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From 2010.igem.org

Contents 1 Building Parts 2 10-05-2010 3 11-05-2010 4 18-05-2010 5 19-05-2010 6 20-05-2010 7 27-05-2010 8 28-05-2010 9 30-05-2010 10 31-05-2010

Building Parts

10-05-2010

PCR a Kanamycin resistance cassette fragment from p1003 with primers containing either the A/B' ends or the B/A' ends.

Recipe:

1uL p1003 (approx. 1ng)

2.5uL prA_p1003+

2.5uL prB'_p1003-

5uL 10X PCR buffer

1uL 10uM dNTPs

2uL 50uM MgCl₂

0.5uL Taq polymerase

35.5uL MilliQ H₂O

Program:

1. 5 min-94^oC
2. 45 sec-94^oC
3. 1 min-60^oC
4. 1 min-72^oC
5. Repeat 2 through 4 35 times
6. 5 min-72^oC

11-05-2010

PCR purification of Kanamycin Resistant fragments created 10-05-2010 with Qiagen PCR cleanup kit. Determined concentrations by nanodrop. KanA/B': 101.1ng/uL KanB/A':89.6ng/uL

18-05-2010

Prepared DH5α E.Coli competent cells using the Inoue Method. Transformed DH5α cells with pSB1C3-J04450 and grew overnight at 37^oC on Chloramphenicol plates

19-05-2010

From the transformation of DH5α cells with pSB1C3-J04450 performed on 18-05-2010, we took 4 distinct colonies, streaked them on a new chloramphenicol plate and inoculated 5ml liquid cultures.

20-05-2010

Performed a Miniprep of 3 of the 4 5ml liquid cultures of DH5α cells with pSB1C3-J04450 from 19-05-2010. Took a 1uL sample of the Miniprep solutions and digested with NotI at 37^oC for 1 hour.

Digestion Recipe:

1uL Miniprep (between 153.2 ng/ul and 302.7ng/ul determined by nanodrop)

1uL NotI

1uL 10X ReACT 3

7uL MilliQ

27-05-2010

Digested both A/B' and B/A' Kanamycin Resistance cassettes fragments from 11-05-2010 and pSB1C3 from 20-05-2010 with NotI at 37^oC for 1 hour. Heat inactivated the NotI for 10 minutes at 65^oC. Ligated the Kanamycin Resistance cassettes into pSB1C3 at 16^oC for 1 hour then took 15uL to room temperature for 2 hours. Transformed 100uL of DH5α cells with 5uL of RT ligation reaction. Plated transformation on plates with both Chloramphenicol and Kanamycin.

Digestion Recipe:

1uL Miniprep (302.7ng/ul determined by nanodrop)

2uL either A/B' or B/A' Kanamycin resistance cassette (approx. 100ng/uL)

1uL NotI

1uL 10X ReACT 3

5uL MilliQ

Ligation Recipe:

10uL of Digest solution

1uL T4 DNA ligase

6uL 5X Buffer

13uL MilliQ H₂O

28-05-2010

We got colonies!! (it's a fantastic feeling) We then lovingly put them in the cold room to await our return from Calgary

30-05-2010

From the transformation of DH5α cells with pSB1C3-KanR performed on 28-05-2010, we took 12 distinct colonies of each KanA/B' and KanB/A', streaked them on a new chloramphenicol plate and inoculated 5ml liquid cultures with the appropriate antibiotics overnight at 37^oC.

31-05-2010

9/12 of the pSB1C3-KanA/B' Liquid cultures 30-05-2010 were successful and only 1/12 of the pSB1C3-KanB/A' liquid cultures were successful. The pSB4A5, pSB3T5 and pSB4C5 transformations worked. Miniprepped all the liquid cultures that worked.

Performed a restriction digest of an aliquot of the pSB1C3-KanA/B' and pSB1C3-KanB/A' minipreps. Digested with XbaI at 37^oC for one hour and then with EcoRI at 37^oC for one hour. Ran a 1% agarose gel of the digests to determine the orientation of the KanR fragments.

KanA/B' and KanB/A' fragements PCRed on 11-05-2010, digested with BsaI at 37^oC for 1.5hours, heat inactivated at 65^oC for 30 minutes. Tried to ligate KanA/B' fragments to each other and tried to ligate KanB/A' fragments to each other. Also tried to ligate KanA/B' fragments with KanB/A'. Ligated with T4 DNA ligase overnight at 16^oC and at Room Temperature for 3 hours.