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Contents 1 Preparation for cloning of the rocF BioBrick 1.1 Aim 1.2 Re-hydration of registry parts 1.3 Transformation of E. coli 1.4 Overnight cultures of B. subtilis 168 for chromosomal DNA extraction 2 PCR of Genomic DNA 2.1 Aim: 2.2 Materials: 2.3 Protocol: 2.3.1 Conditions in ThermoCycler: 2.4 Results: 2.5 Conclusion:

Preparation for cloning of the rocF BioBrick

Aim

In preparation for Gibson cloning of the rocF BioBrick we started work on mini preps of plasmid DNA, and on B. subtilis 168 chromosomal DNA extraction.

Re-hydration of registry parts

We re-hydrated using sterile distill water:

1. [http://partsregistry.org/Part:pSB1C3 pSB1C3] (the plasmid we will be submitting our BioBricks to the registry in) and
2. [http://partsregistry.org/Part:pSB1AK3 pSB1AK3] with [http://partsregistry.org/Part:BBa_B0014 BBa_B0014] (the double terminator we will be using for the rocF BioBrick) from the parts distribution.

Transformation of E. coli

We transformed and plated separate tubes of E. coli DH5α with:

1. The above two re-hydrated plasmids
2. [http://partsregistry.org/Part:BBa_K143062 BBa_K143062], a LacI BioBrick sent to us by Imperial College, London, UK which we will use to help characterise many of our BioBricks, including rocF.
3. A positive control which we had already prepared during our training week - [http://partsregistry.org/Part:pSB1AT3 pSB1AT3] with rfp insert.
4. A negative control (no vector), to verify the antibiotic plates are working (no growth should be observed on this plate).

Please refer to the transformation protocol for E. coli DH5α here: Transformation of E. coli.

Overnight cultures of B. subtilis 168 for chromosomal DNA extraction

The rocF coding sequence is to be amplified from the B. subtilis 168 genome by PCR. Before we can do this we need to extract 168 chromosomal DNA.

Today we plated up overnight cultures of B. subtilis 168 so that we can do chromosome extraction tomorrow.

PCR of Genomic DNA

Aim:

To determine whether the genomic DNA has been extracted from B. subtilis strain 3610.

Materials:

• Pipette
• Microfuge
• Microtubes
• Distilled H₂O
• Nucleotide DNTP
• 5x GoTaq buffer
• Template DNA (B. subtilis ATCC 6633, 1:1 and 1:2)
• Forward and reverse primers

Protocol:

• For the full protocol, please refer to PCR.

Conditions in ThermoCycler:

• Melting temperature, Tm used for anneal step is 59°C.

Results:

Gel electrophoresis will be run tomorrow to determine the results.

Conclusion:

Please refer to Lab book dated 27th July 2010.