Evidence map›Paper›PMID 33558533›Full record

ArticleNature communications2021

Effects of individual base-pairs on in vivo target search and destruction kinetics of bacterial small RNA.

Anustup Poddar, Muhammad S Azam, Tunc Kayikcioglu, Maksym Bobrovskyy, Jichuan Zhang, Xiangqian Ma, Piyush Labhsetwar, Jingyi Fei, Digvijay Singh, Zaida Luthey-Schulten and 2 more

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Nature communications, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing papers in PubMed
0.6field-weighted citation impact, top 34% of its field
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

6 citing papers in PubMed, 11 citations in OpenAlex.

  1. Article
  2. Competition for Hfq drives kinetic selection of mRNA targets byProceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  3. What makes a small RNA work?Nucleic acids research · 2025
    Review
  4. Article
  5. Article
  6. Article
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 at 4 institutions in 1 country.

Anustup PoddarDepartment of Biophysics and Biophysical Chemistry, Johns Hopkins University School of Medicine, Baltimore, MD, USA.ORCID http://orcid.org/0000-0001-6792-2956
Muhammad S AzamDepartment of Microbiology, University of Illinois at Urbana-Champaign, Urbana, IL, USA.
Tunc KayikciogluDepartment of Biophysics and Biophysical Chemistry, Johns Hopkins University School of Medicine, Baltimore, MD, USA.
Maksym BobrovskyyDepartment of Microbiology, University of Illinois at Urbana-Champaign, Urbana, IL, USA.
Jichuan ZhangDepartment of Biophysics and Biophysical Chemistry, Johns Hopkins University School of Medicine, Baltimore, MD, USA.
Xiangqian MaDepartment of Microbiology, University of Illinois at Urbana-Champaign, Urbana, IL, USA.
Piyush LabhsetwarDepartment of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL, USA.ORCID http://orcid.org/0000-0001-5933-3609
Jingyi FeiDepartment of Biochemistry and Molecular Biology, University of Chicago, Chicago, IL, USA.ORCID http://orcid.org/0000-0002-9775-3820
Digvijay SinghDepartment of Biophysics and Biophysical Chemistry, Johns Hopkins University School of Medicine, Baltimore, MD, USA.
Zaida Luthey-SchultenDepartment of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL, USA.ORCID http://orcid.org/0000-0001-9749-8367
Carin K VanderpoolDepartment of Microbiology, University of Illinois at Urbana-Champaign, Urbana, IL, USA. cvanderp@illinois.edu.
Taekjip HaDepartment of Biophysics and Biophysical Chemistry, Johns Hopkins University School of Medicine, Baltimore, MD, USA. tjha@jhu.edu.ORCID http://orcid.org/0000-0003-2195-6258
University of Illinois Urbana-Champaign · USJohns Hopkins University · USHoward Hughes Medical Institute · USUniversity of Chicago · US

Funding

Single Molecule Studies of Nucleic Acids RemodelingR35GM122569 · NIGMS · JOHNS HOPKINS UNIVERSITY · PI Taekjip Ha · 2017 to 2026
$3.5M
Molecular Determinants of Regulatory Hierarchy for Bacterial Small RNAsR01GM092830 · NIGMS · UNIVERSITY OF ILLINOIS AT URBANA-CHAMPAIGN · PI VANDERPOOL, CARIN K · 2010 to 2020
$2.8M
Small RNA Regulation in BacteriaR35GM139557 · NIGMS · UNIVERSITY OF MINNESOTA · PI Carin K Vanderpool · 2021 to 2026
$2.6M
Quantitative Imaging and Modeling of Regulation by Bacterial Small RNAR01GM112659 · NIGMS · UNIVERSITY OF ILLINOIS AT URBANA-CHAMPAIGN · PI HA, TAEKJIP, LUTHEY-SCHULTEN, ZAIDA · 2015 to 2018
$1.1M
Acquisition of GE Typhoon FLA9500 Variable Mode ImagerS10OD021567 · OD · JOHNS HOPKINS UNIVERSITY · PI MCCAFFERY, J. MICHAEL · 2017 to 2017
$147k
Howard Hughes Medical InstituteNIGMS NIH HHS R01 GM092830NIGMS NIH HHS R01 GM112659NIGMS NIH HHS R35 GM122569NIGMS NIH HHS R35 GM139557NIH HHS S10 OD021567
6 · The paper itself

Abstract

Base-pairing interactions mediate many intermolecular target recognition events. Even a single base-pair mismatch can cause a substantial difference in activity but how such changes influence the target search kinetics in vivo is unknown. Here, we use high-throughput sequencing and quantitative super-resolution imaging to probe the mutants of bacterial small RNA, SgrS, and their regulation of ptsG mRNA target. Mutations that disrupt binding of a chaperone protein, Hfq, and are distal to the mRNA annealing region still decrease the rate of target association, k

Indexed as

RNA StabilityBase PairingBase SequenceEscherichia coliGene DosageGenes, ReporterImaging, Three-DimensionalKineticsMutationNucleotidesRNA, BacterialRNA, MessengerTime FactorsNucleotidesRNA, BacterialRNA, Messenger

Identifiers

PMID33558533
PMCPMC7870926
OpenAlexW3129129219

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.