Thermal Analysis of the Role of Condensation in PCR with Capillary Tubes

Abstract

Thermal profiling provides the understanding needed to enhance the reliability of Polymerase Chain Reaction (PCR) systems, but is difficult to perform experimentally when the reagents are housed in capillary tubes. The use of 3D numerical simulation with COMSOL here showed that with capillary tubes attached to a slider that moved over 3 differentially heated blocks without slots, the central axis temperature points of the tube provided poorer estimates of the thermal performance of the scheme by as much as 8.5 °C compared with the average cross-sectional temperature. It also showed that a 2-mm-thick slider would be able to improve the thermal response characteristics of a 16.5-mm-thick slider by up to 12 °C. Despite this, the method provided the best immunity to condensation effects in PCR. With the standard stationary heated block method, the temperature profiles in the capillary tubes were found to be highly affected by the amount of water condensate present in the slots. Since condensation is random, this would result in fluctuating PCR thermal behavior. When the tilt method is conducted with slot-guided capillary tubes placed heated blocks, the condensate heat transfer problem remained with stiction also affecting the movements of the capillary tubes.