Team:Chiba/Notebook/protocol
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== Protocols == | == Protocols == | ||
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===DNA Purification=== | ===DNA Purification=== | ||
====Sigma prep==== | ====Sigma prep==== | ||
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====Zymo DNA Cleam&Concentrator Kit==== | ====Zymo DNA Cleam&Concentrator Kit==== | ||
*Add 2 volume of DNA binding buffer to each volume of DNA sample, Use voltex to mix. | *Add 2 volume of DNA binding buffer to each volume of DNA sample, Use voltex to mix. | ||
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===Agarose gel electrophoresis=== | ===Agarose gel electrophoresis=== | ||
+ | *Agalose Gel casting | ||
+ | #Measure out the appropriate mass of agarose into glass bottle with the appropriate volume of TAE buffer | ||
+ | #Microwave until the agarose is fully melted | ||
+ | #Pour the agarose solution into the gelbox and let it cool for about 30 minutes, until the gel is solid | ||
+ | #Remove comb | ||
+ | |||
+ | |||
+ | *Running agalose gel | ||
+ | |||
+ | #Load 5 μL prepared 1kbp ladder | ||
+ | #Mix DNA solution with loading dye(6x) and water | ||
+ | #Load it into agalose gel | ||
+ | #Run the gel at ~100 volts for 35 mins. | ||
+ | |||
+ | *Visualizing agarose gels | ||
+ | #Remove gel from gel box | ||
+ | #Soak the gel in ethidium bromide solution | ||
+ | #Let it 30 min. | ||
+ | #Place the gel in Trans-Illuminator and turn on UV light after make sure the door closing. | ||
+ | #Print the picture. | ||
+ | #Remove gel and throw in trash | ||
+ | #Wipe down Trans-Illuminator if necessary. | ||
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===Digestion=== | ===Digestion=== | ||
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===PCR=== | ===PCR=== | ||
+ | *Resuspend primer in Nuculease free water to 100 µM | ||
+ | |||
+ | *PCR mix | ||
+ | #DNA template 1µL | ||
+ | #Fwd primer 10µL (final con. 10 pM) | ||
+ | #Rev primer 10µL | ||
+ | #10x thermo pol buffer 10µL | ||
+ | #dNTP mix 10µL | ||
+ | #DNA pol. 1µL | ||
+ | #dH20 58µL | ||
+ | <br>---------------------------- | ||
+ | <br> 100µL | ||
+ | |||
+ | |||
+ | *PCR cycle | ||
+ | |||
+ | Start: 94 °C for 5 min. (melt) | ||
+ | cycle: melt: 1 min. | ||
+ | anneal : 30 sec. | ||
+ | cycle end: extension:72 °C for 3.5 min. | ||
+ | 25 cycles | ||
+ | 72 °C for 10 min | ||
+ | store: keep at 6 °C forever | ||
+ | |||
+ | |||
===Gel extract=== | ===Gel extract=== | ||
+ | |||
+ | READ:[[Team:Chiba/protocol#Agarose_gel_electrophoresis]] | ||
+ | |||
+ | #Run the Digested DNA solution | ||
+ | #Cut the agarose target band | ||
+ | #The chip of the gel into 2mL ADB buffer | ||
+ | #Let it in 37 degree 30 min to solve the agarose gel. | ||
+ | #Purify the DNA with Zymo DNA Cleam&Concentrator Kit | ||
+ | |||
+ | READ:[[Team:Chiba/protocol#Zymo_DNA_Cleam&Concentrator_Kit]] | ||
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+ | |||
===Dephosphorylation of DNA=== | ===Dephosphorylation of DNA=== | ||
===Phosphorylation of DNA=== | ===Phosphorylation of DNA=== |
Revision as of 07:47, 28 August 2009
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Protocols
TransformationDay 1 morning
Day 1 night
Day 2
DNA PurificationSigma prepZymo DNA Cleam&Concentrator Kit
Agarose gel electrophoresis
DigestionPCR
Start: 94 °C for 5 min. (melt) cycle: melt: 1 min. anneal : 30 sec. cycle end: extension:72 °C for 3.5 min. 25 cycles 72 °C for 10 min store: keep at 6 °C forever
Gel extractREAD:Team:Chiba/protocol#Agarose_gel_electrophoresis
READ:Team:Chiba/protocol#Zymo_DNA_Cleam&Concentrator_Kit
Dephosphorylation of DNAPhosphorylation of DNALigationTime Delay Test |