FEMS microbiology reviews最新文献_第5页

Exposing the small protein load of bacterial life. 暴露细菌生命的小蛋白质负荷。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-11-01 DOI: 10.1093/femsre/fuad063

Laure Simoens, Igor Fijalkowski, Petra Van Damme

引用次数: 0

Chromosome structure and DNA replication dynamics during the life cycle of the predatory bacterium Bdellovibrio bacteriovorus. 捕食性细菌食杆菌生命周期中的染色体结构和DNA复制动力学。

IF 10.1 2区生物学

FEMS microbiology reviews Pub Date : 2023-11-01 DOI: 10.1093/femsre/fuad057

Karolina Pląskowska, Jolanta Zakrzewska-Czerwińska

{"title":"Chromosome structure and DNA replication dynamics during the life cycle of the predatory bacterium Bdellovibrio bacteriovorus.","authors":"Karolina Pląskowska, Jolanta Zakrzewska-Czerwińska","doi":"10.1093/femsre/fuad057","DOIUrl":"10.1093/femsre/fuad057","url":null,"abstract":"Bdellovibrio bacteriovorus, an obligate predatory Gram-negative bacterium that proliferates inside and kills other Gram-negative bacteria, was discovered more than 60 years ago. However, we have only recently begun to understand the detailed cell biology of this proficient bacterial killer. Bdellovibrio bacteriovorus exhibits a peculiar life cycle and bimodal proliferation, and thus represents an attractive model for studying novel aspects of bacterial cell biology. The life cycle of B. bacteriovorus consists of two phases: a free-living nonreplicative attack phase and an intracellular reproductive phase. During the reproductive phase, B. bacteriovorus grows as an elongated cell and undergoes binary or nonbinary fission, depending on the prey size. In this review, we discuss: (1) how the chromosome structure of B. bacteriovorus is remodeled during its life cycle; (2) how its chromosome replication dynamics depends on the proliferation mode; (3) how the initiation of chromosome replication is controlled during the life cycle, and (4) how chromosome replication is spatiotemporally coordinated with the proliferation program.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":" ","pages":""},"PeriodicalIF":10.1,"publicationDate":"2023-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11318664/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41136318","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}

引用次数: 0

Role of the extracellular matrix in Candida biofilm antifungal resistance. 细胞外基质在念珠菌生物膜抗真菌耐药性中的作用。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-11-01 DOI: 10.1093/femsre/fuad059

Justin Massey, Robert Zarnowski, David Andes

引用次数: 0

The roles of nucleoid-associated proteins and topoisomerases in chromosome structure, strand segregation, and the generation of phenotypic heterogeneity in bacteria. 核团相关蛋白和拓扑异构酶在染色体结构、链分离和细菌表型异质性产生中的作用。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-11-01 DOI: 10.1093/femsre/fuac049

Vic Norris, Clara Kayser, Georgi Muskhelishvili, Yoan Konto-Ghiorghi

{"title":"The roles of nucleoid-associated proteins and topoisomerases in chromosome structure, strand segregation, and the generation of phenotypic heterogeneity in bacteria.","authors":"Vic Norris, Clara Kayser, Georgi Muskhelishvili, Yoan Konto-Ghiorghi","doi":"10.1093/femsre/fuac049","DOIUrl":"10.1093/femsre/fuac049","url":null,"abstract":"How to adapt to a changing environment is a fundamental, recurrent problem confronting cells. One solution is for cells to organize their constituents into a limited number of spatially extended, functionally relevant, macromolecular assemblies or hyperstructures, and then to segregate these hyperstructures asymmetrically into daughter cells. This asymmetric segregation becomes a particularly powerful way of generating a coherent phenotypic diversity when the segregation of certain hyperstructures is with only one of the parental DNA strands and when this pattern of segregation continues over successive generations. Candidate hyperstructures for such asymmetric segregation in prokaryotes include those containing the nucleoid-associated proteins (NAPs) and the topoisomerases. Another solution to the problem of creating a coherent phenotypic diversity is by creating a growth-environment-dependent gradient of supercoiling generated along the replication origin-to-terminus axis of the bacterial chromosome. This gradient is modulated by transcription, NAPs, and topoisomerases. Here, we focus primarily on two topoisomerases, TopoIV and DNA gyrase in Escherichia coli, on three of its NAPs (H-NS, HU, and IHF), and on the single-stranded binding protein, SSB. We propose that the combination of supercoiling-gradient-dependent and strand-segregation-dependent topoisomerase activities result in significant differences in the supercoiling of daughter chromosomes, and hence in the phenotypes of daughter cells.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":" ","pages":""},"PeriodicalIF":11.3,"publicationDate":"2023-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10411678","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}

引用次数: 0

Origins of symbiosis: shared mechanisms underlying microbial pathogenesis, commensalism and mutualism of plants and animals. 共生的起源：动植物微生物致病、共生和互生的共同机制。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-11-01 DOI: 10.1093/femsre/fuac048

Christina L Wiesmann, Nicole R Wang, Yue Zhang, Zhexian Liu, Cara H Haney

{"title":"Origins of symbiosis: shared mechanisms underlying microbial pathogenesis, commensalism and mutualism of plants and animals.","authors":"Christina L Wiesmann, Nicole R Wang, Yue Zhang, Zhexian Liu, Cara H Haney","doi":"10.1093/femsre/fuac048","DOIUrl":"10.1093/femsre/fuac048","url":null,"abstract":"Regardless of the outcome of symbiosis, whether it is pathogenic, mutualistic or commensal, bacteria must first colonize their hosts. Intriguingly, closely related bacteria that colonize diverse hosts with diverse outcomes of symbiosis have conserved host-association and virulence factors. This review describes commonalities in the process of becoming host associated amongst bacteria with diverse lifestyles. Whether a pathogen, commensal or mutualist, bacteria must sense the presence of and migrate towards a host, compete for space and nutrients with other microbes, evade the host immune system, and change their physiology to enable long-term host association. We primarily focus on well-studied taxa, such as Pseudomonas, that associate with diverse model plant and animal hosts, with far-ranging symbiotic outcomes. Given the importance of opportunistic pathogens and chronic infections in both human health and agriculture, understanding the mechanisms that facilitate symbiotic relationships between bacteria and their hosts will help inform the development of disease treatments for both humans, and the plants we eat.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":" ","pages":""},"PeriodicalIF":11.3,"publicationDate":"2023-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10719066/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10724260","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}

引用次数: 0

What's in a name? Characteristics of clinical biofilms. 名字里有什么？临床生物膜的特征。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-09-05 DOI: 10.1093/femsre/fuad050

Mads Lichtenberg, Tom Coenye, Matthew R Parsek, Thomas Bjarnsholt, Tim Holm Jakobsen

{"title":"What's in a name? Characteristics of clinical biofilms.","authors":"Mads Lichtenberg, Tom Coenye, Matthew R Parsek, Thomas Bjarnsholt, Tim Holm Jakobsen","doi":"10.1093/femsre/fuad050","DOIUrl":"10.1093/femsre/fuad050","url":null,"abstract":"In vitro biofilms are communities of microbes with unique features compared to individual cells. Biofilms are commonly characterized by physical traits like size, adhesion, and a matrix made of extracellular substances. They display distinct phenotypic features, such as metabolic activity and antibiotic tolerance. However, the relative importance of these traits depends on the environment and bacterial species. Various mechanisms enable biofilm-associated bacteria to withstand antibiotics, including physical barriers, physiological adaptations, and changes in gene expression. Gene expression profiles in biofilms differ from individual cells but, there is little consensus among studies and so far, a 'biofilm signature transcriptome' has not been recognized. Additionally, the spatial and temporal variability within biofilms varies greatly depending on the system or environment. Despite all these variable conditions, which produce very diverse structures, they are all noted as biofilms. We discuss that clinical biofilms may differ from those grown in laboratories and found in the environment and discuss whether the characteristics that are commonly used to define and characterize biofilms have been shown in infectious biofilms. We emphasize that there is a need for a comprehensive understanding of the specific traits that are used to define bacteria in infections as clinical biofilms.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":"47 5","pages":""},"PeriodicalIF":11.3,"publicationDate":"2023-09-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10503651/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10305362","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}

引用次数: 0

Correction to: Exploring probiotic effector molecules and their mode of action in gut-immune interactions. 更正：探索益生菌效应分子及其在肠道免疫相互作用中的作用模式。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-09-05 DOI: 10.1093/femsre/fuad055

引用次数: 0

Global diversity and inferred ecophysiology of microorganisms with the potential for dissimilatory sulfate/sulfite reduction. 具有异化硫酸盐/亚硫酸盐还原潜力的微生物的全球多样性和推断生态生理学。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-09-05 DOI: 10.1093/femsre/fuad058

Muhe Diao, Stefan Dyksma, Elif Koeksoy, David Kamanda Ngugi, Karthik Anantharaman, Alexander Loy, Michael Pester

{"title":"Global diversity and inferred ecophysiology of microorganisms with the potential for dissimilatory sulfate/sulfite reduction.","authors":"Muhe Diao, Stefan Dyksma, Elif Koeksoy, David Kamanda Ngugi, Karthik Anantharaman, Alexander Loy, Michael Pester","doi":"10.1093/femsre/fuad058","DOIUrl":"10.1093/femsre/fuad058","url":null,"abstract":"Sulfate/sulfite-reducing microorganisms (SRM) are ubiquitous in nature, driving the global sulfur cycle. A hallmark of SRM is the dissimilatory sulfite reductase encoded by the genes dsrAB. Based on analysis of 950 mainly metagenome-derived dsrAB-carrying genomes, we redefine the global diversity of microorganisms with the potential for dissimilatory sulfate/sulfite reduction and uncover genetic repertoires that challenge earlier generalizations regarding their mode of energy metabolism. We show: (i) 19 out of 23 bacterial and 2 out of 4 archaeal phyla harbor uncharacterized SRM, (ii) four phyla including the Desulfobacterota harbor microorganisms with the genetic potential to switch between sulfate/sulfite reduction and sulfur oxidation, and (iii) the combination as well as presence/absence of different dsrAB-types, dsrL-types and dsrD provides guidance on the inferred direction of dissimilatory sulfur metabolism. We further provide an updated dsrAB database including > 60% taxonomically resolved, uncultured family-level lineages and recommendations on existing dsrAB-targeted primers for environmental surveys. Our work summarizes insights into the inferred ecophysiology of newly discovered SRM, puts SRM diversity into context of the major recent changes in bacterial and archaeal taxonomy, and provides an up-to-date framework to study SRM in a global context.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":" ","pages":""},"PeriodicalIF":11.3,"publicationDate":"2023-09-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10591310/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41114890","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}

引用次数: 0

Type II bacterial toxin-antitoxins: hypotheses, facts, and the newfound plethora of the PezAT system. II型细菌毒素抗毒素：假说、事实和新发现的过量PezAT系统。

IF 10.1 2区生物学

FEMS microbiology reviews Pub Date : 2023-09-05 DOI: 10.1093/femsre/fuad052

Wai Ting Chan, Maria Pilar Garcillán-Barcia, Chew Chieng Yeo, Manuel Espinosa

{"title":"Type II bacterial toxin-antitoxins: hypotheses, facts, and the newfound plethora of the PezAT system.","authors":"Wai Ting Chan, Maria Pilar Garcillán-Barcia, Chew Chieng Yeo, Manuel Espinosa","doi":"10.1093/femsre/fuad052","DOIUrl":"10.1093/femsre/fuad052","url":null,"abstract":"Toxin-antitoxin (TA) systems are entities found in the prokaryotic genomes, with eight reported types. Type II, the best characterized, is comprised of two genes organized as an operon. Whereas toxins impair growth, the cognate antitoxin neutralizes its activity. TAs appeared to be involved in plasmid maintenance, persistence, virulence, and defence against bacteriophages. Most Type II toxins target the bacterial translational machinery. They seem to be antecessors of Higher Eukaryotes and Prokaryotes Nucleotide-binding (HEPN) RNases, minimal nucleotidyltransferase domains, or CRISPR-Cas systems. A total of four TAs encoded by Streptococcus pneumoniae, RelBE, YefMYoeB, Phd-Doc, and HicAB, belong to HEPN-RNases. The fifth is represented by PezAT/Epsilon-Zeta. PezT/Zeta toxins phosphorylate the peptidoglycan precursors, thereby blocking cell wall synthesis. We explore the body of knowledge (facts) and hypotheses procured for Type II TAs and analyse the data accumulated on the PezAT family. Bioinformatics analyses showed that homologues of PezT/Zeta toxin are abundantly distributed among 14 bacterial phyla mostly in Proteobacteria (48%), Firmicutes (27%), and Actinobacteria (18%), showing the widespread distribution of this TA. The pezAT locus was found to be mainly chromosomally encoded whereas its homologue, the tripartite omega-epsilon-zeta locus, was found mostly on plasmids. We found several orphan pezT/zeta toxins, unaccompanied by a cognate antitoxin.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":" ","pages":""},"PeriodicalIF":10.1,"publicationDate":"2023-09-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/f6/74/fuad052.PMC10532202.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10254229","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}

引用次数: 0

Methodologies for bacterial ribonuclease characterization using RNA-seq. 使用RNA-seq鉴定细菌核糖核酸酶的方法。

IF 10.1 2区生物学

FEMS microbiology reviews Pub Date : 2023-09-05 DOI: 10.1093/femsre/fuad049

Laura Broglia, Anaïs Le Rhun, Emmanuelle Charpentier

引用次数: 0