Accurate fidelity analysis of the reverse transcriptase by a modified next-generation sequencing

McInerney, 2014, Error rate comparison during polymerase chain reaction by DNA polymerase, Mol. Biol. Int., 2014, 287430, 10.1155/2014/287430 Menéndez-Arias, 2017, Viral reverse transcriptases, Virus Res., 234, 153, 10.1016/j.virusres.2016.12.019 Preston, 1988, Fidelity of HIV-1 reverse transcriptase, Science, 242, 1168, 10.1126/science.2460924 Roberts, 1988, The accuracy of reverse transcriptase from HIV-1, Science, 242, 1171, 10.1126/science.2460925 Bebenek, 1995, Analyzing fidelity of DNA polymerase, Methods Enz., 262, 217 Schmitt, 2012, Detection of ultra-rare mutations by next-generation sequencing, Proc. Natl. Acad. Sci. U. S. A., 109, 14508, 10.1073/pnas.1208715109 Ellefson, 2016, Synthetic evolutionary origin of a proofreading reverse transcriptase, Science, 352, 1590, 10.1126/science.aaf5409 Yasukawa, 2017, Next-generation sequencing-based analysis of reverse transcriptase fidelity, Biochem. Biophys. Res. Commun., 492, 147, 10.1016/j.bbrc.2017.07.169 Okano, 2017, Enhanced detection of RNA by MMLV reverse transcriptase coupled with thermostable DNA polymerase and DNA/RNA helicase, Enzyme Microb. Technol., 96, 111, 10.1016/j.enzmictec.2016.10.003 Okano, 2017, High sensitive one-step RT-PCR using MMLV reverse transcriptase DNA polymerase with reverse transcriptase activity, and DNA/RNA helicase, Biochem. Biophys. Res. Commun., 487, 128, 10.1016/j.bbrc.2017.04.030 Okano, 2018, High sensitive RNA detection by one-step RT-PCR using the genetically engineered variant of DNA polymerase with reverse transcriptase activity from hyperthermophilies, J. Biosci. Bioeng., 125, 275, 10.1016/j.jbiosc.2017.10.004 Konishi, 2013, Enzymatic characterization of human immunodeficiency virus type 1 reverse transcriptase for use in cDNA synthesis, Appl. Biochem. Biotechnol., 169, 77, 10.1007/s12010-012-9953-8 Yasukawa, 2010, Increase in thermal stability of Moloney murine leukaemia virus reverse transcriptase by site-directed mutagenesis, J. Biotechnol., 150, 299, 10.1016/j.jbiotec.2010.09.961 Sano, 2012, Mutations to create thermostable reverse transcriptase with bacterial family A DNA polymerase from Thermotoga petrophila K4, J. Biosci. Bioeng., 113, 315, 10.1016/j.jbiosc.2011.11.001 Fujiwara, 2016, Application of a Euryarchaeota-specific helicase from Thermococcus kodakarensis for noise reduction in PCR, Appl. Environ. Microbiol., 82, 3022, 10.1128/AEM.04116-15 Álvarez, 2009, Increased thermostability and fidelity of DNA synthesis of wild-type and mutant HIV-1 group O reverse transcriptases, J. Mol. Biol., 392, 872, 10.1016/j.jmb.2009.07.081 Betancor, 2010, Mechanisms involved in the selection of HIV-1 reverse transcriptase thumb subdomain polymorphisms associated with nucleoside analogue therapy failure, Antimicrob. Agents Chemother., 54, 4799, 10.1128/AAC.00716-10 Gao, 2016, Capture of a third Mg2+ is essential for catalyzing DNA synthesis, Science, 352, 1334, 10.1126/science.aad9633 Yang, 2016, A new paradigm of DNA synthesis: three-metal-ion catalysis, Cell Biosci., 6, 51, 10.1186/s13578-016-0118-2 Yoon, 2017, Simulating the fidelity and the three Mg mechanism of pol η and clarifying the validity of transition state theory in enzyme catalysis, Proteins, 85, 1446, 10.1002/prot.25305 Sebastián-Martín, 2018, Transcriptional inaccuracy threshold attenuates differences in RNA-dependent DNA synthesis fidelity between retroviral reverse transcriptases, Sci. Rep., 12, 627, 10.1038/s41598-017-18974-8