Nature Microbiology最新文献_第10页

Dysbiosis and succession in the scientific infobiome 科学信息群系的生态失调和演替。

IF 19.4 1区生物学

Nature Microbiology Pub Date : 2026-06-01 DOI: 10.1038/s41564-026-02366-8

Raven Baxter

引用次数: 0

A sulfated bile acid from microbes calms sepsis 微生物产生的硫酸化胆汁酸可以缓解败血症。

IF 19.4 1区生物学

Nature Microbiology Pub Date : 2026-05-28 DOI: 10.1038/s41564-026-02370-y

Hongyan Gao, Mohammad Arifuzzaman

引用次数: 0

Molecular basis of type VI secretion system effector loading VI型分泌系统效应物装载的分子基础。

IF 18.7 1区生物学

Nature Microbiology Pub Date : 2026-05-27 DOI: 10.1038/s41564-026-02363-x

Patricia Paracuellos, Ambre Bexter, Jonasz B. Patkowski, Steven D. Kelly, Oleksii Omelchenko, Kévin Macé, Aravindan Ilangovan, Sujatha Subramoni, John C. Whitney, Alain Filloux, Tiago R. D. Costa

{"title":"Molecular basis of type VI secretion system effector loading","authors":"Patricia Paracuellos, Ambre Bexter, Jonasz B. Patkowski, Steven D. Kelly, Oleksii Omelchenko, Kévin Macé, Aravindan Ilangovan, Sujatha Subramoni, John C. Whitney, Alain Filloux, Tiago R. D. Costa","doi":"10.1038/s41564-026-02363-x","DOIUrl":"10.1038/s41564-026-02363-x","url":null,"abstract":"Type VI secretion systems (T6SSs) are widespread bacterial nanomachines that deliver effectors into prokaryotic and eukaryotic cells. How an effector cargo is recruited and loaded into the Hcp ring assemblies that form the tube injected by the T6SS remains poorly understood. Pseudomonas aeruginosa has four T6SSs, each associated with a different Hcp protein. Here we use cryo-electron microscopy to resolve the structure of the Tce1 cargo loaded into a Hcp3 ring from the P. aeruginosa H3-T6SS. We show that a single Tce1 monomer interacts asymmetrically with, and is enclosed by, two hexameric Hcp3 rings, engaging key residues lining the inner surface of the Hcp3 disc. Our data indicate a stepwise loading mechanism, where an initial heterodimeric Hcp–cargo complex forms before ring encapsulation around the effector. Structural modelling suggests similar effector–Hcp3 interactions for a second T6SS effector, Tce2, which has antifungal activity. We propose that this mechanism enables coordinated delivery of a broad payload into target cells. Structural analysis reveals that the type VI secretion system effector cargo is enclosed within hexameric Hcp3 rings that form sequentially to enable effector loading and delivery by the Pseudomonas aeruginosa H3-type VI secretion system.","PeriodicalId":18992,"journal":{"name":"Nature Microbiology","volume":"11 7","pages":"1982-1994"},"PeriodicalIF":18.7,"publicationDate":"2026-05-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.nature.comhttps://www.nature.com/articles/s41564-026-02363-x.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148042967","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

Temperate phages enhance bacterial host fitness via RNA-guided flagellar remodelling 温带噬菌体通过rna引导鞭毛重塑增强细菌宿主适应性。

IF 18.7 1区生物学

Nature Microbiology Pub Date : 2026-05-27 DOI: 10.1038/s41564-026-02355-x

Matt W. G. Walker, Egill Richard, Tanner Wiegand, Jing Wang, Zaofeng Yang, Americo A. Casas-Ciniglio, Florian T. Hoffmann, Hamna Shahnawaz, Ryan G. Gaudet, Nicholas Arpaia, Israel S. Fernández, Samuel H. Sternberg

{"title":"Temperate phages enhance bacterial host fitness via RNA-guided flagellar remodelling","authors":"Matt W. G. Walker, Egill Richard, Tanner Wiegand, Jing Wang, Zaofeng Yang, Americo A. Casas-Ciniglio, Florian T. Hoffmann, Hamna Shahnawaz, Ryan G. Gaudet, Nicholas Arpaia, Israel S. Fernández, Samuel H. Sternberg","doi":"10.1038/s41564-026-02355-x","DOIUrl":"10.1038/s41564-026-02355-x","url":null,"abstract":"Bacterial flagella drive motility and play crucial roles in host–pathogen interactions, as flagellin is recognized by the mammalian immune system and flagellotropic bacteriophages. We recently discovered a family of phage-encoded, RNA-guided transcription factors called TldR that regulate flagellin expression, but the importance of this regulation to host fitness was unclear. Here we use a human clinical Enterobacter isolate encoding a Flagellin Remodeling prophage (FRφ) to show that FRφ exploits TldR and its flagellin isoform to alter the flagellar composition and phenotypic properties of its host. This transformation enhances bacterial motility and mammalian immune evasion, and cryo-EM structures reveal distinct flagellin architectures underlying physiological changes. FRφ also improves colonization in the murine gut, illustrating the beneficial effect of prophage-mediated flagellar remodelling in a host-associated environment. Collectively, our results reveal how RNA-guided transcription factors emerged in a parallel evolutionary path to CRISPR-Cas and were co-opted by phages to remodel the flagellar apparatus and enhance host fitness. The prophage of a clinical Enterobacter isolate uses an RNA-guided transcription factor to alter flagellar composition, leading to enhanced bacterial motility and improved gut colonization in a mouse model.","PeriodicalId":18992,"journal":{"name":"Nature Microbiology","volume":"11 7","pages":"1815-1832"},"PeriodicalIF":18.7,"publicationDate":"2026-05-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148042977","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

Advocating for return-of-results to participants in microbiome research 提倡将结果反馈给微生物组研究的参与者。

IF 19.4 1区生物学

Nature Microbiology Pub Date : 2026-05-27 DOI: 10.1038/s41564-026-02372-w

Luicer Olubayo, Scott Hazelhurst

引用次数: 0

A deep mutational scanning-informed protein language model predicts SARS-CoV-2 evolution dynamics with spatiotemporal resolution 基于深度突变扫描的蛋白质语言模型预测SARS-CoV-2的时空分辨率进化动态

IF 18.7 1区生物学

Nature Microbiology Pub Date : 2026-05-27 DOI: 10.1038/s41564-026-02377-5

Sijie Yang, Xiaowei Luo, Jiejian Luo, Fanchong Jian, Yunlong Cao

{"title":"A deep mutational scanning-informed protein language model predicts SARS-CoV-2 evolution dynamics with spatiotemporal resolution","authors":"Sijie Yang, Xiaowei Luo, Jiejian Luo, Fanchong Jian, Yunlong Cao","doi":"10.1038/s41564-026-02377-5","DOIUrl":"10.1038/s41564-026-02377-5","url":null,"abstract":"Early identification of emerging dominant variants of pathogens such as SARS-CoV-2 is important for effective public health responses, yet existing approaches are not feasible for real-time surveillance. Here we introduce DeepCoV (DMS-Empowered Evolution Prediction of CoronaVirus), a deep-learning framework for the dynamic identification of emerging variants with high potential to become prevalent at spatiotemporal resolution. It integrates deep mutational scanning (DMS)-derived mutation phenotypes, evolutionary sequence data and epidemiological surveillance data reflecting human immune pressures. Benchmarked against logistic regression-based methods and representative deep-learning approaches in simulated retrospective surveillance scenarios, DeepCoV accurately forecasts the dominance of recently circulating lineages a month in advance, achieving a 90% reduction in false discovery rate while capturing temporal and geographic dynamics of variant spread and reconstructing their regional prevalence trajectories. It also identified mutational hotspots of Omicron-derived backbones in silico, revealing convergent evolution trends. This provides a scalable framework for timely identification of immune-evasive variants and critical mutations, providing actionable insights. By integrating DMS profiles, evolutionary trajectories and epidemiological data, a deep-learning framework enables the spatiotemporal prediction of emerging dominant SARS-CoV-2 variants.","PeriodicalId":18992,"journal":{"name":"Nature Microbiology","volume":"11 7","pages":"1850-1863"},"PeriodicalIF":18.7,"publicationDate":"2026-05-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148042715","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

Wall teichoic acids regulate peptidoglycan synthesis to maintain rod shape in Bacillus subtilis 壁壁磷壁酸调节肽聚糖合成以维持枯草芽孢杆菌的棒状。

IF 18.7 1区生物学

Nature Microbiology Pub Date : 2026-05-26 DOI: 10.1038/s41564-026-02368-6

Felix Barber, Zarina Akbary, Zhe Yuan, Jacob Biboy, Waldemar Vollmer, Enrique R. Rojas

{"title":"Wall teichoic acids regulate peptidoglycan synthesis to maintain rod shape in Bacillus subtilis","authors":"Felix Barber, Zarina Akbary, Zhe Yuan, Jacob Biboy, Waldemar Vollmer, Enrique R. Rojas","doi":"10.1038/s41564-026-02368-6","DOIUrl":"10.1038/s41564-026-02368-6","url":null,"abstract":"Rod-shaped bacteria such as Bacillus subtilis achieve their shape by using Rod complexes to synthesize anisotropic peptidoglycan and by limiting isotropic peptidoglycan synthesis by PBP1. Wall teichoic acids are also required for rod shape, but their role is unclear. Here we use single-cell microfluidics and microscopy to show that wall teichoic acids promote rod shape by preventing the formation of nanoscopic pores in the B. subtilis cell wall. Wall teichoic acid depletion led to pore formation within minutes, coinciding with a rapid increase in PBP1-mediated peptidoglycan synthesis, which became essential for growth, and transient arrest of Rod complexes before the onset of amorphous growth. A synthetically lethal cell wall hydrolase, LytE, also became essential during wall teichoic acid depletion, meaning that PBP1 and LytE cooperatively execute amorphous growth in the absence of teichoic acids. Our results show that wall teichoic acids maintain cell shape by preventing cell wall pore formation, thereby promoting Rod complex activity and preventing PBP1 activity. Wall teichoic acids confer rod shape in the Gram-positive model organism Bacillus subtilis by occluding pores in the cell wall, thereby preventing runaway isotropic (non-oriented) peptidoglycan synthesis.","PeriodicalId":18992,"journal":{"name":"Nature Microbiology","volume":"11 7","pages":"1893-1906"},"PeriodicalIF":18.7,"publicationDate":"2026-05-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.nature.comhttps://www.nature.com/articles/s41564-026-02368-6.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148033072","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

Lysosomal cholesterol overload impairs the innate–adaptive immune axis in tuberculosis granulomas 溶酶体胆固醇超载损害结核肉芽肿的先天适应性免疫轴。

IF 19.4 1区生物学

Nature Microbiology Pub Date : 2026-05-26 DOI: 10.1038/s41564-026-02367-7

Andrew T. Roth, Jennifer A. Philips

引用次数: 0

You talkin’ to me? 你在跟我说话？

IF 19.4 1区生物学

Nature Microbiology Pub Date : 2026-05-26 DOI: 10.1038/s41564-026-02348-w

Luis Quevedo

引用次数: 0

CRISPRi screening reveals essential fungal vulnerabilities CRISPRi筛选揭示了重要的真菌脆弱性。