Team:University College London/LabBook/Week7

Monday 23.7.12

Aim - Transformation of TetR BBa_C0040 BioBrick

(LOGO) Transformation Protocol 1

Step 1 – Thawing Cells: Use W3100 cell line created in Week 2 (Expt 2.1)

Step 3 – Addition of BioBrick: To a 2ml eppendorf, add 1ul of the following BioBricks. Note: we have changed the protocol for our positive control. Previously it contained no BioBrick, but it has been recommended to us that we transform our positive control such that there is one for each BioBrick – this will tell us if the BioBrick has in any way affected cell viability. This will be used from this point onwards. Include an extra tube as a negative control, with no BioBrick added

Samples		Function	Module
BioBrick	BBa_C0040	Tetracycline Repressor	Buoyancy
Control	Positive (Contains BioBrick BBa_C0040)
	Negative (No Biobrick)

Step 9 - Plating samples on Agar Plates: The table below indicates the chosen inoculation volume (two for each BioBrick) and the correct gel antibiotic concentration for all samples.

Samples		Volume Inoculated	Antibiotic in Gel (ug/ml)
BioBrick	BBa_C0040	10ul	Ampicillin(50ug/ml)
		90ul
Control	Positive (Contains BioBrick BBa_C0040)	36ul	No Antibiotic
	Negative (No BioBrick)	36ul	2x Ampicillin(50ug/ml)

Tuesday 24.7.12

Aim - Results of Transformation

Result: The table below indicates that there was growth for this transformation.

Samples		Volume Inoculated	Colony Formation
BioBrick	BBa_C0040	10ul	Yes
		90ul	Yes
Control	Positive (Contains BioBrick BBa_C0040)	36ul	Yes
	Negative (No BioBrick)	36ul	No

Monday 23.7.12

Aim - Repeat Restriction Digest for BioBricks in Expt 4.1 and 5.1, where the gel previously was inconclusive : This is intended to diagnose whether the correct plasmid had been transformed into our bacteria, by measuring the size of the digested products against a DNA ladder. In previous gel attempts, K540000 has produced a band of the correct size, but we are repeating it because of the presence of other unexpected bands, which we expect are contaminants from the reaction. A previous restriction digest of BBa_I13522 has failed to produce a band of the correct size, so we are repeating the digest before considering another transformation. For the same reason, we are repeating the digest of BBaK398108, which produced bands of incorrect size, which is suggestive of contamination.

(LOGO) Restriction Digest

Step 2: Set up as follows

(LOGO) Gel Electrophoresis Results: The image below shows a 1% Agarose Gel of an Analytical Restriction Enzyme Digest for Expt 7.2. Visible in Lane 1 is a product of the correct size for the BBa_K540000 insert (3123bp), as indicated by A. Also shown is a correct sized product for the backbone PSB1C3 (2070bp), as indicated by B. Lane 2 shows a product corresponding to the size of the BBa_I13522 insert (937bp) as indicated by C. Also present is a product corresponding to the size of the PSB1A3 backbone (2155bp) as indicated by D. Lane 3 has a product corresponding to the expected size of insert BBa_K398108 (844bp) as indicated by E, and a product of the expected size for the plasmid backbone PSB1C3 (2070bp) as indicated by F. Lane 4 shows no products, where we would expect a product of size 1849bp (indicated by G) and a product of 2155 (indicated by H). (INSERT PIC) Conclusion: Plasmids Bba_k540000 (3123), Bba_I13522 (937) and Bba_K391108 (844) have produced bands of the correct size. The band at 2000 is the plasmid backbone. The failure of Bba_K123003 to produce a band is not of great concern, as we do not expect we will require this BioBrick. However, we may repeat it at a later date.

Samples		Recipe	Enzymes
BioBricks	BBa_ K540000 (Expt 4.1)	Digested	Xbar 1 & Spe1
	BBa_ I13522 (Expt 4.1)	Digested	Xbar 1 & Spe1
	BBa_ K398108 (Expt 5.1)	Digested	Xbar 1 & Spe1
	BBa_ KI32003 (Expt 5.1)	Digested	Xbar 1 & Spe1