Pub Date : 2024-05-21DOI: 10.1038/s41579-024-01063-9
Andrea Du Toit
This study reports the mechanism of plasmid clearance by the DNA defence module DdmDE of the Vibrio cholerae seventh pandemic strain.
本研究报告了霍乱弧菌第七流行株 DNA 防御模块 DdmDE 清除质粒的机制。
{"title":"Defending against plasmids","authors":"Andrea Du Toit","doi":"10.1038/s41579-024-01063-9","DOIUrl":"10.1038/s41579-024-01063-9","url":null,"abstract":"This study reports the mechanism of plasmid clearance by the DNA defence module DdmDE of the Vibrio cholerae seventh pandemic strain.","PeriodicalId":18838,"journal":{"name":"Nature Reviews Microbiology","volume":"22 7","pages":"387-387"},"PeriodicalIF":88.1,"publicationDate":"2024-05-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141074177","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}
Pub Date : 2024-05-20DOI: 10.1038/s41579-024-01060-y
Carrie L. Shaffer
In this Journal Club, Carrie Shaffer discusses a study revealing that infection with CagA-positive Helicobacter pylori strains is associated with an increased risk of developing stomach adenocarcinoma.
{"title":"Discovering molecular paradigms of microbial carcinogenesis","authors":"Carrie L. Shaffer","doi":"10.1038/s41579-024-01060-y","DOIUrl":"10.1038/s41579-024-01060-y","url":null,"abstract":"In this Journal Club, Carrie Shaffer discusses a study revealing that infection with CagA-positive Helicobacter pylori strains is associated with an increased risk of developing stomach adenocarcinoma.","PeriodicalId":18838,"journal":{"name":"Nature Reviews Microbiology","volume":"22 7","pages":"389-389"},"PeriodicalIF":88.1,"publicationDate":"2024-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141069443","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}
Pub Date : 2024-05-20DOI: 10.1038/s41579-024-01059-5
Yi Shi
In this Journal Club, Yi Shi discusses a paper reporting that influenza virus infection in humans induces broadly cross-reactive and protective antibodies against the viral neuraminidase.
在本期 "期刊俱乐部 "中，Yi Shi 讨论了一篇报告人类感染流感病毒后会诱导针对病毒神经氨酸酶的广泛交叉反应性和保护性抗体的论文。
{"title":"Breaking through the concept barrier to develop broad-spectrum antiviral counter-measures","authors":"Yi Shi","doi":"10.1038/s41579-024-01059-5","DOIUrl":"10.1038/s41579-024-01059-5","url":null,"abstract":"In this Journal Club, Yi Shi discusses a paper reporting that influenza virus infection in humans induces broadly cross-reactive and protective antibodies against the viral neuraminidase.","PeriodicalId":18838,"journal":{"name":"Nature Reviews Microbiology","volume":"22 8","pages":"457-457"},"PeriodicalIF":69.2,"publicationDate":"2024-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141069445","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}
Pub Date : 2024-05-20DOI: 10.1038/s41579-024-01061-x
Agustina Taglialegna
This study by Chen et al. reveals that a high-fat diet leads to a predominance of Desulfovibrio species in the gut, correlating with a poor prognosis of breast cancer.
Chen 等人的这项研究表明，高脂肪饮食会导致肠道中的脱硫弧菌占优势，这与乳腺癌的不良预后有关。
{"title":"Fat, Desulfovibrio and cancer","authors":"Agustina Taglialegna","doi":"10.1038/s41579-024-01061-x","DOIUrl":"10.1038/s41579-024-01061-x","url":null,"abstract":"This study by Chen et al. reveals that a high-fat diet leads to a predominance of Desulfovibrio species in the gut, correlating with a poor prognosis of breast cancer.","PeriodicalId":18838,"journal":{"name":"Nature Reviews Microbiology","volume":"22 7","pages":"388-388"},"PeriodicalIF":88.1,"publicationDate":"2024-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141069482","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}
Pub Date : 2024-05-16DOI: 10.1038/s41579-024-01057-7
Lia Bote, Mailis Maes
This Genome Watch article discusses the application of sequencing methods for monitoring the rise of infectious diseases associated with climate change.
基因组观察》的这篇文章讨论了测序方法在监测与气候变化相关的传染病增加方面的应用。
{"title":"Tracking pathogen evolution through climate change","authors":"Lia Bote, Mailis Maes","doi":"10.1038/s41579-024-01057-7","DOIUrl":"10.1038/s41579-024-01057-7","url":null,"abstract":"This Genome Watch article discusses the application of sequencing methods for monitoring the rise of infectious diseases associated with climate change.","PeriodicalId":18838,"journal":{"name":"Nature Reviews Microbiology","volume":"22 7","pages":"390-390"},"PeriodicalIF":88.1,"publicationDate":"2024-05-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140949393","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}
Pub Date : 2024-05-15DOI: 10.1038/s41579-024-01056-8
Andrea Du Toit
This study shows how two umbravirus-like viruses induce systemic infection in the plant host in the absence of virus-encoded movement proteins.
这项研究展示了两种伞形病毒样病毒如何在没有病毒编码的运动蛋白的情况下诱导植物宿主发生系统性感染。
{"title":"Viruses on the move","authors":"Andrea Du Toit","doi":"10.1038/s41579-024-01056-8","DOIUrl":"10.1038/s41579-024-01056-8","url":null,"abstract":"This study shows how two umbravirus-like viruses induce systemic infection in the plant host in the absence of virus-encoded movement proteins.","PeriodicalId":18838,"journal":{"name":"Nature Reviews Microbiology","volume":"22 7","pages":"388-388"},"PeriodicalIF":88.1,"publicationDate":"2024-05-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140945514","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}
Pub Date : 2024-05-10DOI: 10.1038/s41579-024-01045-x
Ivan Sugrue, R. Paul Ross, Colin Hill
Bacteriocins are potent antimicrobial peptides that are produced by bacteria. Since their discovery almost a century ago, diverse peptides have been discovered and described, and some are currently used as commercial food preservatives. Many bacteriocins exhibit extensively post-translationally modified structures encoded on complex gene clusters, whereas others have simple linear structures. The molecular structures, mechanisms of action and resistance have been determined for a number of bacteriocins, but most remain incompletely characterized. These gene-encoded peptides are amenable to bioengineering strategies and heterologous expression, enabling metagenomic mining and modification of novel antimicrobials. The ongoing global antimicrobial resistance crisis demands that novel therapeutics be developed to combat infectious pathogens. New compounds that are target-specific and compatible with the resident microbiota would be valuable alternatives to current antimicrobials. As bacteriocins can be broad or narrow spectrum in nature, they are promising tools for this purpose. However, few bacteriocins have gone beyond preclinical trials and none is currently used therapeutically in humans. In this Review, we explore the broad diversity in bacteriocin structure and function, describe identification and optimization methods and discuss the reasons behind the lack of translation beyond the laboratory of these potentially valuable antimicrobials. In this Review, Sugrue, Ross and Hill explore recent developments in bacteriocin research, including new discoveries and bioengineering approaches for improved activity, and discuss their application in microbiome modulation and clinical potential.
{"title":"Bacteriocin diversity, function, discovery and application as antimicrobials","authors":"Ivan Sugrue, R. Paul Ross, Colin Hill","doi":"10.1038/s41579-024-01045-x","DOIUrl":"10.1038/s41579-024-01045-x","url":null,"abstract":"Bacteriocins are potent antimicrobial peptides that are produced by bacteria. Since their discovery almost a century ago, diverse peptides have been discovered and described, and some are currently used as commercial food preservatives. Many bacteriocins exhibit extensively post-translationally modified structures encoded on complex gene clusters, whereas others have simple linear structures. The molecular structures, mechanisms of action and resistance have been determined for a number of bacteriocins, but most remain incompletely characterized. These gene-encoded peptides are amenable to bioengineering strategies and heterologous expression, enabling metagenomic mining and modification of novel antimicrobials. The ongoing global antimicrobial resistance crisis demands that novel therapeutics be developed to combat infectious pathogens. New compounds that are target-specific and compatible with the resident microbiota would be valuable alternatives to current antimicrobials. As bacteriocins can be broad or narrow spectrum in nature, they are promising tools for this purpose. However, few bacteriocins have gone beyond preclinical trials and none is currently used therapeutically in humans. In this Review, we explore the broad diversity in bacteriocin structure and function, describe identification and optimization methods and discuss the reasons behind the lack of translation beyond the laboratory of these potentially valuable antimicrobials. In this Review, Sugrue, Ross and Hill explore recent developments in bacteriocin research, including new discoveries and bioengineering approaches for improved activity, and discuss their application in microbiome modulation and clinical potential.","PeriodicalId":18838,"journal":{"name":"Nature Reviews Microbiology","volume":"22 9","pages":"556-571"},"PeriodicalIF":69.2,"publicationDate":"2024-05-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140903144","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}
Pub Date : 2024-05-10DOI: 10.1038/s41579-024-01055-9
Agustina Taglialegna
In this study, Zhang et al. report that a bacterial symbiont residing in the gut of Aedes albopictus mosquitoes protects them from flavivirus infection.
在这项研究中，Zhang 等人报告说，白纹伊蚊肠道中的一种细菌共生体能保护它们免受黄病毒感染。
{"title":"A mosquito symbiont controls flaviviruses","authors":"Agustina Taglialegna","doi":"10.1038/s41579-024-01055-9","DOIUrl":"10.1038/s41579-024-01055-9","url":null,"abstract":"In this study, Zhang et al. report that a bacterial symbiont residing in the gut of Aedes albopictus mosquitoes protects them from flavivirus infection.","PeriodicalId":18838,"journal":{"name":"Nature Reviews Microbiology","volume":"22 7","pages":"387-387"},"PeriodicalIF":88.1,"publicationDate":"2024-05-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140903046","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}
Pub Date : 2024-04-30DOI: 10.1038/s41579-024-01041-1
Matthew J. Shepherd, Taoran Fu, Niamh E. Harrington, Anastasia Kottara, Kendall Cagney, James D. Chalmers, Steve Paterson, Joanne L. Fothergill, Michael A. Brockhurst
The ecological and evolutionary mechanisms of antimicrobial resistance (AMR) emergence within patients and how these vary across bacterial infections are poorly understood. Increasingly widespread use of pathogen genome sequencing in the clinic enables a deeper understanding of these processes. In this Review, we explore the clinical evidence to support four major mechanisms of within-patient AMR emergence in bacteria: spontaneous resistance mutations; in situ horizontal gene transfer of resistance genes; selection of pre-existing resistance; and immigration of resistant lineages. Within-patient AMR emergence occurs across a wide range of host niches and bacterial species, but the importance of each mechanism varies between bacterial species and infection sites within the body. We identify potential drivers of such differences and discuss how ecological and evolutionary analysis could be embedded within clinical trials of antimicrobials, which are powerful but underused tools for understanding why these mechanisms vary between pathogens, infections and individuals. Ultimately, improving understanding of how host niche, bacterial species and antibiotic mode of action combine to govern the ecological and evolutionary mechanism of AMR emergence in patients will enable more predictive and personalized diagnosis and antimicrobial therapies. In this Review, Shepherd, Brockhurst and colleagues explore the clinical evidence in support of four major ecological and evolutionary mechanisms of within-patient antimicrobial resistance emergence in bacteria, and how host niche, bacterial species and antibiotic mode of action combine to govern these mechanisms.
人们对抗菌药耐药性（AMR）在患者体内产生的生态和进化机制以及这些机制在不同细菌感染中的差异知之甚少。病原体基因组测序技术在临床中的应用日益广泛，使我们能够更深入地了解这些过程。在本综述中，我们将探讨临床证据支持细菌在患者体内出现抗药性的四种主要机制：自发抗药性突变；抗药性基因的原位水平基因转移；原有抗药性的选择；以及抗药性菌系的迁移。患者体内的 AMR 出现在多种宿主生态位和细菌种类中，但每种机制的重要性因细菌种类和体内感染部位而异。我们确定了这种差异的潜在驱动因素，并讨论了如何将生态和进化分析嵌入抗菌药物临床试验中，这些试验是了解这些机制为何在病原体、感染和个体之间存在差异的有力工具，但却未得到充分利用。最终，如果能更好地了解宿主生态位、细菌种类和抗生素作用模式如何共同作用于患者体内 AMR 出现的生态和进化机制，就能实现更具预测性和个性化的诊断和抗菌疗法。
{"title":"Ecological and evolutionary mechanisms driving within-patient emergence of antimicrobial resistance","authors":"Matthew J. Shepherd, Taoran Fu, Niamh E. Harrington, Anastasia Kottara, Kendall Cagney, James D. Chalmers, Steve Paterson, Joanne L. Fothergill, Michael A. Brockhurst","doi":"10.1038/s41579-024-01041-1","DOIUrl":"10.1038/s41579-024-01041-1","url":null,"abstract":"The ecological and evolutionary mechanisms of antimicrobial resistance (AMR) emergence within patients and how these vary across bacterial infections are poorly understood. Increasingly widespread use of pathogen genome sequencing in the clinic enables a deeper understanding of these processes. In this Review, we explore the clinical evidence to support four major mechanisms of within-patient AMR emergence in bacteria: spontaneous resistance mutations; in situ horizontal gene transfer of resistance genes; selection of pre-existing resistance; and immigration of resistant lineages. Within-patient AMR emergence occurs across a wide range of host niches and bacterial species, but the importance of each mechanism varies between bacterial species and infection sites within the body. We identify potential drivers of such differences and discuss how ecological and evolutionary analysis could be embedded within clinical trials of antimicrobials, which are powerful but underused tools for understanding why these mechanisms vary between pathogens, infections and individuals. Ultimately, improving understanding of how host niche, bacterial species and antibiotic mode of action combine to govern the ecological and evolutionary mechanism of AMR emergence in patients will enable more predictive and personalized diagnosis and antimicrobial therapies. In this Review, Shepherd, Brockhurst and colleagues explore the clinical evidence in support of four major ecological and evolutionary mechanisms of within-patient antimicrobial resistance emergence in bacteria, and how host niche, bacterial species and antibiotic mode of action combine to govern these mechanisms.","PeriodicalId":18838,"journal":{"name":"Nature Reviews Microbiology","volume":"22 10","pages":"650-665"},"PeriodicalIF":69.2,"publicationDate":"2024-04-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140817851","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}
Pub Date : 2024-04-24DOI: 10.1038/s41579-024-01053-x
Ashley York
A recent study reports the existence of a nitrogen-fixing organelle called the ‘nitroplast’.
最近的一项研究报告了一种名为 "硝基细胞 "的固氮细胞器的存在。
{"title":"Nitroplast organelle unveiled","authors":"Ashley York","doi":"10.1038/s41579-024-01053-x","DOIUrl":"10.1038/s41579-024-01053-x","url":null,"abstract":"A recent study reports the existence of a nitrogen-fixing organelle called the ‘nitroplast’.","PeriodicalId":18838,"journal":{"name":"Nature Reviews Microbiology","volume":"22 6","pages":"323-323"},"PeriodicalIF":88.1,"publicationDate":"2024-04-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140639810","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}
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