📋 Protocol
Full flow at a glance, add products directly1
Template & Primer Preparation
20 minPrepare the DNA template (genomic DNA / plasmid / cDNA), design and synthesize forward and reverse primers.
💡 Tip Keep primer GC content at 40–60%, avoid hairpins and primer dimers.
⚠️ Caution Too much template inhibits the reaction; 10–100 ng is optimal.
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2
Prepare Reaction Mix
15 minAssemble the PCR mix on ice: buffer, dNTPs, primers, template, DNA polymerase, and water.
💡 Tip Prepare a Master Mix first to reduce pipetting error.
⚠️ Caution Work on ice and add DNA polymerase last to avoid enzyme inactivation.
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3
PCR Amplification (Cycling)
1.5 hSet program: 95°C denature 30s → 55–65°C anneal 30s → 72°C extend, 30–35 cycles.
💡 Tip Annealing temperature ≈ primer Tm − 5°C; optimize it first when bands are non-specific.
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4
Gel Electrophoresis Detection
40 minRun 5 µL product on agarose gel with a DNA ladder, visualize under UV.
💡 Tip Add loading buffer before loading for settling and visualization.
⚠️ Caution Nucleic acid stains are toxic; wear gloves and dispose of waste properly.
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⚠️ 4 Common Beginner Mistakes (Pitfall Guide)
- ① Forgot primers or template: missing key components, no amplification.
- ② Wrong annealing temperature: too high → no product; too low → non-specific bands.
- ③ Contamination: aerosol contamination causes false positives; work in separate areas and change tips.
- ④ Too many cycles: 30–35 is enough; more causes non-specific amplification and misincorporation.
❓ FAQ (Troubleshooting)
+No bands — what went wrong?
Check: (1) missing primer/template, (2) enzyme inactive, (3) annealing too high, (4) degraded template.
+Non-specific bands?
Raise annealing temperature, reduce cycles, or optimize primer specificity.
+Faint bands?
Increase template amount, cycle number, or polymerase amount.