Transcriptional Regulation in Bacteria, 2nd Edition

A special issue of Microorganisms (ISSN 2076-2607). This special issue belongs to the section "Molecular Microbiology and Immunology".

Deadline for manuscript submissions: 31 December 2025 | Viewed by 366

Special Issue Editor


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Guest Editor
School of Agriculture, Meiji University, Kawasaki, Japan
Interests: transcription factor; transcriptional regulation; genomic SELEX; RNA polymerase; sigma factor; Escherichia coli; genome regulation
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Special Issue Information

Dear Colleagues,

The goal of research in the post-genomic era, now that the full extent of the genes encoded by microbial genomes is known, is to elucidate the whole mechanism by which microorganisms utilize genes through transcriptional regulation. Deciphering the genome sequence of microorganisms has revealed its gene set and the set of transcriptional regulators that regulate those genes, providing a complete overview of transcriptional regulation in microorganisms. The number of target genes depends on the function of the transcription factor; some single-target regulators target a single gene in the genome, while others are global regulators that target hundreds of genes. In some cases, these have been shown to cooperate or antagonize each other at hundreds or more sites on the genome, dynamically regulating gene transcription.

It has also become clear that transcription factors comprehensively regulate multiple genes involved in seemingly unrelated biological functions. Thus, analyses of transcriptional regulation reveal not only the molecular mechanisms of transcriptional regulation but also the functional network of genes, leading to the elucidation of new physiological mechanisms of microorganisms.

This Special Issue aims to collect recent studies on microorganisms, from detailed and precise studies on the transcriptional regulatory mechanisms of single genes, to studies on the genome regulatory networks of whole genes, to newly revealed microorganism mechanisms.

Dr. Tomohiro Shimada
Guest Editor

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Keywords

  • transcription
  • gene regulation
  • genome regulation
  • regulatory network
  • RNA polymerase
  • sigma factor
  • transcription factor
  • nucleoid

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Published Papers (1 paper)

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Research

24 pages, 3042 KiB  
Article
Integrated Transcriptomic and Proteomic Analyses Reveal CsrA-Mediated Regulation of Virulence and Metabolism in Vibrio alginolyticus
by Bing Liu, Huizhen Chen, Kai Sheng, Jianxiang Fang, Ying Zhang and Chang Chen
Microorganisms 2025, 13(7), 1516; https://doi.org/10.3390/microorganisms13071516 - 28 Jun 2025
Viewed by 169
Abstract
Vibrio alginolyticus, a common Gram-negative opportunistic pathogen of marine animals and humans, is known for its rapid growth in organic-matter-rich environments. However, it remains unclear how it incorporates metabolic pathways in response to diverse carbon and nitrogen sources and rapidly alters gene [...] Read more.
Vibrio alginolyticus, a common Gram-negative opportunistic pathogen of marine animals and humans, is known for its rapid growth in organic-matter-rich environments. However, it remains unclear how it incorporates metabolic pathways in response to diverse carbon and nitrogen sources and rapidly alters gene expression. Increasing evidence suggests that post-transcriptional regulation by RNA-binding proteins and small RNAs (sRNAs) plays a crucial role in bacterial adaptation and metabolism. CsrA (carbon storage regulator A), a conserved post-transcriptional regulator in Gammaproteobacteria, is poorly characterized in Vibrio species. Using integrated transcriptomic and proteomic analyses, we found that CsrA alters the expression of 661 transcripts and 765 protein transcripts in V. alginolyticus, influencing key pathways including central carbon metabolism, amino acid metabolism and transport, quorum sensing, and bacterial secretion systems. Through directed CsrA-RNA EMSAs, we identified several direct mRNA targets of CsrA, including gltB, gcvP, aceE, and tdh, as well as secretion system components (tagH, tssL, yopD, and sctC). Notably, CsrA also directly regulates rraA, a key modulator of ribonuclease activity, suggesting a broader role in RNA metabolism. Our findings establish CsrA as a global regulator in V. alginolyticus, expanding the known targets of CsrA and providing new insights into its regulatory roles. Full article
(This article belongs to the Special Issue Transcriptional Regulation in Bacteria, 2nd Edition)
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