AUTHOR=Arezi Bahram , McKinney Nancy , Hansen Connie , Cayouette Michelle , Fox Jeffrey , Chen Keith , Lapira Jennifer , Hamilton Sarah , Hogrefe Holly TITLE=Compartmentalized self-replication under fast PCR cycling conditions yields Taq DNA polymerase mutants with increased DNA-binding affinity and blood resistance JOURNAL=Frontiers in Microbiology VOLUME=5 YEAR=2014 URL=https://www.frontiersin.org/journals/microbiology/articles/10.3389/fmicb.2014.00408 DOI=10.3389/fmicb.2014.00408 ISSN=1664-302X ABSTRACT=

Faster-cycling PCR formulations, protocols, and instruments have been developed to address the need for increased throughput and shorter turn-around times for PCR-based assays. Although run times can be cut by up to 50%, shorter cycle times have been correlated with lower detection sensitivity and increased variability. To address these concerns, we applied Compartmentalized Self Replication (CSR) to evolve faster-cycling mutants of Taq DNA polymerase. After five rounds of selection using progressively shorter PCR extension times, individual mutations identified in the fastest-cycling clones were randomly combined using ligation-based multi-site mutagenesis. The best-performing combinatorial mutants exhibit 35- to 90-fold higher affinity (lower Kd) for primed template and a moderate (2-fold) increase in extension rate compared to wild-type Taq. Further characterization revealed that CSR-selected mutations provide increased resistance to inhibitors, and most notably, enable direct amplification from up to 65% whole blood. We discuss the contribution of individual mutations to fast-cycling and blood-resistant phenotypes.