Evidence map›Paper›PMID 41394551›Full record

ArticlebioRxiv : the preprint server for biology2025

Long-range mRNA folding shapes expression and sequence of bacterial genes.

Manraj S Gill, Isabelle A Kim, James R Xue, Yashna Thappeta, James C Taggart, Gene-Wei Li

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2025. 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.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

6 authors.

Manraj S GillDepartment of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA.ORCID 0000-0003-2589-6926
Isabelle A KimDepartment of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA.ORCID 0009-0007-6965-2719
James R XueDepartment of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA.ORCID 0000-0002-3332-5747
Yashna ThappetaDepartment of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA.ORCID 0009-0008-9284-9939
James C TaggartDepartment of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA.ORCID 0000-0002-6853-1583
Gene-Wei LiDepartment of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA.ORCID 0000-0001-7036-8511

Funding

PRE-DOCTORAL TRAINING IN THE BIOLOGICAL SCIENCEST32GM007287 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI BELL, STEPHEN P., KEATING, AMY E · 1985 to 2019
$40.8M
Evolution and Regulation of Bacterial Proteome CompositionR35GM124732 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI Gene-Wei Li · 2017 to 2026
$3.8M
NIGMS NIH HHS R35 GM124732NIGMS NIH HHS T32 GM007287
6 · The paper itself

Abstract

Accessibility of the ribosome binding site (RBS) plays an outsized role in bacterial mRNA decay and translation. Antagonistic mRNA sequences that reduce accessibility and regulate expression have been widely documented near the RBS. To determine whether such sequences are also the primary effectors of expression when placed far from the RBS, we measured impacts of all possible 8-nucleotide substitutions (65,536 variants) at different positions in mRNA in

Indexed as

Bacterial coding sequenceBacterial mRNAmRNA degradationmRNA foldingmRNA stabilitymRNA translationRibosome binding siteRNA structureSequence evolutionTranslation efficiency

Identifiers

PMID41394551
PMCPMC12697547

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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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.