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Polymerase Chain Reaction (PCR), the amplification of DNA, is an established process used in molecular biology. PCR technology has made strides in medical and infectious disease diagnoses, forensics and research applications. Decisions about treatment options and clinical efficacy are often based on DNA and RNA analysis of patient cells. Ensuring proper contamination control guarantees that clinicians get the best possible results.
DNA polymerase and PCR assays are highly susceptible to contamination. Given that PCR is used in many clinical diagnostic applications with multiple patient samples on the same plate, contamination can be carried through across thousands and millions of DNA sequence copies. If a contaminant is introduced early in the reaction, then the error is amplified in an exponential fashion that leads to false or inaccurate results.
The most common causes of PCR contamination:
Laboratory Set-Up for Optimum PCR Workflow
Creating a proper lab environment and establishing a unidirectional workflow are two ways to prevent PCR contamination. To ensure proper facilities control, quality assurance personnel will establish a documented standardized protocol specific to the size of their lab space and available equipment. Personnel should be carefully trained and provided with access to written procedures.
This unidirectional workflow involves the following 5 best practices:
While large labs have the luxury of creating separate rooms within the facility for each PCR reaction, small labs use PCR hoods or similar dead-air boxes (hoods without an air blower) to create the separation needed for contamination prevention.
Avoiding Operator Contamination of PCR Workstation
The biggest contributors of contamination in any lab are operators. To mitigate this, it is important that operators observe the established unidirectional workflow and maintain proper lab gear. Follow these tips to eliminate operator contamination:
PCR Hoods, Sterilization and Operator Safety
PCR hoods can be equipped with an anti-microbial UV lamp, which is operated at set intervals to sterilize the work environment. UV-C exposure can be harmful, so workers should be out of the room while the UV lamp is engaged. If this is not possible, however, lab personnel must ALWAYS wear proper protective gear when working under these lamps. It is important that hoods equipped with UV lamps are constructed of proper UV-resistant materials.
Recommended Pipettes in PCR Hoods
Choose positive-displacement pipettes with barrier tips to prevent carry-over from one sample to the next. These pipettes are ideal for working with volatile liquids and highly viscous samples because of their disposable micro-syringe tips. Positive displacement pipettes not only provide more accuracy, they also give superior sample protection compared to air-displacement pipettes.
Contamination in PCR reactions can be controlled by following basic lab best practices and incorporating some specialized techniques specific to sensitive PCR applications. Ideally, lab equipment used for studying genetic material should not be used for other experiments; even with proper cleaning protocol, there remains a chance of cross-contamination. Improve efficiency and accuracy by following detailed, documented protocol.
Photos by gemmerich,
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