{"title":"Antibiotic resistance in <i>Pseudomonas aeruginosa</i>: mechanisms and emerging treatment.","authors":"Jian Yang, Jin-Fu Xu, Shuo Liang","doi":"10.1080/1040841X.2024.2429599","DOIUrl":"https://doi.org/10.1080/1040841X.2024.2429599","url":null,"abstract":"<p><p><i>Pseudomonas aeruginosa</i>, able to survive on the surfaces of medical devices, is a life-threatening pathogen that mainly leads to nosocomial infection especially in immunodeficient and cystic fibrosis (CF) patients. The antibiotic resistance in <i>P. aeruginosa</i> has become a world-concerning problem, which results in reduced and ineffective therapy efficacy. Besides intrinsic properties to decrease the intracellular content and activity of antibiotics, <i>P. aeruginosa</i> develops acquired resistance by gene mutation and acquisition, as well as adaptive resistance under specific situations. With in-depth research on drug resistance mechanisms and the development of biotechnology, innovative strategies have emerged and yielded benefits such as screening for new antibiotics based on artificial intelligence technology, utilizing drugs synergistically, optimizing administration, and developing biological therapy. This review summarizes the recent advances in the mechanisms of antibiotic resistance and emerging treatments for combating resistance, aiming to provide a reference for the development of therapy against drug-resistant <i>P. aeruginosa</i>.</p>","PeriodicalId":10736,"journal":{"name":"Critical Reviews in Microbiology","volume":" ","pages":"1-19"},"PeriodicalIF":6.0,"publicationDate":"2024-11-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142647273","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Shaoqi Qu, Yanfang Zhang, Liangyun Weng, Xinxin Shan, Ping Cheng, Qian Li, Lin Li
{"title":"The role of bacterial extracellular vesicles in promoting antibiotic resistance.","authors":"Shaoqi Qu, Yanfang Zhang, Liangyun Weng, Xinxin Shan, Ping Cheng, Qian Li, Lin Li","doi":"10.1080/1040841X.2024.2423159","DOIUrl":"https://doi.org/10.1080/1040841X.2024.2423159","url":null,"abstract":"<p><p>The burgeoning proliferation of infections attributed to multidrug-resistant (MDR) bacterial pathogens is profoundly undermining conventional chemotherapeutic modalities, portending a grave menace to global public health. The propagation of drug resistance among bacteria is fundamentally facilitated by bacterial interactions, with extracellular vesicles (EVs) assuming a critical role in interbacterial communication. Here, we briefly delineate the methodologies for isolation, extraction, and characterization of EVs from both Gram-negative and Gram-positive bacterial origins. We further investigate assorted methodologies to augment EV production, embracing physical stimulation, chemical elicitation, and genetic engineering. Moreover, we expound on the pivotal involvement of EVs in the facilitation of bacterial drug resistance proliferation and anticipate future trajectories of research and application potential. This overview of EV-mediated novel mechanisms of horizontal gene transfer implicated in antibiotic resistance among bacteria aims to obstruct the transmission conduits of bacterial drug resistance and thus fortify public health integrity.</p>","PeriodicalId":10736,"journal":{"name":"Critical Reviews in Microbiology","volume":" ","pages":"1-18"},"PeriodicalIF":6.0,"publicationDate":"2024-11-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142575034","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
S W G van Hoogstraten, C Kuik, J J C Arts, B Cillero-Pastor
{"title":"Molecular imaging of bacterial biofilms-a systematic review.","authors":"S W G van Hoogstraten, C Kuik, J J C Arts, B Cillero-Pastor","doi":"10.1080/1040841X.2023.2223704","DOIUrl":"10.1080/1040841X.2023.2223704","url":null,"abstract":"<p><p>The formation of bacterial biofilms in the human body and on medical devices is a serious human health concern. Infections related to bacterial biofilms are often chronic and difficult to treat. Detailed information on biofilm formation and composition over time is essential for a fundamental understanding of the underlying mechanisms of biofilm formation and its response to anti-biofilm therapy. However, information on the chemical composition, structural components of biofilms, and molecular interactions regarding metabolism- and communication pathways within the biofilm, such as uptake of administered drugs or inter-bacteria communication, remains elusive. Imaging these molecules and their distribution in the biofilm increases insight into biofilm development, growth, and response to environmental factors or drugs. This systematic review provides an overview of molecular imaging techniques used for bacterial biofilm imaging. The techniques included mass spectrometry-based techniques, fluorescence-labelling techniques, spectroscopic techniques, nuclear magnetic resonance spectroscopy (NMR), micro-computed tomography (µCT), and several multimodal approaches. Many molecules were imaged, such as proteins, lipids, metabolites, and quorum-sensing (QS) molecules, which are crucial in intercellular communication pathways. Advantages and disadvantages of each technique, including multimodal approaches, to study molecular processes in bacterial biofilms are discussed, and recommendations on which technique best suits specific research aims are provided.</p>","PeriodicalId":10736,"journal":{"name":"Critical Reviews in Microbiology","volume":" ","pages":"971-992"},"PeriodicalIF":6.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11523921/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10137108","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Non-antibiotic compounds associated with humans and the environment can promote horizontal transfer of antimicrobial resistance genes.","authors":"Ilyas Alav, Michelle M C Buckner","doi":"10.1080/1040841X.2023.2233603","DOIUrl":"10.1080/1040841X.2023.2233603","url":null,"abstract":"<p><p>Horizontal gene transfer plays a key role in the global dissemination of antimicrobial resistance (AMR). AMR genes are often carried on self-transmissible plasmids, which are shared amongst bacteria primarily by conjugation. Antibiotic use has been a well-established driver of the emergence and spread of AMR. However, the impact of commonly used non-antibiotic compounds and environmental pollutants on AMR spread has been largely overlooked. Recent studies found common prescription and over-the-counter drugs, artificial sweeteners, food preservatives, and environmental pollutants, can increase the conjugative transfer of AMR plasmids. The potential mechanisms by which these compounds promote plasmid transmission include increased membrane permeability, upregulation of plasmid transfer genes, formation of reactive oxygen species, and SOS response gene induction. Many questions remain around the impact of most non-antibiotic compounds on AMR plasmid conjugation in clinical isolates and the long-term impact on AMR dissemination. By elucidating the role of routinely used pharmaceuticals, food additives, and pollutants in the dissemination of AMR, action can be taken to mitigate their impact by closely monitoring use and disposal. This review will discuss recent progress on understanding the influence of non-antibiotic compounds on plasmid transmission, the mechanisms by which they promote transfer, and the level of risk they pose.</p>","PeriodicalId":10736,"journal":{"name":"Critical Reviews in Microbiology","volume":" ","pages":"993-1010"},"PeriodicalIF":6.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11523920/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9825229","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Mariola Wolska-Gębarzewska, Jacek Międzobrodzki, Maja Kosecka-Strojek
{"title":"Current types of staphylococcal cassette chromosome <i>mec</i> (SCC<i>mec</i>) in clinically relevant coagulase-negative staphylococcal (CoNS) species.","authors":"Mariola Wolska-Gębarzewska, Jacek Międzobrodzki, Maja Kosecka-Strojek","doi":"10.1080/1040841X.2023.2274841","DOIUrl":"10.1080/1040841X.2023.2274841","url":null,"abstract":"<p><p>Coagulase-negative staphylococci (CoNS) colonize human skin and mucosal membranes, which is why they are considered harmless commensal bacteria. Two species, <i>Staphylococcus epidermidis</i> and <i>Staphylococcus haemolyticus</i> belong to the group of CoNS species and are most frequently isolated from nosocomial infections, including device-associated healthcare-associated infections (DA-HAIs) and local or systemic body-related infections (FBRIs). Methicillin resistance, initially described in <i>Staphylococcus aureus</i>, has also been reported in CoNS species. It is mediated by the <i>mecA</i> gene within the staphylococcal cassette chromosome (SCC<i>mec</i>). SCC<i>mec</i> typing, primarily using PCR-based methods, has been employed as a molecular epidemiological tool. However, the introduction of whole genome sequencing (WGS) and next-generation sequencing (NGS) has enabled the identification and verification of new SCC<i>mec</i> types. This review describes the current distribution of SCC<i>mec</i> types, subtypes, and variants among CoNS species, including <i>S. epidermidis</i>, <i>S. haemolyticus</i>, and <i>S. capitis</i>. The literature review focuses on recent research articles from the past decade that discuss new combinations of SCC<i>mec</i> in coagulase-negative <i>Staphylococcus</i>. The high genetic diversity and gaps in CoNS SCC<i>mec</i> annotation rules underscore the need for an efficient typing system. Typing SCC<i>mec</i> cassettes in CoNS strains is crucial to continuously updating databases and developing a unified classification system.</p>","PeriodicalId":10736,"journal":{"name":"Critical Reviews in Microbiology","volume":" ","pages":"1020-1036"},"PeriodicalIF":6.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"50161020","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Zirou Ouyang, Hanlin Zhao, Min Zhao, Yaxuan Yang, Jianhong Zhao
{"title":"Type IV pili are involved in phenotypes associated with <i>Clostridioides difficile</i> pathogenesis.","authors":"Zirou Ouyang, Hanlin Zhao, Min Zhao, Yaxuan Yang, Jianhong Zhao","doi":"10.1080/1040841X.2023.2235002","DOIUrl":"10.1080/1040841X.2023.2235002","url":null,"abstract":"<p><p><i>Clostridioides difficile</i> is a Gram-positive, spore-forming, rod-shaped, obligate anaerobe that is the leading cause of antibiotic-associated diarrhea. Type IV pili (T4P) are elongated appendages on the surface of <i>C. difficile</i> that are polymerized from many pilin proteins. T4P play an important role in <i>C. difficile</i> adherence and particularly in its persistence in the host intestine. Recent studies have shown that T4P promote <i>C. difficile</i> aggregation, surface motility, and biofilm formation, which may enhance its pathogenicity. Additionally, the second messenger cyclic diguanylate increases <i>pilA1</i> transcript abundance, indirectly promoting T4P-mediated aggregation, surface motility, and biofilm formation of <i>C. difficile</i>. This review summarizes recent advances in <i>C. difficile</i> T4P research and the physiological activities of T4P in the context of <i>C. difficile</i> pathogenesis.</p>","PeriodicalId":10736,"journal":{"name":"Critical Reviews in Microbiology","volume":" ","pages":"1011-1019"},"PeriodicalIF":6.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9834356","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Alexandra M Mowday, Jella M van de Laak, Zhe Fu, Kimiora L Henare, Ludwig Dubois, Philippe Lambin, Jan Theys, Adam V Patterson
{"title":"Tumor-targeting bacteria as immune stimulants - the future of cancer immunotherapy?","authors":"Alexandra M Mowday, Jella M van de Laak, Zhe Fu, Kimiora L Henare, Ludwig Dubois, Philippe Lambin, Jan Theys, Adam V Patterson","doi":"10.1080/1040841X.2024.2311653","DOIUrl":"10.1080/1040841X.2024.2311653","url":null,"abstract":"<p><p>Cancer immunotherapies have been widely hailed as a breakthrough for cancer treatment in the last decade, epitomized by the unprecedented results observed with checkpoint blockade. Even so, only a minority of patients currently achieve durable remissions. In general, responsive patients appear to have either a high number of tumor neoantigens, a preexisting immune cell infiltrate in the tumor microenvironment, or an 'immune-active' transcriptional profile, determined in part by the presence of a type I interferon gene signature. These observations suggest that the therapeutic efficacy of immunotherapy can be enhanced through strategies that release tumor neoantigens and/or produce a pro-inflammatory tumor microenvironment. In principle, exogenous tumor-targeting bacteria offer a unique solution for improving responsiveness to immunotherapy. This review discusses how tumor-selective bacterial infection can modulate the immunological microenvironment of the tumor and the potential for combination with cancer immunotherapy strategies to further increase therapeutic efficacy. In addition, we provide a perspective on the clinical translation of replicating bacterial therapies, with a focus on the challenges that must be resolved to ensure a successful outcome.</p>","PeriodicalId":10736,"journal":{"name":"Critical Reviews in Microbiology","volume":" ","pages":"955-970"},"PeriodicalIF":6.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11523919/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139721977","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Tegan M Hibbert, Marvin Whiteley, Stephen A Renshaw, Daniel R Neill, Joanne L Fothergill
{"title":"Emerging strategies to target virulence in <i>Pseudomonas aeruginosa</i> respiratory infections.","authors":"Tegan M Hibbert, Marvin Whiteley, Stephen A Renshaw, Daniel R Neill, Joanne L Fothergill","doi":"10.1080/1040841X.2023.2285995","DOIUrl":"10.1080/1040841X.2023.2285995","url":null,"abstract":"<p><p><i>Pseudomonas aeruginosa</i> is an opportunistic pathogen that is responsible for infections in people living with chronic respiratory conditions, such as cystic fibrosis (CF) and non-CF bronchiectasis (NCFB). Traditionally, in people with chronic respiratory disorders, <i>P. aeruginosa</i> infection has been managed with a combination of inhaled and intravenous antibiotic therapies. However, due in part to the prolonged use of antibiotics in these people, the emergence of multi-drug resistant <i>P. aeruginosa</i> strains is a growing concern. The development of anti-virulence therapeutics may provide a new means of treating <i>P. aeruginosa</i> lung infections whilst also combatting the AMR crisis, as these agents are presumed to exert reduced pressure for the emergence of drug resistance as compared to antibiotics. However, the pipeline for developing anti-virulence therapeutics is poorly defined, and it is currently unclear as to whether <i>in vivo</i> and <i>in vitro</i> models effectively replicate the complex pulmonary environment sufficiently to enable development and testing of such therapies for future clinical use. Here, we discuss potential targets for <i>P. aeruginosa</i> anti-virulence therapeutics and the effectiveness of the current models used to study them. Focus is given to the difficulty of replicating the virulence gene expression patterns of <i>P. aeruginosa</i> in the CF and NCFB lung under laboratory conditions and to the challenges this poses for anti-virulence therapeutic development.</p>","PeriodicalId":10736,"journal":{"name":"Critical Reviews in Microbiology","volume":" ","pages":"1037-1052"},"PeriodicalIF":6.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138298543","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Mahnoor Zulfiqar, Vinay Singh, Christoph Steinbeck, Maria Sorokina
{"title":"Review on computer-assisted biosynthetic capacities elucidation to assess metabolic interactions and communication within microbial communities.","authors":"Mahnoor Zulfiqar, Vinay Singh, Christoph Steinbeck, Maria Sorokina","doi":"10.1080/1040841X.2024.2306465","DOIUrl":"10.1080/1040841X.2024.2306465","url":null,"abstract":"<p><p>Microbial communities thrive through interactions and communication, which are challenging to study as most microorganisms are not cultivable. To address this challenge, researchers focus on the extracellular space where communication events occur. Exometabolomics and interactome analysis provide insights into the molecules involved in communication and the dynamics of their interactions. Advances in sequencing technologies and computational methods enable the reconstruction of taxonomic and functional profiles of microbial communities using high-throughput multi-omics data. Network-based approaches, including community flux balance analysis, aim to model molecular interactions within and between communities. Despite these advances, challenges remain in computer-assisted biosynthetic capacities elucidation, requiring continued innovation and collaboration among diverse scientists. This review provides insights into the current state and future directions of computer-assisted biosynthetic capacities elucidation in studying microbial communities.</p>","PeriodicalId":10736,"journal":{"name":"Critical Reviews in Microbiology","volume":" ","pages":"1053-1092"},"PeriodicalIF":6.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139545419","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}