Haynes Lab:Notebook/Engineering PC-TFs/2014/12/22: Difference between revisions

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* Protein Melting Curve with BSA
* Protein Melting Curve with BSA
* Shubanghi
* Shubanghi
<br>
==Summary==
'''LCR'''<br>
Oligo bridges initially 30nm pellet.
Diluted down to 30nM in 25μL reaction volume (Added 300μL H<sub>2</sub>O to IDT tube with pelleted DNA to yield 100μM, added 3μL of that dilution to 97μL H<sub>2</sub>O to yield 3μM, added 5μL of that dilution to 45μL H<sub>2</sub>O to yield 300nM, added 2.5μL of this dilution to the 25μL reaction volume for LCR).<br>
<br>
<br>
LCR Calculations
* 1:1 vector to insert
*BL01: (2520bp/5197bp)(1)(50ng)=<u>24.24ng</u>
*<u>24.24ng</u>(1μL/27ng)=<u>0.897μL XbaI/SpeI cut BL01</u>
*BL05: (2520bp/5197bp)(1)(50ng)=<u>24.24ng</u>
*<u>24.24ng</u>(1μL/30ng)=<u>0.808μL XbaI/SpeI cut BL05</u>
*50ngCMV/MV9(1μL/59ng)=<u>0.847μL XbaI cut CMV/MV9</u>
{| class="wikitable" width=400px align="left"
| &nbsp; || BL01|| BL05 || Neg
|-
| Insert DNA || 1μL || 1μL || 0μL
|-
| XbaI Cut CMV/MV9 || 1μL || 1μL || 0μL
|-
| Oligo Bridge1 || 2.5μL || 2.5μL || 2.5μL
|-
| Olido Bridge2 || 2.5μL || 2.5μL || 2.5μL
|-
| 10X Ampligase Buffer || 2.5 μl || 2.5μL ||2.5μL
|-
| Ampligase || 1μl || 1μL || 1μL
|-
| Betaine || 0μL || 0μL || 0μL
|-
| DMSO || 0μL || 0μL || 0μL
|-
| dH<sub>2</sub>O || 14.5μL || 14.5μL || 14.5μL
|-
| Total || 25.0 μL &nbsp;&nbsp;|| 25μL
|-
| colspan="3" | Mix the reaction(s) thoroughly by flicking the tube.<br> Placed in thermocycler on LCR setting.
|}
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<br>
Traditional Ligation Calculations
* 2:1 vector to insert
*BL01: (2520bp/5197bp)(2)(50ng)=<u>48.48ng</u>
*<u>48.48ng</u>(1μL/27ng)=<u>1.7μL XbaI/SpeI cut BL01</u>
*BL05: (2520bp/5197bp)(2)(50ng)=<u>48.48ng</u>
*<u>24.24ng</u>(1μL/30ng)=<u>1.6μL XbaI/SpeI cut BL05</u>
*50ngCMV/MV9(1μL/59ng)=<u>0.847μL XbaI cut CMV/MV9</u>
{| class="wikitable" width=400px align="left"
| &nbsp; || BL01|| BL05 || Neg || Cut CMV/MV9 Only
|-
| Insert DNA || 1.7μL || 1.6μL || 0μL || 0μL
|-
| XbaI Cut CMV/MV9 || 1μL || 1μL || 0μL || 1μL
|-
| 2X Ligation Buffer || 10μl || 10μL ||10μL || 10μL
|-
| Ligase || 1μl || 1μL || 1μL || 1μL
|-
| dH<sub>2</sub>O || 6.3μL || 6.4μL || 10μL || 9μL
|-
| Total || 20.0 μL &nbsp;&nbsp;|| 20μL
|-
| colspan="3" | Mix the reaction(s) thoroughly by flicking the tube.<br> Incubated at room temperature for 1.5 hours and then heat inactivated for 10 minutes at 65°C.
|}
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'''Long Transformation'''
<br>
Using the set up ligation products from above.
* Warmed selection agar plates at 37°C.
*DH5α-T cells were thawed in ice.
*1.5mL tubes were setup and labeled.
*60μL of thawed cells were mixed and then transferred into each of these two empty tubes.
*The ligation products were then transferred into their respective tubes and flicked to mix. Set back on ice.
*All tubes incubated on ice for 35 minutes.
*All tubes were heat shocked on the heat block at 42°C for 30 seconds and then placed back on ice for 2 minutes.
*900μL SOC Medium was pipetted into each of the three tubes.
*Tubes were taped into an empty plate. The plate was taped to the shaker within the incubator.
*Incubated on shaker for 1 hour at 37°C and 240rpm.
*Centrifuged for 1.5 minutes at 9 x g.
*500μL media removed from each tube.
*Resuspended cell pellet in remaining 400μL media.
*300μL cells transferred onto respective plate.
*Sterile glass beads used to spread cells onto plate.
*Placed in the incubator for overnight growth at 37°C.
<br>
'''Transformation'''




Revision as of 19:08, 19 January 2015



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Summary

  • LCR
  • Long Transformation
  • Protein Melting Curve with BSA
  • Shubanghi


Summary

LCR
Oligo bridges initially 30nm pellet. Diluted down to 30nM in 25μL reaction volume (Added 300μL H2O to IDT tube with pelleted DNA to yield 100μM, added 3μL of that dilution to 97μL H2O to yield 3μM, added 5μL of that dilution to 45μL H2O to yield 300nM, added 2.5μL of this dilution to the 25μL reaction volume for LCR).


LCR Calculations

  • 1:1 vector to insert
  • BL01: (2520bp/5197bp)(1)(50ng)=24.24ng
  • 24.24ng(1μL/27ng)=0.897μL XbaI/SpeI cut BL01
  • BL05: (2520bp/5197bp)(1)(50ng)=24.24ng
  • 24.24ng(1μL/30ng)=0.808μL XbaI/SpeI cut BL05
  • 50ngCMV/MV9(1μL/59ng)=0.847μL XbaI cut CMV/MV9


  BL01 BL05 Neg
Insert DNA 1μL 1μL 0μL
XbaI Cut CMV/MV9 1μL 1μL 0μL
Oligo Bridge1 2.5μL 2.5μL 2.5μL
Olido Bridge2 2.5μL 2.5μL 2.5μL
10X Ampligase Buffer 2.5 μl 2.5μL 2.5μL
Ampligase 1μl 1μL 1μL
Betaine 0μL 0μL 0μL
DMSO 0μL 0μL 0μL
dH2O 14.5μL 14.5μL 14.5μL
Total 25.0 μL    25μL
Mix the reaction(s) thoroughly by flicking the tube.
Placed in thermocycler on LCR setting.













Traditional Ligation Calculations

  • 2:1 vector to insert
  • BL01: (2520bp/5197bp)(2)(50ng)=48.48ng
  • 48.48ng(1μL/27ng)=1.7μL XbaI/SpeI cut BL01
  • BL05: (2520bp/5197bp)(2)(50ng)=48.48ng
  • 24.24ng(1μL/30ng)=1.6μL XbaI/SpeI cut BL05
  • 50ngCMV/MV9(1μL/59ng)=0.847μL XbaI cut CMV/MV9


  BL01 BL05 Neg Cut CMV/MV9 Only
Insert DNA 1.7μL 1.6μL 0μL 0μL
XbaI Cut CMV/MV9 1μL 1μL 0μL 1μL
2X Ligation Buffer 10μl 10μL 10μL 10μL
Ligase 1μl 1μL 1μL 1μL
dH2O 6.3μL 6.4μL 10μL 9μL
Total 20.0 μL    20μL
Mix the reaction(s) thoroughly by flicking the tube.
Incubated at room temperature for 1.5 hours and then heat inactivated for 10 minutes at 65°C.







Long Transformation
Using the set up ligation products from above.

  • Warmed selection agar plates at 37°C.
  • DH5α-T cells were thawed in ice.
  • 1.5mL tubes were setup and labeled.
  • 60μL of thawed cells were mixed and then transferred into each of these two empty tubes.
  • The ligation products were then transferred into their respective tubes and flicked to mix. Set back on ice.
  • All tubes incubated on ice for 35 minutes.
  • All tubes were heat shocked on the heat block at 42°C for 30 seconds and then placed back on ice for 2 minutes.
  • 900μL SOC Medium was pipetted into each of the three tubes.
  • Tubes were taped into an empty plate. The plate was taped to the shaker within the incubator.
  • Incubated on shaker for 1 hour at 37°C and 240rpm.
  • Centrifuged for 1.5 minutes at 9 x g.
  • 500μL media removed from each tube.
  • Resuspended cell pellet in remaining 400μL media.
  • 300μL cells transferred onto respective plate.
  • Sterile glass beads used to spread cells onto plate.
  • Placed in the incubator for overnight growth at 37°C.


Transformation



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