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Review
- Small regulatory RNAs as key modulators of antibiotic resistance in pathogenic bacteria
- Yubin Yang, Hana Hyeon, Minju Joo, Kangseok Lee, Eunkyoung Shin
- J. Microbiol. 2025;63(4):e2501027. Published online April 2, 2025
- DOI: https://doi.org/10.71150/jm.2501027
- 106 View
- 8 Download
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Abstract
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The escalating antibiotic resistance crisis poses a significant challenge to global public health, threatening the efficacy of current treatments and driving the emergence of multidrug-resistant pathogens. Among the various factors associated with bacterial antibiotic resistance, small regulatory RNAs (sRNAs) have emerged as pivotal post-transcriptional regulators which orchestrate bacterial adaptation to antibiotic pressure via diverse mechanisms. This review consolidates the current knowledge on sRNA-mediated mechanisms, focusing on drug uptake, drug efflux systems, lipopolysaccharides, cell wall modification, biofilm formation, and mutagenesis. Recent advances in transcriptomics and functional analyses have revealed novel sRNAs and their regulatory networks, expanding our understanding of resistance mechanisms. These findings highlight the potential of targeting sRNA-mediated pathways as an innovative therapeutic strategy to combat antibiotic resistance, and offer promising avenues for managing challenging bacterial infections.
Journal Article
- Genetic diversity and population structure of the amylolytic yeast Saccharomycopsis fibuligera associated with Baijiu fermentation in China
- Ju-Wei Wang , Pei-Jie Han , Da-Yong Han , Sen Zhou , Kuan Li , Peng-Yu He , Pan Zhen , Hui-Xin Yu , Zhen-Rong Liang , Xue-Wei Wang , Feng-Yan Bai
- J. Microbiol. 2021;59(8):753-762. Published online July 5, 2021
- DOI: https://doi.org/10.1007/s12275-021-1115-7
- 48 View
- 0 Download
- 15 Web of Science
- 14 Crossref
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Abstract
- The amylolytic yeast Saccharomycopsis fibuligera is a predominant species in starters and the early fermentation stage of Chinese liquor (Baijiu). However, the genetic diversity of the species remains largely unknown. Here we sequenced the genomes of 97 S. fibuligera strains from different Chinese Baijiu companies. The genetic diversity and population structure of the strains were analyzed based on 1,133 orthologous genes and the whole genome single nucleotide polymorphisms (SNPs). Four main lineages were recognized. One lineage contains 60 Chinese strains which are exclusively homozygous with relatively small genome sizes (18.55–18.72 Mb) and low sequence diversity. The strains clustered in the other three lineages are heterozygous with larger genomes (21.85–23.72 Mb) and higher sequence diversity. The genomes of the homozygous strains showed nearly 100% coverage with the genome of the reference strain KPH12 and the sub-genome A of the hybrid strain KJJ81 at the above 98% sequence identity level. The genomes of the heterozygous strains showed nearly 80% coverage with both the sub-genome A and the whole genome of KJJ81, suggesting that the Chinese heterozygous strains are also hybrids with nearly 20% genomes from an unidentified source. Eighty-three genes were found to show significant copy number variation between different lineages. However, remarkable lineage specific variations in glucoamylase and α-amylase activities and growth profiles in different carbon sources and under different environmental conditions were not observed, though strains exhibiting relatively high glucoamylase activity were mainly found from the homozygous lineage.
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Citations
Citations to this article as recorded by
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Reviews
- MINIREVIEW] The therapeutic applications of antimicrobial peptides (AMPs): a patent review
- Hee-Kyoung Kang , Cheolmin Kim , Chang Ho Seo , Yoonkyung Park
- J. Microbiol. 2017;55(1):1-12. Published online December 30, 2016
- DOI: https://doi.org/10.1007/s12275-017-6452-1
- 59 View
- 0 Download
- 282 Crossref
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Abstract
- Antimicrobial peptides (AMPs) are small molecules with a broad spectrum of antibiotic activities against bacteria, yeasts, fungi, and viruses and cytotoxic activity on cancer cells, in addition to anti-inflammatory and immunomodulatory activities. Therefore, AMPs have garnered interest as novel therapeutic agents. Because of the rapid increase in drug-resistant pathogenic microorganisms, AMPs from synthetic and natural sources have been developed using alternative antimicrobial strategies. This article presents a broad analysis of patents referring to the therapeutic applications of AMPs since 2009. The review focuses on the universal trends in the effective design, mechanism, and biological evolution of AMPs.
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- J. Microbiol. 2014;52(12):983-989. Published online November 29, 2014
- DOI: https://doi.org/10.1007/s12275-014-4655-2
- 55 View
- 0 Download
- 30 Crossref
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Abstract
- The human gastrointestinal tract is colonized by multitudes of microorganisms that exert beneficial effects on human health. Mounting evidence suggests that intestinal microbiota contributes to host resistance against enteropathogenic bacterial infection. However, molecular details that account for such an important role has just begun to be understood. The commensal microbes in the intestine regulate gut homeostasis through activating the development of host innate immunity and producing molecules with antimicrobial activities that directly inhibit propagation of pathogenic bacteria. Understanding the protective roles of gut microbiota will provide a better insight into the molecular basis that underlies complicated interaction among host-pathogen-symbiont. In this review, we highlighted recent findings that help us broaden our knowledge of the intestinal ecosystem and thereby come up with a better strategy for combating enteropathogenic infection.
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Citations
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Research Support, Non-U.S. Gov'ts
- A Novel Retron of Vibrio parahaemolyticus Is Closely Related to Retron-Vc95 of Vibrio cholerae
- Toshi Shimamoto , Ashraf M. Ahmed , Tadashi Shimamoto
- J. Microbiol. 2013;51(3):323-328. Published online June 28, 2013
- DOI: https://doi.org/10.1007/s12275-013-2715-7
- 47 View
- 0 Download
- 2 Scopus
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Abstract
- Some bacteria produce a satellite RNA-DNA complex termed msDNA, multicopy single-stranded DNA. In this report, msDNA from Vibrio parahaemolyticus, a cause of acute gastroenteritis, was identified and named msDNA-Vp96. The retron element containing the ret gene, encoding the reverse transcriptase (RT) that is responsible for msDNA production, was cloned and characterized. Comparison of msDNAVp96 and msDNA-Vc95, from Vibrio cholerae, showed a high level of sequence similarity. We exchanged the two ret genes to examine whether msDNA was produced by the RT from different sources. We found that RT-Vp96 of V. parahaemolyticus was able to synthesize msDNA-Vc95 of V. cholerae and vice versa. To the best of our knowledge, this is the first report that RT from different bacterial species can synthesize msDNA.
- Detection of Representative Enteropathogenic Bacteria, Vibrio spp., Pathogenic Escherichia coli, Salmonella spp., Shigella spp., and Yersinia enterocolitica, Using a Virulence Factor Gene-Based Oligonucleotide Microarray§
- Dong-Hun Kim , Bok-Kwon Lee , Yong-Dae Kim , Sung-Keun Rhee , Young-Chang Kim
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- DOI: https://doi.org/10.1007/s12275-010-0119-5
- 30 View
- 0 Download
- 20 Scopus
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Abstract
- Rapid identification of enteropathogenic bacteria in stool samples is critical for clinical diagnosis and antimicrobial therapy. In this study, we describe the development of an approach that couples multiplex PCR with hybridization to a DNA microarray, to allow the simultaneous detection of the 10 pathogens. The microarray was synthesized with 20-mer oligonucleotide probes that were designed to be specific for virulencefactor genes of each strain. The detection limit for genomic DNA from a single strain was approximately 10 fg. In the presence of heterogeneous non-target DNA, the detection sensitivity of the array decreased to approximately 100 fg. We did not observe any non-specific hybridization. In addition, we successfully used this oligonucleotide-based DNA microarray to identify the causative agents in clinical stool samples from patients with food-borne enteritis.
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