Dmitri V Mavrodi, Wulf Blankenfeldt, Olga V Mavrodi, David M Weller, Linda S Thomashow
{"title":"Microbial phenazines: biosynthesis, structural diversity, evolution, regulation, and biological significance.","authors":"Dmitri V Mavrodi, Wulf Blankenfeldt, Olga V Mavrodi, David M Weller, Linda S Thomashow","doi":"10.1128/mmbr.00147-23","DOIUrl":"https://doi.org/10.1128/mmbr.00147-23","url":null,"abstract":"<p><p>SUMMARYPhenazines are small, redox-active secondary metabolites produced by various bacterial species. These compounds participate in electron-transfer reactions, aiding microbes in surviving stressful or oxygen-limited environments. In this review, we examine the extensive structural diversity of phenazines and trace the evolutionary history of their biosynthetic pathways, which often move between distantly related species through horizontal gene transfer. We also explore how environmental factors such as nutrient levels and cell-to-cell signaling regulate phenazine production. Beyond their roles in microbial physiology, phenazines influence interactions among organisms, acting as antimicrobial agents, signaling molecules, and factors that shape microbiome dynamics in soils, plant roots, and other habitats. A better understanding of phenazine biology reveals how microbes adapt and thrive in diverse environments and emphasizes the potential applications of these compounds in agriculture and human health.</p>","PeriodicalId":18520,"journal":{"name":"Microbiology and Molecular Biology Reviews","volume":" ","pages":"e0014723"},"PeriodicalIF":7.8,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145200283","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Chengjun Cao, Li Tao, Tianren Hu, Haiqing Chu, Austin M Perry, Clarissa J Nobile, Guanghua Huang
{"title":"Genetic and environmental control of parasexual reproduction in the pathogenic <i>Candida</i> species.","authors":"Chengjun Cao, Li Tao, Tianren Hu, Haiqing Chu, Austin M Perry, Clarissa J Nobile, Guanghua Huang","doi":"10.1128/mmbr.00002-25","DOIUrl":"https://doi.org/10.1128/mmbr.00002-25","url":null,"abstract":"<p><p>SUMMARY<i>Candida</i> species are major yeast pathogens that cause both mucosal candidiasis and life-threatening invasive infections. Most <i>Candida</i> species, including <i>Candida albicans</i>, have long been thought to be \"imperfect\" due to the lack of a complete sexual reproduction cycle. Since the discovery of the mating type-like locus in <i>C. albicans</i> in 1999, the regulation of (para)sexual reproduction has been intensively investigated in this organism as well as in several phylogenetically closely related species. The (para)sexual cycle is not only critical for the generation of genetic and phenotypic diversity but is also involved in the regulation of other biological processes, such as morphological transitions, biofilm development, and virulence in pathogenic fungi. In this review article, we focus on the unique characteristics and genetic and environmental regulatory mechanisms of parasexual reproduction in the pathogenic <i>Candida</i> species. We discuss the relationship between the white-opaque switching and mating in the <i>Candida</i> species, particularly in <i>C. albicans</i>. We describe recent findings on environmental factors, genetic regulators, and key signaling pathways involved in sexual mating in <i>C. albicans</i> and related species. Finally, we discuss the mating potential and associated regulatory machinery in several <i>Candida</i> species, where parasexual reproduction has not been observed and bring to light some open-ended questions regarding the unique features of parasexual reproduction that should be addressed in future studies in the field.</p>","PeriodicalId":18520,"journal":{"name":"Microbiology and Molecular Biology Reviews","volume":" ","pages":"e0000225"},"PeriodicalIF":7.8,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145200288","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Peptidoglycan polymerase function and regulation.","authors":"Mohammed Terrak, Frédéric Kerff","doi":"10.1128/mmbr.00070-25","DOIUrl":"10.1128/mmbr.00070-25","url":null,"abstract":"<p><p>SUMMARYMost bacterial species possess two distinct types of glycosyltransferases (GTases or GTs), each with unique structural folds, which catalyze the addition of lipid II monomers to the anomeric reducing end of a growing glycan chain, ultimately forming β-1,4 glycosidic bonds. These bonds link the GlcNAc-MurNAc-peptide disaccharide subunits of the peptidoglycan (PG) polymer. The first type belongs to the carbohydrate-active enzyme (CAZy) GT51 family, which includes a lysozyme-like domain typically associated with a transpeptidase domain in bifunctional class A penicillin-binding proteins (aPBPs) and is occasionally found as a monofunctional GTase in certain bacteria. The second type, a C1-type GTase from the CAZy GT119 family, has a distinctly different structural fold and is composed of polytopic membrane proteins. These proteins also belong to the SEDS (shape, elongation, division, and sporulation) family and are characterized by 10 transmembrane segments and a large extracellular loop. In a single bacterial cell, multiple representatives of each family (aPBPs and SEDS) are typically present, often performing semi-redundant or distinct physiological functions. This review focuses on the structure-activity relationship of these two crucial PG GTases, the coordination between their GTase and the transpeptidase activities, and the regulatory mechanisms controlling these enzymes during cell growth and division within the elongasome and divisome complexes.</p>","PeriodicalId":18520,"journal":{"name":"Microbiology and Molecular Biology Reviews","volume":" ","pages":"e0007025"},"PeriodicalIF":7.8,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12462289/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144960786","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Susanna R Grigson, George Bouras, Bas E Dutilh, Robert D Olson, Robert A Edwards
{"title":"Computational function prediction of bacteria and phage proteins.","authors":"Susanna R Grigson, George Bouras, Bas E Dutilh, Robert D Olson, Robert A Edwards","doi":"10.1128/mmbr.00022-25","DOIUrl":"10.1128/mmbr.00022-25","url":null,"abstract":"<p><p>SUMMARYUnderstanding protein functions is crucial for interpreting microbial life; however, reliable function annotation remains a major challenge in computational biology. Despite significant advances in bioinformatics methods, ~30% of all bacterial and ~65% of all bacteriophage (phage) protein sequences cannot be confidently annotated. In this review, we examine state-of-the-art bioinformatics tools and methodologies for annotating bacterial and phage proteins, particularly those of unknown or poorly characterized function. We describe the process of identifying protein-coding regions and the systems to classify protein functionalities. Additionally, we explore a range of protein annotation methods, from traditional homology-based methods to cutting-edge machine learning models. In doing so, we provide a toolbox for confidently annotating previously unknown bacterial and phage proteins, advancing the discovery of novel functions and our understanding of microbial systems.</p>","PeriodicalId":18520,"journal":{"name":"Microbiology and Molecular Biology Reviews","volume":" ","pages":"e0002225"},"PeriodicalIF":7.8,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12462290/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144873920","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Ana E Juarez, Alejandra Krüger, Paula M A Lucchesi
{"title":"Shiga toxin-producing <i>Escherichia coli</i>, food contamination, and bacteriophages as a control strategy.","authors":"Ana E Juarez, Alejandra Krüger, Paula M A Lucchesi","doi":"10.1128/mmbr.00244-25","DOIUrl":"10.1128/mmbr.00244-25","url":null,"abstract":"<p><p>SUMMARYShiga toxin-producing <i>Escherichia coli</i> (STEC) strains cause diarrhea, hemorrhagic colitis, and hemolytic uremic syndrome (HUS) in humans. HUS is a severe systemic illness that can affect individuals of all ages, especially children. There is no specific treatment for HUS, and interventions consist of supportive therapy. STEC infections occur worldwide, and severe illness may occur in sporadic cases or outbreaks. In 2023, STEC was the third most frequently reported zoonotic agent detected in foodborne outbreaks in the EU. In this manuscript, we have focused on STEC reservoirs, STEC contamination of foods, source attribution of STEC infections, and current discussions about the pathogenic potential of STEC strains present in foods. Considering that food contamination with STEC represents a serious threat to public health, that preventive strategies for STEC infection are critical, and natural antimicrobials have gained increasing interest, we also present thoroughly revised information about bacteriophages as a strategy for STEC control. We also discussed the main aspects of the performance of commercial and non-commercial bacteriophages on foods artificially contaminated with STEC.</p>","PeriodicalId":18520,"journal":{"name":"Microbiology and Molecular Biology Reviews","volume":" ","pages":"e0024425"},"PeriodicalIF":7.8,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12462294/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144960805","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Polio virotherapy provokes MDA5 signaling and CD4<sup>+</sup> T cell help to mediate cancer <i>in situ</i> vaccination.","authors":"Matthias Gromeier, Michael C Brown","doi":"10.1128/mmbr.00040-24","DOIUrl":"10.1128/mmbr.00040-24","url":null,"abstract":"<p><p>SUMMARYThere is overwhelming evidence that antitumor CD8<sup>+</sup> T cell responses can mediate effective tumor control. CD8<sup>+</sup> T cell responses are quintessential defensive measures directed against categorically intracellular pathogens. It is thus intuitively obvious that viruses hold unique potential to mediate cancer in situ vaccination, the process whereby endogenous immune responses are provoked to empower antitumor immunity. Numerous attenuated viruses have been derived from diverse virus families and tested as intratumor \"cancer virotherapies.\" However, the mechanistic understanding of how viruses mediate cancer in situ vaccination -including whether such attenuated viruses maintain the capacity to subvert antigen presentation and T cell priming, a common, defining feature of their wild-type precursors that may limit in situ vaccination, as well as the role of innate and adaptive antiviral immune responses in mediating overall therapy benefit-remains largely undefined. In this review, we provide a comprehensive overview of the molecular mechanisms, the unexpected benefit of profound attenuation, and the central role of both innate and adaptive antiviral immune responses in mediating polio virotherapy. In doing so, we aim to highlight the need for unraveling the enormous complexity and depth of virus:host interactions for devising rational strategies to leverage them for cancer immunotherapy.</p>","PeriodicalId":18520,"journal":{"name":"Microbiology and Molecular Biology Reviews","volume":" ","pages":"e0004024"},"PeriodicalIF":7.8,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12326335/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144584324","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Unraveling the complexities of neurotropic virus infection and immune evasion.","authors":"Abhishek Kumar Verma, Stanley Perlman","doi":"10.1128/mmbr.00185-23","DOIUrl":"10.1128/mmbr.00185-23","url":null,"abstract":"<p><p>SUMMARYNeurotropic viruses, a diverse group of pathogens targeting the central nervous system (CNS), utilize multiple mechanisms to invade this highly protected compartment. These include hematogenous spread, retrograde axonal transport, and Trojan horse strategies, enabling viral entry and dissemination. Once within the CNS, these viruses interact with resident immune cells such as microglia and astrocytes, triggering type I interferon responses critical for antiviral defense. However, neurotropic viruses employ immune evasion strategies, including inhibition of pattern recognition receptors (PRRs), suppression of interferon signaling, and disruption of antigen presentation pathways, allowing them to evade immune detection. These tactics facilitate their productive replication within the CNS and, in some cases, lead to persistent infections, often resulting in severe neurological consequences such as encephalitis and neuronal damage. This review explores these dynamic interactions and emphasizes future research needs, particularly in understanding virus-host interactions and developing targeted therapeutics to combat these pathogens effectively.</p>","PeriodicalId":18520,"journal":{"name":"Microbiology and Molecular Biology Reviews","volume":" ","pages":"e0018523"},"PeriodicalIF":7.8,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12462298/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144575842","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Irene Santamaria-Castro, Rocio Leiva-Rebollo, Sonia Marín-Wong, Jose M Jimenez-Guardeño, Ana Maria Ortega-Prieto
{"title":"Molecular mechanisms of SARS-CoV-2 entry: implications for biomedical strategies.","authors":"Irene Santamaria-Castro, Rocio Leiva-Rebollo, Sonia Marín-Wong, Jose M Jimenez-Guardeño, Ana Maria Ortega-Prieto","doi":"10.1128/mmbr.00260-24","DOIUrl":"10.1128/mmbr.00260-24","url":null,"abstract":"<p><p>SUMMARYThe mechanisms by which viruses enter host cells are crucial for their ability to infect and cause disease, serving as major targets for both host immune responses and therapeutic strategies. The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) entry process is primarily driven by the binding of the viral spike (S) protein to the angiotensin-converting enzyme 2 (ACE2) receptor, in conjunction with the activity of endosomal cathepsin L and the serine protease transmembrane protease serine 2 (TMPRSS2). Nevertheless, recent scientific advances have expanded our understanding of SARS-CoV-2 entry mechanisms, uncovering alternative receptors and novel cofactors that may enhance viral tropism and adaptability. Given the critical role of the SARS-CoV-2 S protein in mediating host cell entry, it has become a primary target for prevention and therapeutic strategies. However, the continuous spread of SARS-CoV-2 has led to the emergence of S protein variants that may potentially confer a fitness advantage or modify key aspects of SARS-CoV-2 biology, such as transmissibility, infectivity, antigenicity, and/or pathogenicity, posing significant challenges to the efficacy of current interventions. In this review, we provide an updated and comprehensive overview of the latest advances in SARS-CoV-2 entry pathways and molecular mechanisms, exploring their implications for antiviral drug discovery, vaccine design, and the development of other biomedical strategies while addressing the challenges posed by the ongoing evolution of the virus.</p>","PeriodicalId":18520,"journal":{"name":"Microbiology and Molecular Biology Reviews","volume":" ","pages":"e0026024"},"PeriodicalIF":7.8,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12462313/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144275322","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Jonas Govaerts, Charlotte Goethals, Elise Van Breedam, Catherine Sadzot-Delvaux, Peter Delputte, Benson Ogunjimi, Marielle Lebrun, Peter Ponsaerts
{"title":"Biological relevance of <i>in vitro</i> cellular models to study varicella-zoster virus-host cell interactome: current limitations and future perspectives.","authors":"Jonas Govaerts, Charlotte Goethals, Elise Van Breedam, Catherine Sadzot-Delvaux, Peter Delputte, Benson Ogunjimi, Marielle Lebrun, Peter Ponsaerts","doi":"10.1128/mmbr.00165-25","DOIUrl":"10.1128/mmbr.00165-25","url":null,"abstract":"<p><p>SUMMARYWith varicella-zoster virus (VZV) being a strictly human-specific pathogen, <i>in vitro</i> cell culture models to study the VZV-host cell interactome predominantly rely on the use of primary human cells, immortalized cell lines, and-more recently-stem cell-derived models. In this work, based on literature reports published within the past 15 years, we attempted to summarize major lessons learned from <i>in vitro</i> VZV research, with a specific focus on whether and how a variety of host cells respond upon VZV infection at the cellular level. Following this specific approach, we describe the cellular events occurring following VZV infection in a neural cell type context, an immune cell type context, and a skin cell type context. Highly relevant, and for sure subject to the development of future VZV research, cell types within each of the three compartments reviewed display similarities but also significant differences in cellular response to VZV infection. Clearly, these need further clarification on a cell-type and/or VZV strain-specific level. Finally, to increase physiological relevance, we propose an integrated approach for future VZV-host cell interactome studies on a systems level by using advanced human-induced pluripotent stem cell-derived skin, peripheral, and central nervous system compartments that can be complemented with an isogenic immune cell component. Combined with the implementation of state-of-the-art multi-omics analyses, as well as electrophysiological recordings, this next-generation toolbox for advanced virus-host cell interactome studies may help to elucidate important aspects of VZV biology, including the suggested link between VZV pathology and neurodegenerative diseases.</p>","PeriodicalId":18520,"journal":{"name":"Microbiology and Molecular Biology Reviews","volume":" ","pages":"e0016525"},"PeriodicalIF":7.8,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12462287/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144789547","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Luis M Corrochano, Gabriel Gutiérrez, María Corrochano-Luque, Antonio Franco-Cano, David Cánovas
{"title":"How fungi see the world: fungal photoreceptors and their role in the regulation of fungal biology.","authors":"Luis M Corrochano, Gabriel Gutiérrez, María Corrochano-Luque, Antonio Franco-Cano, David Cánovas","doi":"10.1128/mmbr.00149-22","DOIUrl":"10.1128/mmbr.00149-22","url":null,"abstract":"<p><p>SUMMARYFungi use light as a signal for the regulation of development, to guide the growth of reproductive structures, and to protect the fungal cell from DNA damage produced by light and UV radiation. Light perception requires the activity of photoreceptors that relay the light signal through transduction pathways into the cellular response. Fungi can see and react to a wide range of colors, but most fungi use blue light as their primary signal to regulate its photobiology. Examples of fungal perception of UV, green, and red light, like plants, have been documented and, in most cases, the photoreceptors responsible for these responses have been identified. Blue light is perceived through the activity of light-regulated transcription factors, the WC proteins, first identified in <i>Neurospora crassa</i>. Red light is perceived by phytochromes, a photoreceptor characterized in detail in <i>Aspergillus nidulans</i>. A novel type of rhodopsin, rhodopsin guanylyl cyclase (RGS) has been identified in the zoosporic fungus <i>Blastocladiella emersonii</i>. These types of photoreceptors, together with the blue-light photoreceptor cryptochrome, are widespread in fungi, suggesting that the ancestor of the fungi could see a wide range of colors. Gene duplication and specialization have allowed specific use of fungal photoreceptors in the regulation of fungal biology.</p>","PeriodicalId":18520,"journal":{"name":"Microbiology and Molecular Biology Reviews","volume":" ","pages":"e0014922"},"PeriodicalIF":7.8,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12462293/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144817106","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}