CleanAmp Primers

CleanAmp™ Primers contain thermolabile chemical modifications that allow for primer-based Hot Start activation in PCR. These modifications prevent primer extension at the lower temperatures of PCR set-up and manipulation. A Hot Start thermal activation step removes the modification and generates the corresponding unmodified primer, which supports amplification of the desired target.

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Developing an Assay?

Introducing CleanAmp Primers as your Hot Start solution can be 0.05 EUR per assay or less. Trilink guarantee at least 10 ODs per primer synthesis, which is enough material for approximately 6,250 reactions. At 400 EUR per primer pair, your added cost per reaction is just 0.05 EUR to replace your standard primers with CleanAmp Primers.

Which CleanAmp Primer is right for my application?

CleanAmp Primers are available in two forms, which vary in the rate of thermal activation. CleanAmp Turbo modifications are released more quickly than those for CleanAmp Precision. The two different speeds of primer activation are suited for a number of PCR-based applications.  

A Hot Start Assay for Less

CleanAmp™ Primers are similar to CleanAmp™ dNTPs in that they contain thermolabile chemical modifications that allow for primer-based Hot Start activation in PCR. These modifications are even better at preventing primer extension at the lower temperatures of PCR setup and manipulation. A Hot Start thermal activation step removes the modification generating the corresponding unmodified primer, which supports amplification of the desired target. CleanAmp™ Primers specifically amplify your target by eliminating extension off of primer dimer (Figure 1A) and mis-priming (Figure 1B) events. Furthermore, like CleanAmp™ dNTPs, CleanAmp™ Primers eliminate the need for Hot Start DNA polymerases because they are compatible with a number of standard DNA polymerases, such as Taq.

CleanAmp™ Primers are a key choice for diagnostic kits and other established assays. In these assays CleanAmp™ Primers can be as little as $0.03 per reaction at our standard starting scale. TriLink guarantees at least 10 ODs per primer synthesis, which is enough material for approximately 6,250 reactions. TriLink offers two types of CleanAmp™ Primers that vary in the rate of thermal activation: Turbo and Precision. The different rates of release of CleanAmp™ Turbo and Precision Primer modifications can be exploited for improved results in advanced applications, such as multiplex PCR (Figure 2), reverse-transcription PCR, low copy number detection (Figure 4) and fast PCR. The performance of CleanAmp™ Primers can be applied to critical applications such as molecular diagnostics, forensics, detection of infectious agents and gene expression validation.

Maximize Your Multiplex

If you are seeking a Hot Start solution for a problematic multiplex system, CleanAmp™ Primers may be your answer. Like CleanAmp™ dNTPs, CleanAmp™ Primers will improve yield and specificity in multiplex systems. However, CleanAmp™ Primers offer higher specificity with a greater number of targets. In the systems shown in Figure 2, CleanAmp™ Turbo Primers greatly improve formation of the desired products in multiplex PCR for seven and nine targets from genomic DNA sources. The development of a robust multiplex PCR assay typically requires an iterative design process to discover primer pairs that are both specific for the targets of interest and exhibit a low level of off-target amplicon formation. With CleanAmp™ Primers minimal design optimization is required. The reduction or elimination of nonspecific amplifications achieved with the use of CleanAmp™ Primers makes them a powerful solution for improved one-step reverse-transcription (RT) PCR performance (Figure 3). By introducing CleanAmp™ Primers only the RT Primer can elongate during the reverse transcription step of the protocol, resulting in specific amplification in a one tube, single step protocol.

Reaching New Limits of Detection

CleanAmp™ Primers also offer an advantage over CleanAmp™ dNTPs in systems hindered by low template concentrations. A 10-100 fold increase in correct amplicon formation is seen when standard primers are replaced with CleanAmp™ Precision Primers (Figure 4). CleanAmp™ Primers greatly improve these systems by reducing or eliminating the off-target amplifications that compete with the desired amplicon. CleanAmp™ Primers have utility in many high-sensitivity downstream applications, such as single molecule detection.