☆ 4.8 Article

Core defense hotspots within Pseudomonas aeruginosa are a consistent and rich source of anti-phage defense systems

NUCLEIC ACIDS RESEARCH (2023)

相关参考文献

注意：仅列出部分参考文献，下载原文获取全部文献信息。

Article Genetics & Heredity

The defense island repertoire of the Escherichia coli pan-genome

Dina H. Hochhauser et al.

Summary: We systematically characterized the defense systems in over 1,300 Escherichia coli genomes and found that they are carried on mobile genetic elements that integrate at specific hotspots within the genome. Different defense systems are carried by different types of mobile genetic elements that preferentially integrate at specific hotspots, explaining the variation in phage resistance profiles among closely related strains. Our findings provide insights into the distribution and evolution of defense systems in E. coli genomes.

PLOS GENETICS (2023)

添加到收藏夹

Article Biochemistry & Molecular Biology

Novel integrative elements and genomic plasticity in ocean ecosystems

Thomas Hackl et al.

Summary: Horizontal gene transfer plays a crucial role in microbial evolution, and the newly discovered tycheposons, a family of DNA transposons, are found to be key drivers of genomic remodeling. Tycheposons are widely distributed in the marine environment and are dispersed through vesicles and phage particles. Similar elements are also found in microbes co-existing with Prochlorococcus, suggesting a common mechanism for microbial diversification in the vast oligotrophic oceans.

CELL (2023)

添加到收藏夹

Article Biochemistry & Molecular Biology

Escherichia coli SymE is a DNA-binding protein that can condense the nucleoid

Mary K. Thompson et al.

Summary: Through the study of SymE, it is found that it can bind to DNA and drive nucleoid condensation, leading to inhibition of DNA and RNA synthesis and causing DNA damage. SymE may belong to a new class of nucleoid-associated proteins widely distributed in bacteria.

MOLECULAR MICROBIOLOGY (2022)

添加到收藏夹

Article Multidisciplinary Sciences

Bacterial gasdermins reveal an ancient mechanism of cell death

Alex G. Johnson et al.

Summary: Gasdermin proteins play important roles in immune regulation and induction of cell death in human cells by forming membrane pores. Similar proteins encoded by bacteria have been found to defend against phages and execute cell death.

SCIENCE (2022)

添加到收藏夹

Article Microbiology

Phages and their satellites encode hotspots of antiviral systems

Francois Rousset et al.

Summary: Bacteria have various genetic systems to defend against viral infection, including those within prophages. Phage satellites pose additional pressures on phages by hijacking viral elements. This study found that E. coli P2-like phages and their P4-like satellites carry genetic hotspots with anti-phage systems. These hotspots participate in inter-viral competition and shape dynamics between the bacterial host, P2-like phages, and P4-like satellites. Importantly, the anti-phage activity of satellites can benefit the helper phage during competition, turning a parasitic relationship into a mutualistic one.

CELL HOST & MICROBE (2022)

添加到收藏夹

Article Multidisciplinary Sciences

Systematic and quantitative view of the antiviral arsenal of prokaryotes

Florian Tesson et al.

Summary: Bacteria and archaea have developed multiple antiviral mechanisms. Researchers have introduced a tool called DefenseFinder that can automatically detect known antiviral systems in prokaryotic genomes, and have shown that variations in antiviral strategies correlate with genome size, viral threat, and lifestyle traits.

NATURE COMMUNICATIONS (2022)

添加到收藏夹

Article Biotechnology & Applied Microbiology

mobileOG-db: a Manually Curated Database of Protein Families Mediating the Life Cycle of Bacterial Mobile Genetic Elements

Connor L. Brown et al.

Summary: This study provides a comprehensive analysis of bacterial mobile genetic elements (MGEs) and presents a database, mobileOG-db, containing over 6,000 protein families for the annotation and analysis of MGEs. The database offers a multilevel classification scheme, allowing for the annotation of plasmids, phages, integrative elements, and transposable elements.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2022)

添加到收藏夹

Article Biochemistry & Molecular Biology

Bacteriophages benefit from mobilizing pathogenicity islands encoding immune systems against competitors

Alfred Fillol-Salom et al.

Summary: This study discovers a important anti-phage system in bacteria called phage-inducible chromosomal islands (PICIs), which can be disseminated intra-and inter-generically by helper phages and provide broad immunity. Results show that phages can mobilize PICI-encoded immunity systems to use them against other mobile genetic elements, which compete with the phages for the same bacterial hosts. This finding has significant implications for phages, bacteria, and horizontal gene transfer control.

CELL (2022)

添加到收藏夹

Article Microbiology

An expanded arsenal of immune systems that protect bacteria from phages

Adi Millman et al.

Summary: This study reports the discovery of 21 bacterial defense systems against phages. These systems contain domains involved in eukaryotic antiviral immunity and are widely distributed in microbial genomes. These findings contribute to our understanding of the defense mechanisms bacteria use against phage infection.

CELL HOST & MICROBE (2022)

添加到收藏夹

Article Microbiology

A functional selection reveals previously undetected anti-phage defence systems in the E. coli pangenome

Christopher N. Vassallo et al.

Summary: The study identified numerous new candidate defense systems in E. coli using an experimental selection scheme, demonstrating that intact prophages and mobile genetic elements are primary reservoirs and distributors of defense systems.

NATURE MICROBIOLOGY (2022)

添加到收藏夹

Article Immunology

Bacterial origins of human cell-autonomous innate immune mechanisms

Tanita Wein et al.

Summary: This paper describes the elements of antiviral immunity that are conserved from bacteria to humans and presents possible evolutionary scenarios to explain this conservation.

NATURE REVIEWS IMMUNOLOGY (2022)

添加到收藏夹

Article Multidisciplinary Sciences

Rapid evolutionary turnover of mobile genetic elements drives bacterial resistance to phages

Fatima Aysha Hussain et al.

Summary: In marine Vibrio, phage resistance evolves rapidly and leads to differential susceptibility among bacterial strains. This resistance is cumulative, with each bacterial genome carrying multiple defense elements. The fast evolution of these elements decouples phage resistance from other genomic features.

SCIENCE (2021)

添加到收藏夹

Article Multidisciplinary Sciences

Temporal shifts in antibiotic resistance elements govern phage-pathogen conflicts

Kristen N. LeGault et al.

Summary: Through time-shift experiments, fluctuations in Vibrio cholerae's resistance to phages in clinical samples were discovered, with the identification of phage resistance determinants within SXT integrative and conjugative elements (ICEs) that also confer antibiotic resistance. The study revealed that SXT ICEs, widespread in g-proteobacteria, encode phage defense systems linked to a single hotspot of genetic exchange, leading to the selection of a novel phage-encoded defense inhibitor and the concurrent dissemination of phage and antibiotic resistances through high-frequency SXT ICE conjugation stimulated by phage infection.

SCIENCE (2021)

添加到收藏夹

Article Multidisciplinary Sciences

Diverse enzymatic activities mediate antiviral immunity in prokaryotes

Linyi Gao et al.

SCIENCE (2020)

添加到收藏夹

Article Microbiology

Diversity and classification of cyclic-oligonucleotide-based anti-phage signalling systems

Adi Millman et al.

NATURE MICROBIOLOGY (2020)

添加到收藏夹

Article Multidisciplinary Sciences

Defining the core essential genome of Pseudomonas aeruginosa

Bradley E. Poulsen et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2019)

添加到收藏夹

Article Multidisciplinary Sciences

Cyclic GMP-AMP signalling protects bacteria against viral infection

Daniel Cohen et al.

NATURE (2019)

添加到收藏夹

Article Multidisciplinary Sciences

Systematic discovery of antiphage defense systems in the microbial pangenome

Shany Doron et al.

SCIENCE (2018)

添加到收藏夹

Letter Biotechnology & Applied Microbiology

MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets

Martin Steinegger et al.

NATURE BIOTECHNOLOGY (2017)

添加到收藏夹

Article Biochemistry & Molecular Biology

Integrative and conjugative elements and their hosts: composition, distribution and organization

Jean Cury et al.

NUCLEIC ACIDS RESEARCH (2017)

添加到收藏夹

Review Microbiology

Flexible genomic islands as drivers of genome evolution

Francisco Rodriguez-Valera et al.

CURRENT OPINION IN MICROBIOLOGY (2016)

添加到收藏夹

Article Biochemistry & Molecular Biology

BREX is a novel phage resistance system widespread in microbial genomes

Tamara Goldfarb et al.

EMBO JOURNAL (2015)

添加到收藏夹

Article Biochemistry & Molecular Biology

REBASE-a database for DNA restriction and modification: enzymes, genes and genomes

Richard J. Roberts et al.

NUCLEIC ACIDS RESEARCH (2015)

添加到收藏夹

Article Multidisciplinary Sciences

MacSyFinder: A Program to Mine Genomes for Molecular Systems with an Application to CRISPR-Cas Systems

Sophie S. Abby et al.

PLOS ONE (2014)

添加到收藏夹

Article Biochemistry & Molecular Biology

Ter-dependent stress response systems: novel pathways related to metal sensing, production of a nucleoside-like metabolite, and DNA-processing

Vivek Anantharaman et al.

MOLECULAR BIOSYSTEMS (2012)

添加到收藏夹

Article Biochemistry & Molecular Biology

Divergently overlapping cis-encoded antisense RNA regulating toxin-antitoxin systems from E-coli hok/sok, ldr/rdl, symE/symR

Mitsuoki Kawano

RNA BIOLOGY (2012)

添加到收藏夹

Article Microbiology

Defense Islands in Bacterial and Archaeal Genomes and Prediction of Novel Defense Systems

Kira S. Makarova et al.

JOURNAL OF BACTERIOLOGY (2011)

添加到收藏夹

Article Biochemical Research Methods

BLAST plus : architecture and applications

Christiam Camacho et al.

BMC BIOINFORMATICS (2009)

添加到收藏夹

Review Biochemistry & Molecular Biology

Genomic islands are dynamic, ancient integrative elements in bacterial evolution

E. Fidelma Boyd et al.

TRENDS IN MICROBIOLOGY (2009)

添加到收藏夹

Article Biochemistry & Molecular Biology

CRISPRFinder: a web tool to identify clustered regularly interspaced short palindromic repeats

Ibtissem Grissa et al.

NUCLEIC ACIDS RESEARCH (2007)

添加到收藏夹

Article Microbiology

tDNA locus polymorphism and ecto-chromosomal DNA insertion hot-spots are related to the phylogenetic group of Escherichia coli strains

Pierre Germon et al.

MICROBIOLOGY-SGM (2007)

添加到收藏夹

Article Biochemistry & Molecular Biology

Cytoscape: A software environment for integrated models of biomolecular interaction networks

P Shannon et al.

GENOME RESEARCH (2003)

添加到收藏夹

Article Biochemistry & Molecular Biology

Integration sites for genetic elements in prokaryotic tRNA and tmRNA genes: sublocation preference of integrase subfamilies

KP Williams

NUCLEIC ACIDS RESEARCH (2002)

添加到收藏夹

© Peeref 2019-2024. All rights reserved.