PCR efficiency 2026-10-14
For a stipulated population of amplifiable copies, let be the amount after cycle and define PCR efficiency by the fractional new yield
Here means one additional copy per existing copy, hence ideal doubling. If every cycle has the same PCR efficiency , the exponential growth model gives . Starting with copies, twenty ideal cycles give copies; the stipulated value gives about . An efficiency of 80 percent therefore means multiplication by 1.8 each cycle, not retention of 80 percent of the final ideal yield.
Figure 1. . Original calculated curves, not laboratory observations or measured fluorescence. All begin at . Blue has ; orange has ; green stipulates with . The left panel uses a logarithmic scale for copy amount; the right shows the assigned cycle efficiencies. Only the green model includes a finite ceiling. The illustrative ceiling and its equation are assumptions, not fitted chemical kinetics or a universal explanation of a plateau. Details.
In the ideal strand-counting example, all duplex-equivalent material doubles, but exact-length amplicons lag initially. Starting from one longer duplex and retaining its two original strands, cycle contains exact-length strands out of total strands. Thus their fraction is : zero after cycle 1, one quarter after cycle 2 and one half after cycle 3. This counts strands rather than assuming every strand immediately finds an exact-length partner. The generic yield model above ignores this early distinction.
PCR plateau 2026-10-14
A PCR plateau is the late phase in which further cycles add little product. Depletion of substrates and accumulation of reaction by-products can reduce PCR efficiency. Consequently, similar final amplicon amounts need not mean similar initial template amounts. In the stipulated green model, implies , and growth approaches the imposed ceiling. That illustrates loss of starting-amount information without claiming to identify the limiting chemical process in an actual tube.[ref]