Beyond horizontal gene transfer: the role of plasmids in bacterial evolution

Biofilms: Hot spots of horizontal gene transfer (HGT) in aquatic environments, with a focus on a new HGT mechanism

(2020) Kimihiro Abe et al.   FEMS MICROBIOLOGY ECOLOGY

Plasmids persist in a microbial community by providing fitness benefit to multiple phylotypes

(2020) Liguan Li et al.   ISME Journal

Increased Plasmid Copy Number Contributes to the Elevated Carbapenem Resistance in OXA-232-Producing Klebsiella pneumoniae

(2020) Zhen Shen et al.   Microbial Drug Resistance

EVOLVING POPULATIONS IN BIOFILMS CONTAIN MORE PERSISTENT PLASMIDS

(2020) Thibault Stalder et al.   MOLECULAR BIOLOGY AND EVOLUTION

Plasmids Shaped the Recent Emergence of the Major Nosocomial Pathogen Enterococcus faecium

(2020) S. Arredondo-Alonso et al.   mBio

Recording mobile DNA in the gut microbiota using an Escherichia coli CRISPR-Cas spacer acquisition platform

(2020) Christian Munck et al.   Nature Communications

Environmental and genetic determinants of plasmid mobility in pathogenic Escherichia coli

(2020) Jonathan H. Bethke et al.   Science Advances

Evolutionary Rescue and Drug Resistance on Multicopy Plasmids

(2020) Mario Santer et al.   GENETICS

Large-scale network analysis captures biological features of bacterial plasmids

(2020) Mislav Acman et al.   Nature Communications

Analysis of COMPASS, a New Comprehensive Plasmid Database Revealed Prevalence of Multireplicon and Extensive Diversity of IncF Plasmids

(2020) Pierre-Emmanuel Douarre et al.   Frontiers in Microbiology

Gene amplification as a form of population-level gene expression regulation

(2020) I. Tomanek et al.   Nature Ecology & Evolution

Coevolution of host–plasmid pairs facilitates the emergence of novel multidrug resistance

(2020) Hannah Jordt et al.   Nature Ecology & Evolution

IncC conjugative plasmids and SXT/R391 elements repair double-strand breaks caused by CRISPR–Cas during conjugation

(2020) David Roy et al.   NUCLEIC ACIDS RESEARCH

Genetic dominance governs the evolution and spread of mobile genetic elements in bacteria

(2020) Jerónimo Rodríguez-Beltrán et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Unexpected conservation and global transmission of agrobacterial virulence plasmids

(2020) Alexandra J. Weisberg et al.   SCIENCE

Pathways for horizontal gene transfer in bacteria revealed by a global map of their plasmids

(2020) Santiago Redondo-Salvo et al.   Nature Communications

The high prevalence of antibiotic heteroresistance in pathogenic bacteria is mainly caused by gene amplification

(2019) Hervé Nicoloff et al.   Nature Microbiology

Evolutionary model for the unequal segregation of high copy plasmids

(2019) Karin Münch et al.   PLoS Computational Biology

Don't overlook the little guy: An evaluation of the frequency of small plasmids co-conjugating with larger carbapenemase gene containing plasmids

(2019) Katie Barry et al.   PLASMID

Mosaic plasmids are abundant and unevenly distributed across prokaryotic taxa

(2019) Mitchell W. Pesesky et al.   PLASMID

Emergence of a hybrid plasmid derived from IncN1-F33:A−:B− and mcr-1-bearing plasmids mediated by IS26

(2019) Dandan He et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Mechanisms and clinical relevance of bacterial heteroresistance

(2019) Dan I. Andersson et al.   NATURE REVIEWS MICROBIOLOGY

Bacteria from natural populations transfer plasmids mostly towards their kin

(2019) Tatiana Dimitriu et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Emergence of plasmid stability under non-selective conditions maintains antibiotic resistance

(2019) Tanita Wein et al.   Nature Communications

A high resolution view of adaptive event dynamics in a plasmid

(2019) Han Mei et al.   Genome Biology and Evolution

Serial horizontal transfer of vitamin-biosynthetic genes enables the establishment of new nutritional symbionts in aphids’ di-symbiotic systems

(2019) Alejandro Manzano-Marı́n et al.   ISME Journal

The pan-immune system of bacteria: antiviral defence as a community resource

(2019) Aude Bernheim et al.   NATURE REVIEWS MICROBIOLOGY

Selective Inbreeding: Genetic Crosses Drive Apparent Adaptive Mutation in the Cairns-Foster System of Escherichia coli

(2019) Amanda Nguyen et al.   GENETICS

Type IV CRISPR–Cas systems are highly diverse and involved in competition between plasmids

(2019) Rafael Pinilla-Redondo et al.   NUCLEIC ACIDS RESEARCH

Antibiotic Resistance Plasmids Cointegrated into a Megaplasmid Harboring the bla OXA-427 Carbapenemase Gene

(2018) Stefanie Desmet et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Horizontal operon transfer, plasmids, and the evolution of photosynthesis in Rhodobacteraceae

(2018) Henner Brinkmann et al.   ISME Journal

Recombination of plasmids in a carbapenem-resistant NDM-5-producing clinical Escherichia coli isolate

(2018) Miaomiao Xie et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Comparative symbiotic plasmid analysis indicates that symbiosis gene ancestor type affects plasmid genetic evolution

(2018) X. Wang et al.   LETTERS IN APPLIED MICROBIOLOGY

Going around in circles: virulence plasmids in enteric pathogens

(2018) Giulia Pilla et al.   NATURE REVIEWS MICROBIOLOGY

Biochemical mechanisms determine the functional compatibility of heterologous genes

(2018) Andreas Porse et al.   Nature Communications

Effective polyploidy causes phenotypic delay and influences bacterial evolvability

(2018) Lei Sun et al.   PLOS BIOLOGY

PCR-Based Analysis of ColE1 Plasmids in Clinical Isolates and Metagenomic Samples Reveals Their Importance as Gene Capture Platforms

(2018) Manuel Ares-Arroyo et al.   Frontiers in Microbiology

Multicopy plasmids allow bacteria to escape from fitness trade-offs during evolutionary innovation

(2018) Jeronimo Rodriguez-Beltran et al.   Nature Ecology & Evolution

Integrative analysis of fitness and metabolic effects of plasmids in Pseudomonas aeruginosa PAO1

(2018) Alvaro San Millan et al.   ISME Journal

Evolution of Plasmid-Mediated Antibiotic Resistance in the Clinical Context

(2018) Alvaro San Millan   TRENDS IN MICROBIOLOGY

Isolation and characterization of novel mutations in the pSC101 origin that increase copy number

(2018) Mitchell G. Thompson et al.   Scientific Reports

The SOS System: A Complex and Tightly Regulated Response to DNA Damage

(2018) Katarzyna H. Maslowska et al.   ENVIRONMENTAL AND MOLECULAR MUTAGENESIS

Segregational drift and the interplay between plasmid copy number and evolvability

(2018) Judith Ilhan et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genome hypermobility by lateral transduction

(2018) John Chen et al.   SCIENCE

Double-slit photoelectron interference in strong-field ionization of the neon dimer

(2018) Maksim Kunitski et al.   Nature Communications

Evidence of Illegitimate Recombination Between Two Pasteurellaceae Plasmids Resulting in a Novel Multi-Resistance Replicon, pM3362MDR, in Actinobacillus pleuropneumoniae

(2018) Yinghui Li et al.   Frontiers in Microbiology

Persistence of antibiotic resistance plasmids in bacterial biofilms

(2017) Benjamin J. Ridenhour et al.   Evolutionary Applications

Plasmid and clonal interference during post horizontal gene transfer evolution

(2017) S. Bedhomme et al.   MOLECULAR ECOLOGY

Persistence and reversal of plasmid-mediated antibiotic resistance

(2017) Allison J. Lopatkin et al.   Nature Communications

Genome Dynamics of Escherichia coli during Antibiotic Treatment: Transfer, Loss, and Persistence of Genetic Elements In situ of the Infant Gut

(2017) Andreas Porse et al.   Frontiers in Cellular and Infection Microbiology

Transfer and Persistence of a Multi-Drug Resistance Plasmid in situ of the Infant Gut Microbiota in the Absence of Antibiotic Treatment

(2017) Heidi Gumpert et al.   Frontiers in Microbiology

The Role for the Small Cryptic Plasmids As Moldable Vectors for Genetic Innovation in Aeromonas salmonicida subsp. salmonicida

(2017) Sabrina A. Attéré et al.   Frontiers in Genetics

A plasmid from an Antarctic haloarchaeon uses specialized membrane vesicles to disseminate and infect plasmid-free cells

(2017) Susanne Erdmann et al.   Nature Microbiology

Adaptive modulation of antibiotic resistance through intragenomic coevolution

(2017) Michael J. Bottery et al.   Nature Ecology & Evolution

Positive selection inhibits gene mobilization and transfer in soil bacterial communities

(2017) James P. J. Hall et al.   Nature Ecology & Evolution

Bet-hedging in bacteriocin producing Escherichia coli populations: the single cell perspective

(2017) Bihter Bayramoglu et al.   Scientific Reports

Nested Russian Doll-Like Genetic Mobility Drives Rapid Dissemination of the Carbapenem Resistance GeneblaKPC

(2016) Anna E. Sheppard et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Glutathione-S-transferase FosA6 ofKlebsiella pneumoniaeorigin conferring fosfomycin resistance in ESBL-producingEscherichia coli

(2016) Qinglan Guo et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Copy number variability of expression plasmids determined by cell sorting and Droplet Digital PCR

(2016) Michael Jahn et al.   Microbial Cell Factories

Survival and Evolution of a Large Multidrug Resistance Plasmid in New Clinical Bacterial Hosts

(2016) Andreas Porse et al.   MOLECULAR BIOLOGY AND EVOLUTION

Source–sink plasmid transfer dynamics maintain gene mobility in soil bacterial communities

(2016) James P. J. Hall et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Increased plasmid copy number is essential for Yersinia T3SS function and virulence

(2016) He Wang et al.   SCIENCE

A new view of the tree of life

(2016) Laura A. Hug et al.   Nature Microbiology

Multicopy plasmids potentiate the evolution of antibiotic resistance in bacteria

(2016) Alvaro San Millan et al.   Nature Ecology & Evolution

Small-Plasmid-Mediated Antibiotic Resistance Is Enhanced by Increases in Plasmid Copy Number and Bacterial Fitness

(2015) Alvaro San Millan et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Plasmids are vectors for redundant chromosomal genes in the Bacillus cereus group

(2015) Jinshui Zheng et al.   BMC GENOMICS

Antimicrobial Heteroresistance: an Emerging Field in Need of Clarity

(2015) Omar M. El-Halfawy et al.   CLINICAL MICROBIOLOGY REVIEWS

Parallel Compensatory Evolution Stabilizes Plasmids across the Parasitism-Mutualism Continuum

(2015) Ellie Harrison et al.   CURRENT BIOLOGY

Change in the plasmid copy number in acetic acid Bacteria in response to growth phase and acetic acid Concentration

(2015) Naoki Akasaka et al.   JOURNAL OF BIOSCIENCE AND BIOENGINEERING

High Recombinant Frequency in Extraintestinal PathogenicEscherichia coliStrains

(2015) Jerónimo Rodríguez-Beltrán et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evolutionary Paths That Expand Plasmid Host-Range: Implications for Spread of Antibiotic Resistance

(2015) Wesley Loftie-Eaton et al.   MOLECULAR BIOLOGY AND EVOLUTION

Horizontal gene transfer: building the web of life

(2015) Shannon M. Soucy et al.   NATURE REVIEWS GENETICS

Bacterial clade with the ribosomal RNA operon on a small plasmid rather than the chromosome

(2015) Mizue Anda et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bypass of genetic constraints during mutator evolution to antibiotic resistance

(2015) A. Couce et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Rates of Lateral Gene Transfer in Prokaryotes: High but Why?

(2015) Michiel Vos et al.   TRENDS IN MICROBIOLOGY

The genetic basis of the fitness costs of antimicrobial resistance: a meta-analysis approach

(2014) Tom Vogwill et al.   Evolutionary Applications

Plasmid Copy Number Underlies Adaptive Mutability in Bacteria

(2014) E. Sano et al.   GENETICS

Positive selection and compensatory adaptation interact to stabilize non-transmissible plasmids

(2014) A. San Millan et al.   Nature Communications

Transient Hypermutagenesis Accelerates the Evolution of Legume Endosymbionts following Horizontal Gene Transfer

(2014) Philippe Remigi et al.   PLOS BIOLOGY

Positive epistasis between co-infecting plasmids promotes plasmid survival in bacterial populations

(2013) Alvaro San Millan et al.   ISME Journal

High Expression Hampers Horizontal Gene Transfer

(2012) Chungoo Park et al.   Genome Biology and Evolution

Plasmid-mediated horizontal gene transfer is a coevolutionary process

(2012) Ellie Harrison et al.   TRENDS IN MICROBIOLOGY

Intercellular Nanotubes Mediate Bacterial Communication

(2011) Gyanendra P. Dubey et al.   CELL

Quantification of Ploidy in Proteobacteria Revealed the Existence of Monoploid, (Mero-)Oligoploid and Polyploid Species

(2011) Vito Pecoraro et al.   PLoS One

Growth-Rate Dependence Reveals Design Principles of Plasmid Copy Number Control

(2011) Stefan Klumpp   PLoS One

Selfish genetic elements, genetic conflict, and evolutionary innovation

(2011) J. H. Werren   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The IncP-1 plasmid backbone adapts to different host bacterial species and evolves through homologous recombination

(2011) Peter Norberg et al.   Nature Communications

Pervasive Sign Epistasis between Conjugative Plasmids and Drug-Resistance Chromosomal Mutations

(2011) Rui F. Silva et al.   PLoS Genetics

Plasmid segregation: how to survive as an extra piece of DNA

(2010) Jeanne Salje   CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY

What traits are carried on mobile genetic elements and why?

(2010) D J Rankin et al.   HEREDITY

Sequencing and comparative analysis of IncP-1α antibiotic resistance plasmids reveal a highly conserved backbone and differences within accessory regions

(2010) Rafael Szczepanowski et al.   JOURNAL OF BIOTECHNOLOGY

Mobility of Plasmids

(2010) C. Smillie et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Mutational effects and the evolution of new protein functions

(2010) Misha Soskine et al.   NATURE REVIEWS GENETICS

Plasmid copy number noise in monoclonal populations of bacteria

(2010) Jérôme Wong Ng et al.   PHYSICAL REVIEW E

The Genetic Landscape of a Cell

(2010) M. Costanzo et al.   SCIENCE

Why Genes Evolve Faster on Secondary Chromosomes in Bacteria

(2010) Vaughn S. Cooper et al.   PLoS Computational Biology

Conjugative DNA Transfer Induces the Bacterial SOS Response and Promotes Antibiotic Resistance Development through Integron Activation

(2010) Zeynep Baharoglu et al.   PLoS Genetics

Resistance Plasmid Families in Enterobacteriaceae

(2009) A. Carattoli   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Community shifts of soybean stem-associated bacteria responding to different nodulation phenotypes and N levels

(2009) Seishi Ikeda et al.   ISME Journal

Conjugative plasmids: vessels of the communal gene pool

(2009) A. Norman et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Network analyses structure genetic diversity in independent genetic worlds

(2009) S. Halary et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Recombination and Selection Can Remove blaTEM Alleles from Bacterial Populations

(2008) J. E. Mroczkowska et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Fitness Trade-Offs in blaTEM Evolution

(2008) J. E. Mroczkowska et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Evidence for recombination among the alleles encoding TEM and SHV  -lactamases

(2008) M. Barlow et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Evolution and Recombination of the Plasmidic qnr Alleles

(2008) Mia H. C. Baquirin et al.   JOURNAL OF MOLECULAR EVOLUTION

A Thirty Million Year-Old Inherited Heteroplasmy

(2008) Vincent Doublet et al.   PLoS One

Adaptation from standing genetic variation

(2007) R BARRETT et al.   TRENDS IN ECOLOGY & EVOLUTION