實驗概要
The efficiency of nucleotide incorporation in DNA/RNA polymerization reactions (e.g. transcription, reverse transcription, and DNA replication) can be determined by trichloroacetic acid (TCA) precipitation. TCA precipitates nucleic acid polymers longer than ~20 nucleotides and can therefore be used to separate radiolabeled nucleotides incorporated into nucleic acid from unincorporated label.
The following is a protocol for monitoring the efficiency of radiolabeled nucleotide incorporation in a polymerization reaction by TCA precipitation. In the protocol, nucleic acid synthesis reactions are carried out in the presence of a radiolabeled nucleotide (e.g., 32P-dATP or 32P-UTP).
The protocol has been optimized with materials from the listed vendors. The specific details (e.g. size of tubes, amounts of carrier and sample) are arbitrary and can be varied according to user preference.
主要試劑
Borosilicate tubes, 12 x 75 mm
10% TCA
Carrier nucleic acid, 1 mg/ml
Glass fiber filters to catch precipitate
Aqueous scintillation fluid
Vacuum manifold
主要設備
Scintillation vials, Scintillation counter, vortexer, pipettors
實驗步驟
1. Dispense 198 μl of carrier DNA (1 mg/ml) into a 12 X 75 mm glass tube.
2. Add 2 μl of the nucleic acid synthesis reaction and mix thoroughly.
3. Transfer 100 μl of the diluted DNA/RNA synthesis reaction to aqueous scintillation cocktail and count in a scintillation counter. The counts per minute (cpm) will reflect the total amount of radiolabel present in the reaction mixture (both unincorporated and incorporated counts).
4. Add 2 ml of cold 10% TCA (trichloroacetic acid) to the 12 X 75 mm tube containing the remaining 100 μl diluted DNA/RNA. Mix thoroughly and place on ice for 10 minutes. This will precipitate nucleic acids longer than ~20 nucleotides.
5. Collect the precipitate via vacuum filtration through a Whatmann GF/C glass fiber filter (or equivalent). Prewet the filter with a small amount of 10% TCA prior to adding the sample.
6. Rinse the tube twice with 1 ml of 10% TCA and then rinse once with 3-5 ml of 95% ethanol. Pass each of the rinses through the GF/C filter.
7. Place the filter in a scintillation vial, add aqueous scintillation cocktail, and count in a scintillation counter. The cpm will reflect the amount of radiolabel that was incorporated.