Literature DB >> 26829216

Polymerase specific error rates and profiles identified by single molecule sequencing.

Matthew S Hestand1, Jeroen Van Houdt1, Francesca Cristofoli1, Joris R Vermeesch2.   

Abstract

DNA polymerases have an innate error rate which is polymerase and DNA context specific. Historically the mutational rate and profiles have been measured using a variety of methods, each with their own technical limitations. Here we used the unique properties of single molecule sequencing to evaluate the mutational rate and profiles of six DNA polymerases at the sequence level. In addition to accurately determining mutations in double strands, single molecule sequencing also captures direction specific transversions and transitions through the analysis of heteroduplexes. Not only did the error rates vary, but also the direction specific transitions differed among polymerases.
Copyright © 2016 Elsevier B.V. All rights reserved.

Keywords:  Heteroduplex; Polymerase fidelity; Single molecule sequencing

Mesh:

Substances:

Year:  2016        PMID: 26829216     DOI: 10.1016/j.mrfmmm.2016.01.003

Source DB:  PubMed          Journal:  Mutat Res        ISSN: 0027-5107            Impact factor:   2.433


  22 in total

1.  Variability in the durability of CRISPR-Cas immunity.

Authors:  Hélène Chabas; Antoine Nicot; Sean Meaden; Edze R Westra; Denise M Tremblay; Léa Pradier; Sébastien Lion; Sylvain Moineau; Sylvain Gandon
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2019-05-13       Impact factor: 6.237

2.  A systematic comparison of error correction enzymes by next-generation sequencing.

Authors:  Nathan B Lubock; Di Zhang; Angus M Sidore; George M Church; Sriram Kosuri
Journal:  Nucleic Acids Res       Date:  2017-09-06       Impact factor: 16.971

Review 3.  Enhancing the accuracy of next-generation sequencing for detecting rare and subclonal mutations.

Authors:  Jesse J Salk; Michael W Schmitt; Lawrence A Loeb
Journal:  Nat Rev Genet       Date:  2018-03-26       Impact factor: 53.242

Review 4.  Detecting Rare Mutations and DNA Damage with Sequencing-Based Methods.

Authors:  Daniel B Sloan; Amanda K Broz; Joel Sharbrough; Zhiqiang Wu
Journal:  Trends Biotechnol       Date:  2018-03-14       Impact factor: 19.536

5.  High-resolution mapping of DNA polymerase fidelity using nucleotide imbalances and next-generation sequencing.

Authors:  Alexandra M de Paz; Thaddeus R Cybulski; Adam H Marblestone; Bradley M Zamft; George M Church; Edward S Boyden; Konrad P Kording; Keith E J Tyo
Journal:  Nucleic Acids Res       Date:  2018-07-27       Impact factor: 16.971

6.  Detecting PKD1 variants in polycystic kidney disease patients by single-molecule long-read sequencing.

Authors:  Daniel M Borràs; Rolf H A M Vossen; Michael Liem; Henk P J Buermans; Hans Dauwerse; Dave van Heusden; Ron T Gansevoort; Johan T den Dunnen; Bart Janssen; Dorien J M Peters; Monique Losekoot; Seyed Yahya Anvar
Journal:  Hum Mutat       Date:  2017-05-29       Impact factor: 4.878

7.  LTR-Retrotransposons from Bdelloid Rotifers Capture Additional ORFs Shared between Highly Diverse Retroelement Types.

Authors:  Fernando Rodriguez; Aubrey W Kenefick; Irina R Arkhipova
Journal:  Viruses       Date:  2017-04-11       Impact factor: 5.048

8.  Examining Sources of Error in PCR by Single-Molecule Sequencing.

Authors:  Vladimir Potapov; Jennifer L Ong
Journal:  PLoS One       Date:  2017-01-06       Impact factor: 3.240

9.  An optimized targeted Next-Generation Sequencing approach for sensitive detection of single nucleotide variants.

Authors:  S Stasik; C Schuster; C Ortlepp; U Platzbecker; M Bornhäuser; J Schetelig; G Ehninger; G Folprecht; C Thiede
Journal:  Biomol Detect Quantif       Date:  2018-01-09

10.  Mapping DNA polymerase errors by single-molecule sequencing.

Authors:  David F Lee; Jenny Lu; Seungwoo Chang; Joseph J Loparo; Xiaoliang S Xie
Journal:  Nucleic Acids Res       Date:  2016-05-16       Impact factor: 16.971

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