Evidence map›Paper›PMID 36993691›Full record

ArticlebioRxiv : the preprint server for biology2023

Gene recoding by synonymous mutations creates promiscuous intragenic transcription initiation in mycobacteria.

Nuri K Hegelmeyer, Mary L Previti, Joshua Andrade, Raditya Utama, Richard J Sejour, Justin Gardin, Stephanie Muller, Steven Ketchum, Alisa Yurovsky, Bruce Futcher and 3 more

Open access · greenAbstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing 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

0 citing papers in PubMed, 0 citations in OpenAlex.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

13 authors at 3 institutions in 1 country.

Nuri K HegelmeyerDepartment of Pharmacological Sciences, Stony Brook University, Stony Brook, New York, USA.
Mary L PrevitiDepartment of Pharmacological Sciences, Stony Brook University, Stony Brook, New York, USA.
Joshua AndradeProteomics Laboratory, New York University Grossman School of Medicine, New York, New York, USA.
Raditya UtamaCold Spring Harbor Laboratory, Cold Spring Harbor, New York, USA.
Richard J SejourDepartment of Microbiology and Immunology, Stony Brook University, Stony Brook, New York, USA.
Justin GardinDepartment of Microbiology and Immunology, Stony Brook University, Stony Brook, New York, USA.
Stephanie MullerCold Spring Harbor Laboratory, Cold Spring Harbor, New York, USA.
Steven KetchumDepartment of Microbiology and Immunology, Stony Brook University, Stony Brook, New York, USA.
Alisa YurovskyDepartment of Microbiology and Immunology, Stony Brook University, Stony Brook, New York, USA.
Bruce FutcherDepartment of Microbiology and Immunology, Stony Brook University, Stony Brook, New York, USA.
Sara GoodwinCold Spring Harbor Laboratory, Cold Spring Harbor, New York, USA.
Beatrix UeberheideProteomics Laboratory, New York University Grossman School of Medicine, New York, New York, USA.
Jessica C SeeligerDepartment of Pharmacological Sciences, Stony Brook University, Stony Brook, New York, USA.
Stony Brook University · USCold Spring Harbor Laboratory · USNew York University · US

Funding

MEDICAL SCIENTIST TRAINING PROGRAMT32GM008444 · NIGMS · STATE UNIVERSITY NEW YORK STONY BROOK · PI FROHMAN, MICHAEL A. · 1992 to 2024
$12.6M
Untangling the Inner Workings of the Mycobacterial Cell EnvelopeR35GM128552 · NIGMS · STATE UNIVERSITY NEW YORK STONY BROOK · PI SEELIGER, JESSICA CHUANG · 2018 to 2022
$2.1M
NIGMS NIH HHS R35 GM128552NIGMS NIH HHS T32 GM008444
6 · The paper itself

Abstract

Each genome encodes some codons more frequently than their synonyms (codon usage bias), but codons are also arranged more frequently into specific pairs (codon pair bias). Recoding viral genomes and yeast or bacterial genes with non-optimal codon pairs has been shown to decrease gene expression. Gene expression is thus importantly regulated not only by the use of particular codons but by their proper juxtaposition. We therefore hypothesized that non-optimal codon pairing could likewise attenuate IMPORTANCE:

Identifiers

PMID36993691
PMCPMC10055193
OpenAlexW4327862093

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
Read underepoch 390

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.