User:Karmella Haynes/Notebook/BioBrick cloning/2013/08/29: Difference between revisions

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Line 29: Line 29:
| Reagent || Original protocol  || Original protocol || More ligase || More ligase
| Reagent || Original protocol  || Original protocol || More ligase || More ligase
|-
|-
| gg2 pSB1A3* || 1.0 || 1.0 || 1.0 || 1.0 ||
| gg2 pSB1A3* || 1.0 || 1.0 || 1.0 || 1.0
|-
|-
| gg3 hPCD* || 1.0 || --- || 1.0 || --- ||
| gg3 hPCD* || 1.0 || --- || 1.0 || ---
|-
|-
| gg4 BL01* || 1.0 || --- || 1.0 || --- ||
| gg4 BL01* || 1.0 || --- || 1.0 || ---
|-
|-
| 10x Promega ligase buffer || 1.0 || 1.0|| 1.0 || 1.0||
| 10x Promega ligase buffer || 1.0 || 1.0|| 1.0 || 1.0
|-
|-
| NEB T4 ligase || 0.25 || 0.25 || 1.0 || 1.0 ||
| NEB T4 ligase || 0.25 || 0.25 || 1.0 || 1.0
|-
|-
| NEB BsmBI || 0.5 || 0.5 || 0.5 || 0.5 ||
| NEB BsmBI || 0.5 || 0.5 || 0.5 || 0.5
|-
|-
| dH<sub>2</sub>O || 5.25 || 7.25 || 5.25 || 7.25 ||
| dH<sub>2</sub>O || 5.25 || 7.25 || 5.25 || 7.25
|-
|-
| &nbsp; || 10.0 || 10.0 || 10.0 || 10.0 ||
| &nbsp; || 10.0 || 10.0 || 10.0 || 10.0
|}
|}
Note: *DNA is 20 fmol/μL
Note: *DNA is 20 fmol/μL

Revision as of 13:38, 29 August 2013

Karmella's BioBrick Cloning <html><img src="/images/9/94/Report.png" border="0" /></html> Main project page
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08/29/13

  • Golden Gate Assembly optimization - increase ligase amount; redo hPCD assembly


Golden Gate

  • Try to increase robustness by using more T4 ligase...
  1. hPCD + BL01 + pSB1A3
  2. pSB1A3 alone (neg ctrl)
  • GG-PCR fragments were generated on 1/10/13 and diluted to 20 fmol/μL
  • Try the Promega formula home-made buffer (worked last time)


  • Golden Gate assembly reactions

1, 2. 0.25 μL T4 ligase, hPCD+BL01+pSB1A3 or pSB1A3
1, 2. 1.0 μL T4 ligase, hPCD+BL01+pSB1A3 or pSB1A3


Reagent Original protocol Original protocol More ligase More ligase
gg2 pSB1A3* 1.0 1.0 1.0 1.0
gg3 hPCD* 1.0 --- 1.0 ---
gg4 BL01* 1.0 --- 1.0 ---
10x Promega ligase buffer 1.0 1.0 1.0 1.0
NEB T4 ligase 0.25 0.25 1.0 1.0
NEB BsmBI 0.5 0.5 0.5 0.5
dH2O 5.25 7.25 5.25 7.25
  10.0 10.0 10.0 10.0

Note: *DNA is 20 fmol/μL

GG Thermal cycling

  • [45°C, 2 min.; 16°C, 5 min.] x25
  • 60°C, 20 min.
  • 80°C, 20 min.
  • 4°C, ∞


  • Transformations
    • 50 μL BL21 in 2.0 mL tubes; ice 2 min.; 42°C 45 sec.; add 800 μL SOC medium; shake @ 37°C 25 min.; pellet @ top speed 3 min.; resuspend in 100 μL amp liq. medium; plate on amp agar



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