Identification of a Putative CodY Regulon in the Gram-Negative Phylum Synergistetes.

Jianing Geng, Sainan Luo, Hui-Ru Shieh, Hsing-Yi Wang, Songnian Hu, Yi-Ywan M Chen

Open access · goldAbstract read

In one paragraph

Article in International journal of molecular sciences, 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

0.3field-weighted citation impact, top 38% 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, 2 citations in OpenAlex.

Unveiling the landscape of prokaryotic global regulators through deep protein language models.mSystems · 2025
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

6 authors at 2 institutions in 2 countries.

Jianing GengState Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China.ORCID 0000-0003-2063-4767

Sainan LuoState Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China.ORCID 0000-0002-2997-1279

Hui-Ru ShiehDepartment of Microbiology and Immunology, College of Medicine, Chang Gung University, Taoyuan 333, Taiwan.

Hsing-Yi WangDepartment of Microbiology and Immunology, College of Medicine, Chang Gung University, Taoyuan 333, Taiwan.

Songnian HuState Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China.ORCID 0000-0003-3966-3111

Yi-Ywan M ChenDepartment of Microbiology and Immunology, College of Medicine, Chang Gung University, Taoyuan 333, Taiwan.

Chang Gung University · TWChinese Academy of Sciences · CN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

CodY is a dominant regulator in low G + C, Gram-positive Firmicutes that governs the regulation of various metabolic pathways and cellular processes. By using various bioinformatics analyses and DNA affinity precipitation assay (DAPA), this study confirmed the presence of CodY orthologues and corresponding regulons in Gram-negative Synergistetes. A novel palindromic sequence consisting of AT-rich arms separated by a spacer region of variable length and sequence was identified in the promoters of the putative

Indexed as

Gene Expression Regulation, BacterialRegulonBacterial ProteinsPromoter Regions, GeneticRepressor ProteinsBacterial ProteinsRepressor Proteinsbinding consensus of Synergistetes CodYCodY orthologuesCodY regulon of SynergistetesSynergistetes

Identifiers

PMID35887256

DOI10.3390/ijms23147911

PMCPMC9318921

OpenAlexW4285727047

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.