Difference between revisions of "Restriction Enzyme Based Cloning"

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(copied over protocol)
 
(updated with gel purification)
Line 1: Line 1:
 
#If insert is PCR, run PCR then PCR purify (Qiagen kit).  Elute in 30 uL EB
 
#If insert is PCR, run PCR then PCR purify (Qiagen kit).  Elute in 30 uL EB
 
#Digest both vector (~1ug) and insert in appropriate buffer 1-2h at 37C.  Add 1 uL of CIAP to the vector for the last ~10min at 37C.   
 
#Digest both vector (~1ug) and insert in appropriate buffer 1-2h at 37C.  Add 1 uL of CIAP to the vector for the last ~10min at 37C.   
#Gel purify both vector and insert (Qiagen kit).  Elute in 30 uL
+
#Gel purify both vector and insert (Qiagen kit).   
#Combine 3-6 uL insert with 1-2 uL vector.  You want about a 3x excess of insert to vector.  Place at 50-65C for 5-10 min to help sticky end binding. Also do a no insert negative control.  
+
:*Run out on gel (see [[Preparing an Agarose Gel]]
#Add 2 uL ligase buffer (single use aliquots) and water/EB to 10 uL final volume. Add 1 uL T4 DNA Ligase (Invitrogen).   
+
:*On a gel box cut out appropriate bands and place in clean eppendorf tubes.  Try to limit the exposure to UV light
#Incubate 1h-O/N at 16C (water bath in cold room).   
+
:*Weigh out gel piece.  For each mg add 3 uL of QG (orange) buffer.  For example, for a 0.1g piece add 300 uL buffer.
#Transform 5-10 uL into 50 uL DH5a cells (subcloning efficiency):
+
:*Place at 55-65C until gel is dissolved (5-10 min)
 +
:*Add to pink purification column, wash and elute in 30 uL
 +
#Combine 6 uL insert with 1 uL vector.  Place at 50-65C for 5-10 min to help sticky end binding.
 +
#Add 2 uL ligase buffer (single use aliquots).
 +
#Add 1 uL T4 DNA Ligase (Invitrogen).   
 +
#Incubate 2h-O/N at 16C (water bath in cold room).   
 +
#Transform 5-10 uL into 50 uL supercompetent cells:
 
##Make 50 uL aliquots
 
##Make 50 uL aliquots
 
##Add DNA and mix gently
 
##Add DNA and mix gently
 
##Incubate on ice for 30min
 
##Incubate on ice for 30min
##Heat shock for 20s at 37C
+
##Heat shock for 45s at 42C
 
##Place on ice for 2min
 
##Place on ice for 2min
 
##Add 450 uL LB
 
##Add 450 uL LB
 
##Incubate at 37C for 1h with shaking
 
##Incubate at 37C for 1h with shaking
##Plate 500 uL and grow O/N at 37C on appropriate plates  
+
##Plate 500 uL and grow O/N at 37C on appropriate antibiotic plates  
 
#Pick several colonies and digest to verify insert.  Sequence if necessary.
 
#Pick several colonies and digest to verify insert.  Sequence if necessary.

Revision as of 14:22, 7 May 2009

  1. If insert is PCR, run PCR then PCR purify (Qiagen kit). Elute in 30 uL EB
  2. Digest both vector (~1ug) and insert in appropriate buffer 1-2h at 37C. Add 1 uL of CIAP to the vector for the last ~10min at 37C.
  3. Gel purify both vector and insert (Qiagen kit).
  • Run out on gel (see Preparing an Agarose Gel
  • On a gel box cut out appropriate bands and place in clean eppendorf tubes. Try to limit the exposure to UV light
  • Weigh out gel piece. For each mg add 3 uL of QG (orange) buffer. For example, for a 0.1g piece add 300 uL buffer.
  • Place at 55-65C until gel is dissolved (5-10 min)
  • Add to pink purification column, wash and elute in 30 uL
  1. Combine 6 uL insert with 1 uL vector. Place at 50-65C for 5-10 min to help sticky end binding.
  2. Add 2 uL ligase buffer (single use aliquots).
  3. Add 1 uL T4 DNA Ligase (Invitrogen).
  4. Incubate 2h-O/N at 16C (water bath in cold room).
  5. Transform 5-10 uL into 50 uL supercompetent cells:
    1. Make 50 uL aliquots
    2. Add DNA and mix gently
    3. Incubate on ice for 30min
    4. Heat shock for 45s at 42C
    5. Place on ice for 2min
    6. Add 450 uL LB
    7. Incubate at 37C for 1h with shaking
    8. Plate 500 uL and grow O/N at 37C on appropriate antibiotic plates
  6. Pick several colonies and digest to verify insert. Sequence if necessary.