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Trends in Microbiology最新文献

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Coarse-grained resource allocation modeling for decoding and rewiring microbial metabolism. 解码和重新布线微生物代谢的粗粒度资源分配建模。
IF 18.7 1区 生物学
Trends in Microbiology Pub Date : 2026-10-01 Epub Date: 2026-08-21 DOI: 10.1016/j.tim.2026.07.011
Yi-Hui Lai, Ting Lu
{"title":"Coarse-grained resource allocation modeling for decoding and rewiring microbial metabolism.","authors":"Yi-Hui Lai, Ting Lu","doi":"10.1016/j.tim.2026.07.011","DOIUrl":"10.1016/j.tim.2026.07.011","url":null,"abstract":"<p><p>Microbial metabolism is a complex, emergent system driven by the coordinated interplay of intricate and dynamic molecular processes. To elucidate cellular behavior and enable biotechnological applications, quantitative models that address the inherent complexity of metabolism have been developed from a resource allocation perspective. Here, we synthesize recent advances in coarse-grained resource allocation frameworks and their applications in understanding microbial physiology and guiding gene circuit design. These frameworks reveal global regulatory constraints and predict cellular adaptation to nutrient and environmental changes. In addition, they enable the quantification of metabolic costs, the dissection of circuit-host interactions, and the development of strategies for burden mitigation. Collectively, these modeling frameworks provide a powerful platform for uncovering quantitative principles of microbial growth and engineering robust synthetic biological systems.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"1124-1136"},"PeriodicalIF":18.7,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13555788/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148798331","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}
引用次数: 0
Ehrlichia chaffeensis. Ehrlichia chaffeensis .
IF 18.7 1区 生物学
Trends in Microbiology Pub Date : 2026-10-01 Epub Date: 2026-02-04 DOI: 10.1016/j.tim.2025.12.009
Sezayi Ozubek, Huitao Liu, Roman Ganta
{"title":"Ehrlichia chaffeensis.","authors":"Sezayi Ozubek, Huitao Liu, Roman Ganta","doi":"10.1016/j.tim.2025.12.009","DOIUrl":"10.1016/j.tim.2025.12.009","url":null,"abstract":"","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"1137-1138"},"PeriodicalIF":18.7,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13186323/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146126624","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}
引用次数: 0
Mechanisms of key gut microbial metabolites: SCFAs, BAs, and TDMs. 关键肠道微生物代谢物的机制：SCFAs、BAs和tdm。
IF 18.7 1区 生物学
Trends in Microbiology Pub Date : 2026-10-01 Epub Date: 2026-08-13 DOI: 10.1016/j.tim.2026.07.005
Lan Mu, Gordon Y S Choi, Thomas C A Hitch, Kwok M Ho, Matthew T V Chan, William K K Wu, Huarong Chen
{"title":"Mechanisms of key gut microbial metabolites: SCFAs, BAs, and TDMs.","authors":"Lan Mu, Gordon Y S Choi, Thomas C A Hitch, Kwok M Ho, Matthew T V Chan, William K K Wu, Huarong Chen","doi":"10.1016/j.tim.2026.07.005","DOIUrl":"10.1016/j.tim.2026.07.005","url":null,"abstract":"<p><p>Gut microbial metabolites, particularly short-chain fatty acids (SCFAs), bile acid (BAs) derivatives, and tryptophan-derived metabolites (TDMs), act as signaling molecules, receptor ligands, and epigenetic modulators in regulating host metabolic and immune homeostasis. They exert local effects in the gut and reach distant tissues via hepatic, lymphatic, neural, and immune-hormonal routes, thereby regulating immunity, metabolism, and neural function. Disruptions in these pathways are associated with inflammatory diseases, neurodegeneration, and cancer. This review discusses the importance of SCFAs, BAs, and TDMs in different host metabolic and immunological contexts, dissects their molecular mechanisms of action on target cells, evaluates the therapeutic implications of targeting these microbial pathways, and outlines a roadmap for possible future clinical translations.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"1066-1079"},"PeriodicalIF":18.7,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148726824","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}
引用次数: 0
The who, how, and when of mother-infant microbial sharing. 母婴微生物共享的对象、方式和时间。
IF 18.7 1区 生物学
Trends in Microbiology Pub Date : 2026-10-01 Epub Date: 2026-09-21 DOI: 10.1016/j.tim.2026.07.015
Phoebe Crossley, Conor Feehily
{"title":"The who, how, and when of mother-infant microbial sharing.","authors":"Phoebe Crossley, Conor Feehily","doi":"10.1016/j.tim.2026.07.015","DOIUrl":"10.1016/j.tim.2026.07.015","url":null,"abstract":"<p><p>The establishment of the infant gut microbiome is strongly linked to health outcomes throughout life. Recently, Mueller et al. reported that the majority of strains shared between a mother and an infant are gut-derived, as opposed to vaginally derived, and strain sharing could be observed into the second year of life.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"1019-1021"},"PeriodicalIF":18.7,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149017991","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}
引用次数: 0
Wetland virus exposes blind spots in orthonairovirus pathogenesis. 湿地病毒暴露了原鼻病毒发病机制的盲点。
IF 18.7 1区 生物学
Trends in Microbiology Pub Date : 2026-10-01 Epub Date: 2026-09-17 DOI: 10.1016/j.tim.2026.09.001
Jian-Wei Shao, Xue-Lian Zhang, Xin Yin
{"title":"Wetland virus exposes blind spots in orthonairovirus pathogenesis.","authors":"Jian-Wei Shao, Xue-Lian Zhang, Xin Yin","doi":"10.1016/j.tim.2026.09.001","DOIUrl":"10.1016/j.tim.2026.09.001","url":null,"abstract":"<p><p>Newly recognized human-associated orthonairoviruses are emerging across East Asia, yet their pathogenic mechanisms remain poorly defined. Wang et al. reveal how Wetland virus converges on caspase-3-gasdermin E pyroptosis and fatty acid synthase-dependent hepatic lipid accumulation, linking cell death to metabolic injury and exposing major gaps in pathogenesis and host-directed therapy.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"1022-1024"},"PeriodicalIF":18.7,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148991496","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}
引用次数: 0
LpxC activity regulation: An emerging paradigm for controlling lipopolysaccharide synthesis. LpxC活性调节：一种控制脂多糖合成的新模式。
IF 18.7 1区 生物学
Trends in Microbiology Pub Date : 2026-10-01 Epub Date: 2026-06-03 DOI: 10.1016/j.tim.2026.05.009
Rajkanwar Nathawat, Chang Liu, Wei Mi
{"title":"LpxC activity regulation: An emerging paradigm for controlling lipopolysaccharide synthesis.","authors":"Rajkanwar Nathawat, Chang Liu, Wei Mi","doi":"10.1016/j.tim.2026.05.009","DOIUrl":"10.1016/j.tim.2026.05.009","url":null,"abstract":"<p><p>Lipopolysaccharide (LPS) levels in Gram-negative bacteria are primarily controlled by LpxC, a deacetylase catalyzing the committed step of LPS synthesis. Studies of LPS regulation have long focused on controlling LpxC abundance. However, recent findings on the allosteric regulation of LpxC activity suggest a broader framework for LPS synthesis control.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"1034-1038"},"PeriodicalIF":18.7,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13240662/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148158311","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}
引用次数: 0
Engineering quorum sensing: new directions for antimicrobial therapy. 工程群体感应：抗菌治疗的新方向。
IF 18.7 1区 生物学
Trends in Microbiology Pub Date : 2026-10-01 Epub Date: 2026-05-26 DOI: 10.1016/j.tim.2026.05.006
Elisabeth Urbauer, Alexander Gräwe, Alexandre Chamas, Kai Papenfort
{"title":"Engineering quorum sensing: new directions for antimicrobial therapy.","authors":"Elisabeth Urbauer, Alexander Gräwe, Alexandre Chamas, Kai Papenfort","doi":"10.1016/j.tim.2026.05.006","DOIUrl":"10.1016/j.tim.2026.05.006","url":null,"abstract":"<p><p>Quorum sensing (QS) is a cell-cell communication mechanism that enables bacteria to coordinate gene expression in response to population density and community composition. In many pathogens, QS plays a central role in host colonization and virulence, making it an attractive target for antimicrobial intervention. Synthetic biology offers powerful tools to exploit this vulnerability by either disrupting QS signaling or engineering microorganisms with QS-based circuits to detect and eliminate pathogens. In this review, we examine how QS and QS interference can be harnessed for QS circuit engineering and translated into applications such as therapeutic microorganisms. We also highlight the transition of QS research from fundamental microbiology to translational biotechnology, underscoring its potential to drive innovative strategies against microbial virulence and antimicrobial resistance.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"1095-1108"},"PeriodicalIF":18.7,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148017520","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}
引用次数: 0
Anaerobic lignin deconstruction: A game changer for lignocellulosic biorefineries. 厌氧木质素分解：木质纤维素生物炼制的游戏规则改变者。
IF 18.7 1区 生物学
Trends in Microbiology Pub Date : 2026-10-01 Epub Date: 2026-06-12 DOI: 10.1016/j.tim.2026.05.015
Sachin Krushna Bhujbal, Abhishek Baghela
{"title":"Anaerobic lignin deconstruction: A game changer for lignocellulosic biorefineries.","authors":"Sachin Krushna Bhujbal, Abhishek Baghela","doi":"10.1016/j.tim.2026.05.015","DOIUrl":"10.1016/j.tim.2026.05.015","url":null,"abstract":"<p><p>Anaerobic microorganisms facilitate native lignin deconstruction via targeted cleavage of interunit linkages (e.g., β-O-4 bonds), selective lignin side-chain modification, and removal of lignin-carbohydrate crosslinks (e.g., ferulate ester cleavage). We discuss emerging mechanisms and their potential to advance lignocellulosic biorefineries through synthetic microbial consortia and consolidated bioprocessing strategies.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"1029-1033"},"PeriodicalIF":18.7,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148240399","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}
引用次数: 0
Beyond AMGs: Phage-encoded transcription and sigma factors as understudied virocell reprogramming tools. 超越AMGs：噬菌体编码转录和sigma因子作为未充分研究的病毒细胞重编程工具。
IF 18.7 1区 生物学
Trends in Microbiology Pub Date : 2026-10-01 Epub Date: 2026-06-19 DOI: 10.1016/j.tim.2026.05.019
Marion Urvoy, Leo Baumgart, Cristina Howard-Varona, Matthew B Sullivan
{"title":"Beyond AMGs: Phage-encoded transcription and sigma factors as understudied virocell reprogramming tools.","authors":"Marion Urvoy, Leo Baumgart, Cristina Howard-Varona, Matthew B Sullivan","doi":"10.1016/j.tim.2026.05.019","DOIUrl":"10.1016/j.tim.2026.05.019","url":null,"abstract":"<p><p>Phages, the most abundant biological entities on Earth, infect bacteria and reprogram them into 'virocells' with altered physiology and ecology. While metagenomic studies have largely inferred reprogramming through virus-encoded auxiliary metabolic genes (AMGs), phages can reprogram cells through many other tools. In this review, we explore how phage-encoded, host-acting transcription and sigma factors (TSFs) reshape host transcriptional networks beyond simply regulating phage replication. We synthesize emerging genomic evidence for TSF prevalence in phages, mechanistic insights into how host-acting TSFs might influence ecologically relevant cellular functions, and highlight recent experimental and bioinformatic advances that make TSFs particularly tractable for large-scale bioinformatic studies. Together, we position TSFs as AMG-complementary mechanisms of viral reprogramming, tractable for metagenomic inferences, with potential cellular- and ecosystem-level consequences that can power translational applications.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"1109-1123"},"PeriodicalIF":18.7,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148278841","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}
引用次数: 0
Microbial methane oxidation in aerated subterranean ecosystems: an upscaling and intervention framework for climate change mitigation. 曝气地下生态系统中的微生物甲烷氧化：减缓气候变化的升级和干预框架。
IF 18.7 1区 生物学
Trends in Microbiology Pub Date : 2026-10-01 Epub Date: 2026-08-19 DOI: 10.1016/j.tim.2026.07.006
Sean K Bay, Paul Reginato, Astrid K M Stubbusch, Sam Abernethy, Pok Man Leung
{"title":"Microbial methane oxidation in aerated subterranean ecosystems: an upscaling and intervention framework for climate change mitigation.","authors":"Sean K Bay, Paul Reginato, Astrid K M Stubbusch, Sam Abernethy, Pok Man Leung","doi":"10.1016/j.tim.2026.07.006","DOIUrl":"10.1016/j.tim.2026.07.006","url":null,"abstract":"<p><p>Aerated subterranean ecosystems are emerging as globally widespread yet understudied sinks for atmospheric greenhouse gases (GHGs), especially methane. Subterranean GHG cycling is driven by atmospheric exchange between the surface and subsurface, and by uptake by aerotrophic bacteria inhabiting cave surfaces. Despite growing evidence for these novel biogeochemical processes, aerated subterranean ecosystems remain largely omitted from Earth system models, GHG budgets, ecosystem service valuations, and climate change mitigation efforts. Here, we synthesise the current understanding of the subterranean microbial methane sink and provide a framework for upscaling uptake based on ventilation and biological determinants. We propose that enhanced subterranean aerotrophy could provide a novel pathway for atmospheric methane removal by leveraging caves and cave proxies as passive methane biofilters. We speculate that decommissioned mines might provide a similar opportunity. Based on this mechanistic understanding, we discuss key uncertainties and outline a research agenda to direct future research on subterranean ecosystems as a new potential lever for climate change mitigation.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"1039-1051"},"PeriodicalIF":18.7,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148798314","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}
引用次数: 0
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