Phylogeny Reveals Novel HipA-Homologous Kinase Families and Toxin-Antitoxin Gene Organizations

A Bacterial Toxin Perturbs Intracellular Amino Acid Balance To Induce Persistence

(2021) Xiaofeng Zhou et al.   mBio

Shutoff of host transcription triggers a toxin-antitoxin system to cleave phage RNA and abort infection

(2021) Chantal K. Guegler et al.   MOLECULAR CELL

Type II toxin-antitoxin systems: evolution and revolutions

(2020) N. Fraikin et al.   JOURNAL OF BACTERIOLOGY

Structure of HIRAN domain of human HLTF bound to duplex DNA provides structural basis for DNA unwinding to initiate replication fork regression

(2020) Asami Hishiki et al.   JOURNAL OF BIOCHEMISTRY

IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era

(2020) Bui Quang Minh et al.   MOLECULAR BIOLOGY AND EVOLUTION

hipBA toxin-antitoxin systems mediate persistence in Caulobacter crescentus

(2020) Charlie Y. Huang et al.   Scientific Reports

Stress Can Induce Transcription of Toxin-Antitoxin Systems without Activating Toxin

(2020) Michele LeRoux et al.   MOLECULAR CELL

Abortive Infection: Bacterial Suicide as an Antiviral Immune Strategy

(2020) Anna Lopatina et al.   Annual Review of Virology

Diverse enzymatic activities mediate antiviral immunity in prokaryotes

(2020) Linyi Gao et al.   SCIENCE

Bacterial Retrons Function In Anti-Phage Defense

(2020) Adi Millman et al.   CELL

Definitions and guidelines for research on antibiotic persistence

(2019) Nathalie Q. Balaban et al.   NATURE REVIEWS MICROBIOLOGY

Interactive Tree Of Life (iTOL) v4: recent updates and new developments

(2019) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Hijacking the Hijackers: Escherichia coli Pathogenicity Islands Redirect Helper Phage Packaging for Their Own Benefit

(2019) Alfred Fillol-Salom et al.   MOLECULAR CELL

Slow growth determines nonheritable antibiotic resistance in Salmonella enterica

(2019) Mauricio H. Pontes et al.   Science Signaling

Serine-Threonine Kinases Encoded by Split hipA Homologs Inhibit Tryptophanyl-tRNA Synthetase

(2019) Stine Vang Nielsen et al.   mBio

Bacterial Heterogeneity and Antibiotic Survival: Understanding and Combatting Persistence and Heteroresistance

(2019) Liselot Dewachter et al.   MOLECULAR CELL

The structure of a polygamous repressor reveals how phage-inducible chromosomal islands spread in nature

(2019) J. Rafael Ciges-Tomas et al.   Nature Communications

How pirate phage interferes with helper phage: Comparison of the two distinct strategies

(2019) Namiko Mitarai   JOURNAL OF THEORETICAL BIOLOGY

Targeting Antibiotic Tolerance, Pathogen by Pathogen

(2018) Sylvain Meylan et al.   CELL

Fighting bacterial persistence: Current and emerging anti-persister strategies and therapeutics

(2018) Valerie Defraine et al.   DRUG RESISTANCE UPDATES

Phage-inducible chromosomal islands are ubiquitous within the bacterial universe

(2018) Alfred Fillol-Salom et al.   ISME Journal

Serine/Threonine Protein Kinases from Bacteria, Archaea and Eukarya Share a Common Evolutionary Origin Deeply Rooted in the Tree of Life

(2018) Ivan Andreas Stancik et al.   JOURNAL OF MOLECULAR BIOLOGY

Activation of the Stringent Response by Loading of RelA-tRNA Complexes at the Ribosomal A-Site

(2018) Kristoffer Skovbo Winther et al.   MOLECULAR CELL

Toxins, Targets, and Triggers: An Overview of Toxin-Antitoxin Biology

(2018) Alexander Harms et al.   MOLECULAR CELL

HMMER web server: 2018 update

(2018) Simon C Potter et al.   NUCLEIC ACIDS RESEARCH

The kinases HipA and HipA7 phosphorylate different substrate pools in Escherichia coli to promote multidrug tolerance

(2018) Maja Semanjski et al.   Science Signaling

Replication Fork Reversal: Players and Guardians

(2017) Annabel Quinet et al.   MOLECULAR CELL

Directed evolution of SecB chaperones toward toxin-antitoxin systems

(2017) Ambre Julie Sala et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Clustal Omega for making accurate alignments of many protein sequences

(2017) Fabian Sievers et al.   PROTEIN SCIENCE

Antibiotic tolerance facilitates the evolution of resistance

(2017) Irit Levin-Reisman et al.   SCIENCE

ATP and autophosphorylation driven conformational changes of HipA kinase revealed by ion mobility and crosslinking mass spectrometry

(2016) Yurong Wen et al.   ANALYTICAL AND BIOANALYTICAL CHEMISTRY

Enhanced Efflux Activity Facilitates Drug Tolerance in Dormant Bacterial Cells

(2016) Yingying Pu et al.   MOLECULAR CELL

W-IQ-TREE: a fast online phylogenetic tool for maximum likelihood analysis

(2016) Jana Trifinopoulos et al.   NUCLEIC ACIDS RESEARCH

Mechanisms of bacterial persistence during stress and antibiotic exposure

(2016) Alexander Harms et al.   SCIENCE

HLTF’s Ancient HIRAN Domain Binds 3′ DNA Ends to Drive Replication Fork Reversal

(2015) Andrew C. Kile et al.   MOLECULAR CELL

Obg and Membrane Depolarization Are Part of a Microbial Bet-Hedging Strategy that Leads to Antibiotic Tolerance

(2015) Natalie Verstraeten et al.   MOLECULAR CELL

Acis-acting antitoxin domain within the chromosomal toxin-antitoxin module EzeT ofEscherichia coliquenches toxin activity

(2015) Andrea Rocker et al.   MOLECULAR MICROBIOLOGY

The chromosomal SezAT toxin-antitoxin system promotes the maintenance of the SsPI-1 pathogenicity island in epidemicStreptococcus suis

(2015) Xinyue Yao et al.   MOLECULAR MICROBIOLOGY

HipBA–promoter structures reveal the basis of heritable multidrug tolerance

(2015) Maria A. Schumacher et al.   NATURE

The Phyre2 web portal for protein modeling, prediction and analysis

(2015) Lawrence A Kelley et al.   Nature Protocols

The bacterial antitoxin HipB establishes a ternary complex with operator DNA and phosphorylated toxin HipA to regulate bacterial persistence

(2014) Yurong Wen et al.   NUCLEIC ACIDS RESEARCH

Remarkable Mechanisms in Microbes to Resist Phage Infections

(2014) Ron L. Dy et al.   Annual Review of Virology

HipA-Triggered Growth Arrest and  -Lactam Tolerance in Escherichia coli Are Mediated by RelA-Dependent ppGpp Synthesis

(2013) G. Bokinsky et al.   JOURNAL OF BACTERIOLOGY

Cell Growth Inhibition upon Deletion of Four Toxin-Antitoxin Loci from the Megaplasmids of Sinorhizobium meliloti

(2013) B. Milunovic et al.   JOURNAL OF BACTERIOLOGY

Ultrafast Approximation for Phylogenetic Bootstrap

(2013) B. Q. Minh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Molecular Mechanism of Bacterial Persistence by HipA

(2013) Elsa Germain et al.   MOLECULAR CELL

Dynamic Persistence of Antibiotic-Stressed Mycobacteria

(2013) Y. Wakamoto et al.   SCIENCE

HipA-mediated antibiotic persistence via phosphorylation of the glutamyl-tRNA-synthetase

(2013) Ilana Kaspy et al.   Nature Communications

Identification and classification of bacterial Type III toxin–antitoxin systems encoded in chromosomal and plasmid genomes

(2012) Tim R. Blower et al.   NUCLEIC ACIDS RESEARCH

Evolution of the eukaryotic protein kinases as dynamic molecular switches

(2012) S. S. Taylor et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Regulation of the Escherichia coli HipBA Toxin-Antitoxin System by Proteolysis

(2012) Sonja Hansen et al.   PLoS One

Role of Unusual P Loop Ejection and Autophosphorylation in HipA-Mediated Persistence and Multidrug Tolerance

(2012) Maria A. Schumacher et al.   Cell Reports

Evolution of Stress Response in the Face of Unreliable Environmental Signals

(2012) Markus Arnoldini et al.   PLoS Computational Biology

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

(2011) F. Sievers et al.   Molecular Systems Biology

Diversity of bacterial type II toxin–antitoxin systems: a comprehensive search and functional analysis of novel families

(2011) Raphaël Leplae et al.   NUCLEIC ACIDS RESEARCH

The Three Vibrio cholerae Chromosome II-Encoded ParE Toxins Degrade Chromosome I following Loss of Chromosome II

(2010) J. Yuan et al.   JOURNAL OF BACTERIOLOGY

Moonlighting bacteriophage proteins derepress staphylococcal pathogenicity islands

(2010) María Ángeles Tormo-Más et al.   NATURE

New kinase regulation mechanism found in HipBA: a bacterial persistence switch

(2009) Artem Evdokimov et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Jalview Version 2--a multiple sequence alignment editor and analysis workbench

(2009) A. M. Waterhouse et al.   BIOINFORMATICS

SaPI mutations affecting replication and transfer and enabling autonomous replication in the absence of helper phage

(2009) Carles Úbeda et al.   MOLECULAR MICROBIOLOGY

The phage abortive infection system, ToxIN, functions as a protein–RNA toxin–antitoxin pair

(2009) Peter C. Fineran et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Molecular Mechanisms of HipA-Mediated Multidrug Tolerance and Its Neutralization by HipB

(2009) M. A. Schumacher et al.   SCIENCE

Comprehensive Functional Analysis of Mycobacterium tuberculosis Toxin-Antitoxin Systems: Implications for Pathogenesis, Stress Responses, and Evolution

(2009) Holly R. Ramage et al.   PLoS Genetics

A Toxin–Antitoxin System Promotes the Maintenance of an Integrative Conjugative Element

(2009) Rachel A. F. Wozniak et al.   PLoS Genetics

HicA of Escherichia coli Defines a Novel Family of Translation-Independent mRNA Interferases in Bacteria and Archaea

(2008) M. G. Jorgensen et al.   JOURNAL OF BACTERIOLOGY