Selective control of primer usage in multiplex one-step reverse transcription PCR

The importance of set up time and temperature in real-time PCR; an essential reminder

BACKGROUND

Non-specific amplification can arise in real-time PCR when temperatures are above 4°C during PCR set up. Pressure of high throughput tests, particularly in a clinical setting, can lead to short cuts being taken during PCR set up.

OBJECTIVES

This study set out to evaluate the outcome of exposing a real-time PCR assay to increasing durations of room temperature prior to PCR amplification.

STUDY DESIGN

A real-time PCR assay was exposed to increasing durations of room temperature prior to PCR amplification.

RESULTS

We found that reactions left at room temperature for 30min or more produced non-specific traces in the negative controls which could be mistaken for weak positive traces. In addition we found that the fluorescence of positive control traces was significantly reduced indicating reduced reaction efficiency, however the Ct valves were comparable between all reactions highlighting that control Ct monitoring alone would not have detected this issue.

CONCLUSIONS

This study acts as a reminder for PCR users to set up reactions on ice/chill blocks prior to PCR amplification.