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A high-throughput assay for quantitative measurement of PCR errors.
Shagin, Dmitriy A; Shagina, Irina A; Zaretsky, Andrew R; Barsova, Ekaterina V; Kelmanson, Ilya V; Lukyanov, Sergey; Chudakov, Dmitriy M; Shugay, Mikhail.
Afiliación
  • Shagin DA; Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry RAS, Moscow, Russia.
  • Shagina IA; Pirogov Russian National Research Medical University, Moscow, Russia.
  • Zaretsky AR; Evrogen JSC, Moscow, Russia.
  • Barsova EV; Pirogov Russian National Research Medical University, Moscow, Russia.
  • Kelmanson IV; Evrogen JSC, Moscow, Russia.
  • Lukyanov S; Pirogov Russian National Research Medical University, Moscow, Russia.
  • Chudakov DM; Evrogen JSC, Moscow, Russia.
  • Shugay M; Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry RAS, Moscow, Russia.
Sci Rep ; 7(1): 2718, 2017 06 02.
Article en En | MEDLINE | ID: mdl-28578414
The accuracy with which DNA polymerase can replicate a template DNA sequence is an extremely important property that can vary by an order of magnitude from one enzyme to another. The rate of nucleotide misincorporation is shaped by multiple factors, including PCR conditions and proofreading capabilities, and proper assessment of polymerase error rate is essential for a wide range of sensitive PCR-based assays. In this paper, we describe a method for studying polymerase errors with exceptional resolution, which combines unique molecular identifier tagging and high-throughput sequencing. Our protocol is less laborious than commonly-used methods, and is also scalable, robust and accurate. In a series of nine PCR assays, we have measured a range of polymerase accuracies that is in line with previous observations. However, we were also able to comprehensively describe individual errors introduced by each polymerase after either 20 PCR cycles or a linear amplification, revealing specific substitution preferences and the diversity of PCR error frequency profiles. We also demonstrate that the detected high-frequency PCR errors are highly recurrent and that the position in the template sequence and polymerase-specific substitution preferences are among the major factors influencing the observed PCR error rate.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Reacción en Cadena de la Polimerasa / Secuenciación de Nucleótidos de Alto Rendimiento Tipo de estudio: Prognostic_studies Idioma: En Revista: Sci Rep Año: 2017 Tipo del documento: Article País de afiliación: Rusia Pais de publicación: Reino Unido
Texto completo
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Reacción en Cadena de la Polimerasa / Secuenciación de Nucleótidos de Alto Rendimiento Tipo de estudio: Prognostic_studies Idioma: En Revista: Sci Rep Año: 2017 Tipo del documento: Article País de afiliación: Rusia Pais de publicación: Reino Unido