Evidence map›Paper›PMID 38942481›Full record

ArticleRNA (New York, N.Y.)2024

Discrete measurements of RNA polymerase and reverse transcriptase fidelity reveal evolutionary tuning.

Vladimir Potapov, Stanislas Krudup, Sean Maguire, Irem Unlu, Shengxi Guan, Jackson A Buss, Benedict A Smail, Trevor van Eeuwen, Martin S Taylor, Kathleen H Burns and 2 more

Abstract read
In one paragraph

Article in RNA (New York, N.Y.), 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

3 citing papers in PubMed.

  1. Article
  2. Review
  3. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

12 authors.

Vladimir Potapov *New England Biolabs, Inc., Ipswich, Massachusetts 01938, USA.
Stanislas Krudup *New England Biolabs, Inc., Ipswich, Massachusetts 01938, USA.
Sean MaguireNew England Biolabs, Inc., Ipswich, Massachusetts 01938, USA.
Irem UnluNew England Biolabs, Inc., Ipswich, Massachusetts 01938, USA.
Shengxi GuanNew England Biolabs, Inc., Ipswich, Massachusetts 01938, USA.
Jackson A BussNew England Biolabs, Inc., Ipswich, Massachusetts 01938, USA.
Benedict A SmailDepartment of Pathology, Dana-Farber Cancer Institute, Boston, Massachusetts 02215, USA.
Trevor van EeuwenLaboratory of Cellular and Structural Biology, The Rockefeller University, New York, New York 10065, USA.
Martin S TaylorDepartment of Pathology, Mass General Brigham and Harvard Medical School, Boston, Massachusetts 02114, USA.
Kathleen H BurnsDepartment of Pathology, Dana-Farber Cancer Institute, Boston, Massachusetts 02215, USA.
Jennifer L OngNew England Biolabs, Inc., Ipswich, Massachusetts 01938, USA ong@neb.com rtrachman@neb.com.
Robert J TrachmanNew England Biolabs, Inc., Ipswich, Massachusetts 01938, USA ong@neb.com rtrachman@neb.com.

Funding

Elucidating structural, mechanistic, and allosteric determinants of mTOR Complex 2 (mTORC2) signaling.K08DK129824 · NIDDK · MASSACHUSETTS GENERAL HOSPITAL · PI TAYLOR, MARTIN S · 2021 to 2025
$853k
NIDDK NIH HHS K08 DK129824
6 · The paper itself

Abstract

Direct methods for determining the fidelity of DNA polymerases are robust, with relatively little sample manipulation before sequencing. In contrast, methods for measuring RNA polymerase and reverse transcriptase fidelities are complicated by additional preparation steps that introduce ambiguity and error. Here, we describe a sequencing method, termed Roll-Seq, for simultaneously determining the individual fidelities of RNA polymerases and reverse transcriptases (RT) using Pacific Biosciences single molecule real-time sequencing. By using reverse transcriptases with high rolling-circle activity, Roll-Seq generates long concatemeric cDNA from a circular RNA template. To discern the origin of a mutation, errors are recorded and determined to occur within a single concatemer (reverse transcriptase error) or all concatemers (RNA polymerase error) over the cDNA strand. We used Roll-Seq to measure the fidelities of T7 RNA polymerases, a Group II intron-encoded RT (Induro), and two LINE RTs (

Indexed as

DNA-Directed RNA PolymerasesRNA-Directed DNA PolymeraseDNA, ComplementaryEvolution, MolecularHumansMutationViral Proteinsbacteriophage T7 RNA polymeraseDNA, ComplementaryDNA-Directed RNA PolymerasesRNA-Directed DNA PolymeraseViral Proteinsfidelityreverse transcriptaseRNA polymerasesequencing

Identifiers

PMID38942481
PMCPMC11331410

What OpenQuestion holds

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.