The distributed genome hypothesis as a rubric for understanding evolution in situ during chronic bacterial biofilm infectious processes.

No abstract is available for this paper.

• Publication year

  2010

• Venue

  FEMS Immunology & Medical Microbiology

• Publication date

  2010-08-01

• Fields of study

  Biology, Medicine, Environmental Science

• Identifiers
  DOI 10.1111/j.1574-695X.2010.00704.xPMID 20618850PMCID PMC2910629
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Pan-genome analysis provides much higher strain typing resolution than multi-locus sequence typing.

  2010cited by this paper
• Generation of Genic Diversity among Streptococcus pneumoniae Strains via Horizontal Gene Transfer during a Chronic Polyclonal Pediatric Infection

  2010cited by this paper
• Evolution of MRSA During Hospital Transmission and Intercontinental Spread

  2010cited by this paper
• Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species

  2010cited by this paper
• Faculty Opinions recommendation of Evolution of MRSA during hospital transmission and intercontinental spread.

  2010cited by this paper
• Adaptive evolution in single species bacterial biofilms.

  2009cited by this paper
• Bacterial otitis media, the chinchilla middle ear, and biofilms.

  2009cited by this paper
• Modulation of eDNA Release and Degradation Affects Staphylococcus aureus Biofilm Maturation

  2009cited by this paper
• Chronic Surgical Site Infection Due to Suture-Associated Polymicrobial Biofilm

  2009cited by this paper
• Fluorescence "in situ" hybridization for the detection of biofilm in the middle ear and upper respiratory tract mucosa.

  2009cited by this paper
• Cell death in Streptococcus mutans biofilms: a link between CSP and extracellular DNA.

  2009influential reference
• Ultrastructural examination of failed molar retreatment with secondary apical periodontitis: an examination of endodontic biofilms in an endodontic retreatment failure.

  2009cited by this paper
• Tracing the Evolution of Competence in Haemophilus influenzae

  2009cited by this paper
• Streptococcus pneumoniae forms surface-attached communities in the middle ear of experimentally infected chinchillas.

  2009cited by this paper
• A fratricidal mechanism is responsible for eDNA release and contributes to biofilm development of Enterococcus faecalis

  2009influential reference
• Direct demonstration of viable Staphylococcus aureus biofilms in an infected total joint arthroplasty. A case report.

  2008influential reference
• An adherent Gardnerella vaginalis biofilm persists on the vaginal epithelium after standard therapy with oral metronidazole.

  2008cited by this paper
• High Genetic Diversity of Nontypeable Haemophilus influenzae Isolates from Two Children Attending a Day Care Center

  2008cited by this paper
• What makes pathogens pathogenic

  2008cited by this paper
• Prevalence of Biofilm-forming Bacteria in Chronic Rhinosinusitis

  2008cited by this paper
• Dynamic Correlation between Intrahost HIV-1 Quasispecies Evolution and Disease Progression

  2008cited by this paper
• Biofilms and chronic infections.

  2008cited by this paper
• Population-level virulence factors amongst pathogenic bacteria: relation to infection outcome.

  2008cited by this paper
• Characterization of biofilm matrix, degradation by DNase treatment and evidence of capsule downregulation in Streptococcus pneumoniae clinical isolates

  2008cited by this paper
• Confocal Scanning Laser Microscopy Evidence of Biofilms in Patients With Chronic Rhinosinusitis

  2007cited by this paper
• Pharyngeal Colonization Dynamics of Haemophilus influenzae and Haemophilus haemolyticus in Healthy Adult Carriers

  2007cited by this paper
• Characterization and modeling of the Haemophilus influenzae core and supragenomes based on the complete genomic sequences of Rd and 12 clinical nontypeable strains

  2007cited by this paper
• Evolution of species interactions in a biofilm community

  2007cited by this paper
• Comparative Genomic Analyses of Seventeen Streptococcus pneumoniae Strains: Insights into the Pneumococcal Supragenome

  2007influential reference
• Sequence and functional analyses of Haemophilus spp. genomic islands

  2007cited by this paper
• Bacterial Biofilms in Otitis Media: Evidence and Relevance

  2007influential reference
• Cannibalism and fratricide: mechanisms and raisons d'être

  2007cited by this paper
• Competence‐induced fratricide in streptococci

  2007cited by this paper
• Virulence phenotypes of low-passage clinical isolates of Nontypeable Haemophilus influenzae assessed using the chinchilla laniger model of otitis media

  2007cited by this paper
• Biofilms Formed by Nontypeable Haemophilus influenzae In Vivo Contain both Double-Stranded DNA and Type IV Pilin Protein

  2007cited by this paper
• High Rates of Transmission of and Colonization by Streptococcus pneumoniae and Haemophilus influenzae within a Day Care Center Revealed in a Longitudinal Study

  2007cited by this paper
• Molecular Epidemiology and Dynamics of Pseudomonas aeruginosa Populations in Lungs of Cystic Fibrosis Patients

  2007cited by this paper
• Extensive Genomic Plasticity in Pseudomonas aeruginosa Revealed by Identification and Distribution Studies of Novel Genes among Clinical Isolates

  2006cited by this paper
• The breadth of bacterial diversity in the human periodontal pocket and other oral sites.

  2006cited by this paper
• Bacterial Biofilms in Chronic Rhinosinusitis

  2006cited by this paper
• Novel Type IV Secretion System Involved in Propagation of Genomic Islands

  2006cited by this paper
• Identification of adenoid biofilms in chronic rhinosinusitis.

  2006cited by this paper
• Targeted Killing of Streptococcus mutans by a Pheromone-Guided “Smart” Antimicrobial Peptide

  2006cited by this paper
• New insights into the pneumococcal fratricide: relationship to clumping and identification of a novel immunity factor

  2006cited by this paper
• Bacterial Biofilms on the Sinus Mucosa of Human Subjects With Chronic Rhinosinusitis

  2006cited by this paper
• Direct detection of bacterial biofilms on the middle-ear mucosa of children with chronic otitis media.

  2006cited by this paper
• Evolution of competence and DNA uptake specificity in the Pasteurellaceae

  2006cited by this paper
• Antibiotic Stress Induces Genetic Transformability in the Human Pathogen Streptococcus pneumoniae

  2006cited by this paper
• Cell density- and ComE-dependent expression of a group of mutacin and mutacin-like genes in Streptococcus mutans.

  2006influential reference
• Identification, prevalence and population structure of non-typable Streptococcus pneumoniae in carriage samples isolated from preschoolers attending day-care centres.

  2006cited by this paper
• The diabetic foot: The importance of biofilms and wound bed preparation

  2006cited by this paper
• SESSION II: DEALING WITH BIOFILMS Molecular and Imaging Techniques for Bacterial Biofilms in Joint Arthroplasty Infections

  2005cited by this paper
• Biofilm theory can guide the treatment of device-related orthopaedic infections.

  2005cited by this paper
• Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial "pan-genome".

  2005cited by this paper
• Bacterial plurality as a general mechanism driving persistence in chronic infections.

  2005cited by this paper
• Mucosal Biofilm Formation on Middle‐Ear Mucosa in a Nonhuman Primate Model of Chronic Suppurative Otitis Media

  2005cited by this paper
• Identification of New hmwA Alleles from Nontypeable Haemophilus influenzae

  2005cited by this paper
• Genome evolution in bacteria: order beneath chaos.

  2005cited by this paper
• Studying plasmid horizontal transfer in situ: a critical review

  2005cited by this paper
• Role of bacteria in chronic prostatitis/ chronic pelvic pain syndrome

  2005cited by this paper
• Identification, Distribution, and Expression of Novel Genes in 10 Clinical Isolates of Nontypeable Haemophilus influenzae

  2005cited by this paper
• Biofilm theory can guide the treatment of device-related orthopaedic infections.

  2005cited by this paper
• Phages and the Evolution of Bacterial Pathogens: from Genomic Rearrangements to Lysogenic Conversion

  2004cited by this paper
• Commonality of elastic relaxation times in biofilms.

  2004cited by this paper
• The role of biofilms in otolaryngologic infections

  2004cited by this paper
• Prevalence of the hifBC, hmw1A, hmw2A, hmwC, and hia Genes in Haemophilus influenzae Isolates

  2004cited by this paper
• Role for Biofilms in Infectious Disease

  2004cited by this paper
• Genetic Analysis of Diverse Disease-Causing Pneumococci Indicates High Levels of Diversity within Serotypes and Capsule Switching

  2004cited by this paper
• Self-generated diversity produces "insurance effects" in biofilm communities.

  2004cited by this paper
• Diversity and sharing of Haemophilus influenzae strains colonizing healthy children attending day-care centers

  2004cited by this paper
• Viscoelastic Properties of a Mixed Culture Biofilm from Rheometer Creep Analysis

  2003cited by this paper
• Anatomical evidence of microbial biofilms in tonsillar tissues: a possible mechanism to explain chronicity.

  2003cited by this paper
• Gene transfer occurs with enhanced efficiency in biofilms and induces enhanced stabilisation of the biofilm structure.

  2003cited by this paper
• Mucosal biofilm formation on middle-ear mucosa in the chinchilla model of otitis media.

  2002cited by this paper
• Biofilm material properties as related to shear-induced deformation and detachment phenomena

  2002cited by this paper
• Pilot Study of the Genetic Diversity of the Pneumococcal Nasopharyngeal Flora among Children Attending Day Care Centers

  2002cited by this paper
• Evidence for microbial biofilms in cholesteatomas.

  2002cited by this paper
• Viscoelastic fluid description of bacterial biofilm material properties.

  2002cited by this paper
• Genetic exchange between Treponema denticola and Streptococcus gordonii in biofilms.

  2002cited by this paper
• Extracellular DNA required for bacterial biofilm formation.

  2002cited by this paper
• The influence of fluid shear on the structure and material properties of sulphate-reducing bacterial biofilms

  2002cited by this paper
• Ballenger's Otorhinolaryngology Head and Neck Surgery

  2002cited by this paper
• Population biology of Streptococcus pneumoniae isolated from oropharyngeal carriage and invasive disease.

  1999cited by this paper
• Acquisition of New Capsular Genes Among Clinical Isolates of Antibiotic-Resistant Streptococcus pneumoniae

  1999cited by this paper
• Simultaneous respiratory tract colonization by multiple strains of nontypeable haemophilus influenzae in chronic obstructive pulmonary disease: implications for antibiotic therapy.

  1999cited by this paper
• Evidence of bacterial metabolic activity in culture-negative otitis media with effusion.

  1998cited by this paper
• Nonencapsulated Haemophilus influenzae in Aboriginal infants with otitis media: prolonged carriage of P2 porin variants and evidence for horizontal P2 gene transfer

  1997cited by this paper
• Carriage of multiple ribotypes of non-encapsulated Haemophilus influenzae in Aboriginal infants with otitis media

  1996cited by this paper
• Otorhinolaryngology : head and neck surgery

  1996cited by this paper
• Oxygen metabolism, oxidative stress and acid-base physiology of dental plaque biofilms

  1995cited by this paper
• Long PCR-ribotyping of nontypeable Haemophilus influenzae

  1995cited by this paper
• Bacterial biofilms: influence on the pathogenesis, diagnosis and treatment of urinary tract infections.

  1994cited by this paper
• Clinical trials of recombinant human DNase in cystic fibrosis patients

  1993cited by this paper
• Clinical trials of recombinant human DNase in cystic fibrosis patients.

  1993cited by this paper
• Demonstration of transient bacterobilia by foreign body implantation in feline biliary tract

  1991cited by this paper
• Mode of growth of bacterial pathogens in chronic polymicrobial human osteomyelitis

  1985cited by this paper
• The Significance of Pneumococcal Types.

  1981cited by this paper
• Defined Nongrowth Media for Stage II Development of Competence in Haemophilus influenzae

  1970cited by this paper
• GENETIC EXCHANGE IN SALMONELLA

  1952cited by this paper
• Hypoplasia of the exocrine tissue of the pancreas.

  1952cited by this paper

• Characterization of the family-level Borreliaceae pan-genome and development of an episomal typing protocol

  2025cites this paper
• In vitro antibacterial activity and mechanism of cell-free supernatant of Bacillus velezensis Ea73 against Streptococcus agalactiae, a predominant bacteria that causes mastitis in cows

  2025cites this paper
• Metronidazole response profiles of Gardnerella species are congruent with phylogenetic and comparative genomic analyses

  2025cites this paper
• Advances in bacteriophage-mediated strategies for combating polymicrobial biofilms

  2024cites this paper
• Characterization of the family-level Borreliaceae pan-genome and development of an episomal typing protocol

  2024cites this paper
• Bacterial Biofilm Persistence in Human Jawbone Following Tooth Extraction: Implications of Surgical Debridement and Resident Population-Shift for Oral Implants

  2023cites this paper
• Understanding Bartonella-Associated Infective Endocarditis: Examining Heart Valve and Vegetation Appearance and the Role of Neutrophilic Leukocytes

  2023cites this paper
• Evidence supportive of a bacterial component in the etiology for Alzheimer’s disease and for a temporal-spatial development of a pathogenic microbiome in the brain

  2023cites this paper
• Using SMART Magnetic Fluids and Gels for Prevention and Destruction of Bacterial Biofilms

  2023cites this paper
• The Presence of Biofilms in Instrumented Spinal Fusions

  2022influential citation
• Flavaspidic acid BB combined with mupirocin improves its anti-bacterial and anti-biofilm activities against Staphylococcus epidermidis

  2022cites this paper
• Bacterial Identification and Visualization of Bacterial Biofilms Adjacent to Fracture Sites After Internal Fixation

  2022cites this paper
• Evidence for the Existence of a Bacterial Etiology for Alzheimer’s Disease and for a Temporal-Spatial Development of a Pathogenic Microbiome in the Brain

  2022cites this paper
• Quantitative analysis of horizontal gene transfer in complex systems.

  2021cites this paper
• Tolerant Small-colony Variants Form Prior to Resistance Within a Staphylococcus aureus Biofilm Based on Antibiotic Selective Pressure

  2021cites this paper
• Antibacterial Study of Peptide‐Gold Nanostar Complex against Staphylococcus Aureus

  2021cites this paper
• Low-molecular weight chitosan enhances antibacterial effect of antibiotics and permeabilizes cytoplasmic membrane of Staphylococcus epidermidis biofilm cells

  2021cites this paper
• The Bacterial Guide to Designing a Diversified Gene Portfolio

  2020cites this paper
• The role and relationship with efflux pump of biofilm formation in Klebsiella pneumoniae.

  2020cites this paper
• Beyond the pan-genome: current perspectives on the functional and practical outcomes of the distributed genome hypothesis

  2020cites this paper
• The Development of a Pipeline for the Identification and Validation of Small-Molecule RelA Inhibitors for Use as Anti-Biofilm Drugs

  2020cites this paper
• Biofilm-forming capability and drug resistance of extraintestinal pathogenic Escherichia coli isolated from diseased swine

  2020cites this paper
• Deletion of genes involved in the ketogluconate metabolism, Entner-Doudoroff pathway, and glucose dehydrogenase increase local and invasive virulence phenotypes in Streptococcus pneumoniae

  2019cites this paper
• After the Taxonomic Identification Phase: Addressing the Functions of Symbiotic Communities Within Marine Invertebrates

  2019cites this paper
• Biofilm: A Hotspot for Emerging Bacterial Genotypes.

  2018cites this paper
• The Histidine Decarboxylase Gene Cluster of Lactobacillus parabuchneri Was Gained by Horizontal Gene Transfer and Is Mobile within the Species

  2017cites this paper
• Scaling Up the Phylogenetic Detection of Lateral Gene Transfer Events.

  2017cites this paper
• Screening out irrelevant cell-based models of disease

  2017cites this paper
• Large scale genomic analysis shows no evidence for pathogen adaptation between the blood and cerebrospinal fluid niches during bacterial meningitis

  2017cites this paper
• Host and pathogen genetics associated with pneumococcal meningitis

  2017cites this paper
• Comparing culture and molecular methods for the identification of microorganisms involved in necrotizing soft tissue infections

  2016cites this paper
• Identification and Characterization of msf, a Novel Virulence Factor in Haemophilus influenzae

  2016cites this paper
• The basic mechanisms of the formation of epidemically significant nosocomial bacterial clones

  2016influential citation
• Levels of selection in biofilms: multispecies biofilms are not evolutionary individuals

  2016cites this paper
• Screening out irrelevant cell-based models of disease

  2016cites this paper
• Surgical site infection in orthopaedics

  2016cites this paper
• Haloarchaeal Species Genesis: Diversity, Recombination, and Evolution

  2016cites this paper
• Polymerase Chain Reaction–Electrospray–Time-of-Flight Mass Spectrometry Versus Culture for Bacterial Detection in Septic Arthritis and Osteoarthritis

  2016cites this paper
• Levels of selection in biofilms: multispecies biofilms are not evolutionary individuals

  2016cites this paper
• Large scale genomic analysis shows no evidence for repeated pathogen adaptation during the invasive phase of bacterial meningitis in humans

  2016cites this paper
• Advances in the understanding and treatment of musculoskeletal infections.

  2015cites this paper
• Improved identification of polymicrobial infection in total knee arthroplasty through sonicate fluid cultures

  2015cites this paper
• Horizontal Gene Transfer, Dispersal and Haloarchaeal Speciation

  2015cites this paper
• Biofilm-based implant infections in orthopaedics.

  2015cites this paper
• Rethinking evolutionary individuality

  2015cites this paper
• Streptococcus pneumoniae Supragenome Hybridization Arrays for Profiling of Genetic Content and Gene Expression

  2015cites this paper
• A Technotheoretical Approach to the Management of Osteomyelitis

  2015cites this paper
• Vaginosis bacteriana por Gardnerella vaginalis: Nuevas enseñanzas desde la ecología molecular

  2015cites this paper
• The Proceedings from Halophiles 2013, the International Congress on Halophilic Microorganisms

  2015cites this paper
• What Biofilms Can Teach Us about Individuality

  2015cites this paper
• Starting small: Using little microbes to tackle big philosophical problems

  2015influential citation
• Evidence from phylogenetic and genome fingerprinting analyses suggests rapidly changing variation in Halorubrum and Haloarcula populations

  2014cites this paper
• Biofilm in vitro; Biofilm in vivo Helicobacter pylori: A chameleon-like approach to life

  2014cites this paper
• Can We Trust Intraoperative Culture Results in Nonunions?

  2014cites this paper
• Differential response of gel-forming mucins to pathogenic middle ear bacteria.

  2014cites this paper
• Development and Validation of an Haemophilus influenzae Supragenome Hybridization (SGH) Array for Transcriptomic Analyses

  2014cites this paper
• What role do periodontal pathogens play in osteoarthritis and periprosthetic joint infections of the knee?

  2014cites this paper
• Filaments in curved streamlines: rapid formation of Staphylococcus aureus biofilm streamers

  2014cites this paper
• Future of diagnostic microbiology.

  2014cites this paper
• Pesquisa de módulos de genes associados à invasividade de Streptococcus pneumoniae usando semelhanças semânticas

  2014cites this paper
• The molecular basis of infections associated to orthopedic implants Bases moleculares de la infección asociada a implantes ortopédicos

  2014cites this paper
• [The molecular basis of infections associated to orthopedic implants].

  2014cites this paper
• Determination of the biofilm formation capacity of bacterial pathogens associated with otorhinolaryngologic diseases in the Malaysian population

  2014cites this paper
• Biofilms and Helicobacter pylori: Dissemination and persistence within the environment and host.

  2014cites this paper
• Design and validation of a supragenome array for determination of the genomic content of Haemophilus influenzae isolates

  2013cites this paper
• The time is now for gene- and genome-based bacterial diagnostics: "you say you want a revolution".

  2013cites this paper
• The polymicrobial nature of biofilm infection.

  2013cites this paper
• Interactions in the microbiome: communities of organisms and communities of genes

  2013cites this paper
• FORMATION OF BACTERIAL BIOFILM

  2013cites this paper
• Transposon Mutagenesis in Disease, Drug Discovery, and Bacterial Evolution

  2013cites this paper
• The role of bacterial biofilms in device-associated infection.

  2013cites this paper
• Genomes and Post-genome Technology

  2013cites this paper
• In Vivo Capsular Switch in Streptococcus pneumoniae – Analysis by Whole Genome Sequencing

  2012cites this paper
• From Koch's Postulates to Biofilm Theory. The Lesson of Bill Costerton

  2012cites this paper
• Biological individuality: the case of biofilms

  2012influential citation
• Molecular Mechanisms of Biofilm Infection: Biofilm Virulence Factors

  2012cites this paper
• Microbial neopleomorphism

  2012cites this paper
• Analysis of the Lactobacillus casei supragenome and its influence in species evolution and lifestyle adaptation

  2012influential citation
• Biofilm formation in Streptococcus pneumoniae

  2012cites this paper
• Comparative Genomic Analyses of 17 Clinical Isolates of Gardnerella vaginalis Provide Evidence of Multiple Genetically Isolated Clades Consistent with Subspeciation into Genovars

  2012cites this paper
• Detection, identification and quantification of microorganisms in selected infections

  2012cites this paper
• Genomic sequencing of uncultured microorganisms from single cells

  2012cites this paper
• Review article: biofilm formation by Helicobacter pylori as a target for eradication of resistant infection

  2012cites this paper
• Fresh Approaches to Anti-Infective Therapies

  2012cites this paper
• Diagnostic Methods Conventional Culture and Molecular in Venous Insufficiency Wounds by Use of Characterization of Bacterial Communities

  2012cites this paper
• Natural Competence Is a Major Mechanism for Horizontal DNA Transfer in the Oral Pathogen Porphyromonas gingivalis

  2012cites this paper
• Engineering biofilm formation and dispersal.

  2011cites this paper
• Contribution of Horizontal Gene Transfer to Virulence and Antibiotic Resistance to Pathogens Transmitted in Healthcare Facilities

  2011cites this paper
• Comparative analysis and supragenome modeling of twelve Moraxella catarrhalis clinical isolates

  2011cites this paper
• Regulation of Virulence Gene Expression Resulting from Streptococcus pneumoniae and Nontypeable Haemophilus influenzae Interactions in Chronic Disease

  2011cites this paper
• Cyanobacterial genomics for ecology and biotechnology.

  2011cites this paper
• Self-Transmissibility of the Integrative and Conjugative Element ICEPm1 between Clinical Isolates Requires a Functional Integrase, Relaxase, and Type IV Secretion System

  2011cites this paper
• IS5 inserts upstream of the master motility operon flhDC in a quasi-Lamarckian way

  2011cites this paper
• Population level virulence in polymicrobial communities associated with chronic disease

  2011cites this paper
• Wounds, functional disability, and indwelling devices are associated with cocolonization by methicillin-resistant Staphylococcus aureus and vancomycin-resistant enterococci in southeast Michigan.

  2011cites this paper
• Comparative supragenomic analyses among the pathogens Staphylococcus aureus, Streptococcus pneumoniae, and Haemophilus influenzae Using a modification of the finite supragenome model

  2011cites this paper
• Predation of human pathogens by the predatory bacteria Micavibrio aeruginosavorus and Bdellovibrio bacteriovorus

  2011cites this paper
• Characterization of Bacterial Communities in Venous Insufficiency Wounds by Use of Conventional Culture and Molecular Diagnostic Methods

  2011cites this paper
• Generation of Genic Diversity among Streptococcus pneumoniae Strains via Horizontal Gene Transfer during a Chronic Polyclonal Pediatric Infection

  2010cites this paper
• Survival against the odds: microbiology of root canals associated with post-treatment

  2008cites this paper