation into competent E.coli (See protocol)

Ligation of parts:

1. amplification by PCR using VF2G01010 and a modified VR2 primer. (See protocol)

2. Digesting with fast digest restriction enzymes, upstream Part with SpeI and downstream Part with XbaI (See protocol)

3. Ligate with T4 DNA Ligase, resulting in a mixed site. (See protocol)

Results