Evidence map›Paper›PMID 36377899›Full record

ArticlemSystems2022

Genome-Wide Analysis of Gene Expression Noise Brought About by Transcriptional Regulation in

Wenhui Chen, Jinfeng Zhang, Feixuan Li, Congcong Wang, Yuchen Zhang, Aiguo Xia, Lei Ni, Fan Jin

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

Article in mSystems, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
0.2field-weighted citation impact, top 51% 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

1 citing paper in PubMed, 3 citations in OpenAlex.

  1. 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

8 authors at 3 institutions in 2 countries.

Wenhui Chen *Hefei National Research Center for Physical Sciences at the Microscale; Department of Polymer Science and Engineering, University of Science and Technology of Chinagrid.59053.3a, Hefei, China.
Jinfeng Zhang *Hefei National Research Center for Physical Sciences at the Microscale; Department of Polymer Science and Engineering, University of Science and Technology of Chinagrid.59053.3a, Hefei, China.
Feixuan Li *Hefei National Research Center for Physical Sciences at the Microscale; Department of Polymer Science and Engineering, University of Science and Technology of Chinagrid.59053.3a, Hefei, China.
Congcong WangDepartment of Chemical Physics, University of Science and Technology of Chinagrid.59053.3a, Hefei, China.
Yuchen ZhangHefei National Research Center for Physical Sciences at the Microscale; Department of Polymer Science and Engineering, University of Science and Technology of Chinagrid.59053.3a, Hefei, China.
Aiguo XiaCAS Key Laboratory of Quantitative Engineering Biology, Shenzhen Institute of Synthetic Biology, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen, China.
Lei NiCAS Key Laboratory of Quantitative Engineering Biology, Shenzhen Institute of Synthetic Biology, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen, China.
Fan JinCAS Key Laboratory of Quantitative Engineering Biology, Shenzhen Institute of Synthetic Biology, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen, China.
University of Science and Technology of China · CNChinese Academy of Sciences · CNShenzhen Institutes of Advanced Technology · CN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The part of expression noise that is brought about by transcriptional regulation (represented here as NTR) is an important criterion for estimating the regulatory mode of a gene. However, characterization of NTR is an under-explored area, and there is little knowledge regarding the genome-wide NTR in the model pathogen Pseudomonas aeruginosa. Here, with a library of dual-color transcriptional reporters, we estimated the NTR for over 90% of the promoters in P. aeruginosa. Most promoters exhibit low NTR, while 42 and 115 promoters with high NTR were screened out in the exponential and the stationary growth phases, respectively. Specifically, a rearrangement of NTR was found in promoters involved in amino acid metabolism when bacteria enter the exponential phase. In addition, during the stationary phase, high NTR was found in a wide range of iron-related promoters involving siderophore synthesis and heme uptake, ExsA-regulated promoters involving bacterial virulence, and FleQ-regulated promoters involving biofilm development. We also found a large-scale negative dependence of transcriptional regulation between high-NTR promoters belonging to different functional categories. Our findings offer a global view of transcriptional heterogeneity in P. aeruginosa.

Indexed as

Bacterial ProteinsPseudomonas aeruginosaAmino AcidsGene ExpressionGene Expression Regulation, BacterialIronAmino AcidsBacterial ProteinsIrondual-color transcriptional reporter libraryironNTRPseudomonas aeruginosa

Identifiers

PMID36377899
PMCPMC9765613
OpenAlexW4309099341

What OpenQuestion holds

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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.