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🧬 Molecular Biology · Core Method

PCR (Polymerase Chain Reaction)

Exponentially amplify a target DNA fragment through denaturation → annealing → extension cycles.
🎯 Difficulty ★☆☆ Beginner Total time ~2–3 h 🎯 Use Amplify target DNA fragment
📖 Principle (in one sentence)
Using DNA polymerase guided by primers, target DNA is exponentially amplified (2^n) through repeated cycles of high-temperature denaturation, low-temperature annealing, and optimal-temperature extension.
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📋 Protocol

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1

Template & Primer Preparation

20 min
Prepare 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 min
Assemble 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 h
Set 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 min
Run 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)

  • Forgot primers or template: missing key components, no amplification.
  • Wrong annealing temperature: too high → no product; too low → non-specific bands.
  • Contamination: aerosol contamination causes false positives; work in separate areas and change tips.
  • 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.

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Data authenticity:Product categories from Tansoole taxonomy; method→step→product connected. Updated: 2026-08-18 · v2.0