On the public citation graph

Architectural transitions in Vibrio cholerae biofilms at single-cell resolution

0 signed · 277 inferred · view as graph

Inferred edges come from two machine sources: sweeps of open repository metadata (mostly SSRN and Zenodo), and a bulk OpenAlex citation snapshot. Every row below is labelled with the one it came from. Neither is a complete citation index — absence here is not evidence of absence.

Is this your work? Sign in with ORCID and put your name on the claims that are yours.

Claim with ORCID

Reference health. See whether every reference in this work resolves to a known work and none has been retracted — and get a dated CiteStamped badge you can embed.

See reference health

What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1016/0076-6879(94)35157-0openalex-snapshot

[31] Analysis and construction of stable phenotypes in gram-negative bacteria with Tn5- and Tn10-derived minitransposons

inferredcites →https://doi.org/10.1016/0378-1119(95)00793-8openalex-snapshot

Positive selection vectors for allelic exchange

inferredcites →https://doi.org/10.1016/j.cell.2015.05.005openalex-snapshot

The Mechanical World of Bacteria

inferredcites →https://doi.org/10.1016/j.chom.2015.09.002openalex-snapshot

Quantitative Imaging of Gut Microbiota Spatial Organization

inferredcites →https://doi.org/10.1016/j.cmi.2014.10.024openalex-snapshot

ESCMID∗ guideline for the diagnosis and treatment of biofilm infections 2014

inferredcites →https://doi.org/10.1016/j.copbio.2011.04.014openalex-snapshot

Bacterial growth laws and their applications

inferredcites →https://doi.org/10.1016/j.cub.2013.10.030openalex-snapshot

Solutions to the Public Goods Dilemma in Bacterial Biofilms

inferredcites →https://doi.org/10.1016/j.tim.2004.11.007openalex-snapshot

Sociomicrobiology: the connections between quorum sensing and biofilms

inferredcites →https://doi.org/10.1016/j.tim.2004.11.010openalex-snapshot

Survival strategies of infectious biofilms

inferredcites →https://doi.org/10.1016/j.tim.2012.10.008openalex-snapshot

Small RNAs and their role in biofilm formation

inferredcites →https://doi.org/10.1016/j.tim.2015.09.002openalex-snapshot

How Bacteria Use Type IV Pili Machinery on Surfaces

inferredcites →https://doi.org/10.1016/j.watres.2010.07.081openalex-snapshot

Control of start-up and operation of anaerobic biofilm reactors: An overview of 15 years of research

inferredcites →https://doi.org/10.1021/la401322kopenalex-snapshot

Role of Environmental and Antibiotic Stress on Staphylococcus epidermidis Biofilm Microstructure

inferredcites →https://doi.org/10.1021/la5044156openalex-snapshot

Effects of Temperature on the Morphological, Polymeric, and Mechanical Properties ofStaphylococcus epidermidisBacterial Biofilms

inferredcites →https://doi.org/10.1038/ismej.2014.246openalex-snapshot

Extracellular matrix structure governs invasion resistance in bacterial biofilms

inferredcites →https://doi.org/10.1038/nature12155openalex-snapshot

Psl trails guide exploration and microcolony formation in Pseudomonas aeruginosa biofilms

inferredcites →https://doi.org/10.1038/nature15709openalex-snapshot

Ion channels enable electrical communication in bacterial communities

inferredcites →https://doi.org/10.1038/ng.3148openalex-snapshot

Convergent evolution and adaptation of Pseudomonas aeruginosa within patients with cystic fibrosis

inferredcites →https://doi.org/10.1038/nrmicro1838openalex-snapshot

Physiological heterogeneity in biofilms

inferredcites →https://doi.org/10.1038/nrmicro2415openalex-snapshot

The biofilm matrix

inferredcites →https://doi.org/10.1038/nrmicro2695openalex-snapshot

Should we stay or should we go: mechanisms and ecological consequences for biofilm dispersal

inferredcites →https://doi.org/10.1038/nrmicro3433openalex-snapshot

Living in the matrix: assembly and control of Vibrio cholerae biofilms

inferredcites →https://doi.org/10.1038/nrmicro821openalex-snapshot

Bacterial biofilms: from the Natural environment to infectious diseases

inferredcites →https://doi.org/10.1039/c5sm00963dopenalex-snapshot

Stochastic binding of Staphylococcus aureus to hydrophobic surfaces

inferredcites →https://doi.org/10.1046/j.1365-2958.2003.03688.xopenalex-snapshot

Quorum sensing controls biofilm formation in Vibrio cholerae

inferredcites →https://doi.org/10.1063/1.431199openalex-snapshot

Liquid crystal phase diagrams: A study of seven thermotropic materials

inferredcites →https://doi.org/10.1063/1.473404openalex-snapshot

Tracing the phase boundaries of hard spherocylinders

inferredcites →https://doi.org/10.1073/pnas.0308707101openalex-snapshot

The Vibrio cholerae chitin utilization program

inferredcites →https://doi.org/10.1073/pnas.052694299openalex-snapshot

Quorum-sensing regulators control virulence gene expression in Vibrio cholerae

inferredcites →https://doi.org/10.1073/pnas.0706805105openalex-snapshot

Biomechanical ordering of dense cell populations

inferredcites →https://doi.org/10.1073/pnas.0807435105openalex-snapshot

Laws of population growth

inferredcites →https://doi.org/10.1073/pnas.1001651107openalex-snapshot

Collective motion and density fluctuations in bacterial colonies

inferredcites →https://doi.org/10.1073/pnas.1019079108openalex-snapshot

Fluid dynamics and noise in bacterial cell–cell and cell–surface scattering

inferredcites →https://doi.org/10.1073/pnas.1109261108openalex-snapshot

Osmotic spreading of Bacillus subtilis biofilms driven by an extracellular matrix

inferredcites →https://doi.org/10.1073/pnas.1111147108openalex-snapshot

A fitness trade-off between local competition and dispersal in Vibrio cholerae biofilms

inferredcites →https://doi.org/10.1073/pnas.1202032109openalex-snapshot

Meso-scale turbulence in living fluids

inferredcites →https://doi.org/10.1073/pnas.1212429109openalex-snapshot

Localized cell death focuses mechanical forces during 3D patterning in a biofilm

inferredcites →https://doi.org/10.1073/pnas.1216376110openalex-snapshot

Liquid transport facilitated by channels in Bacillus subtilis biofilms

inferredcites →https://doi.org/10.1073/pnas.1300321110openalex-snapshot

Biofilm streamers cause catastrophic disruption of flow with consequences for environmental and medical systems

inferredcites →https://doi.org/10.1073/pnas.1421138111openalex-snapshot

Bacterial growth laws reflect the evolutionary importance of energy efficiency

inferredcites →https://doi.org/10.1073/pnas.1504948112openalex-snapshot

Mechanically-driven phase separation in a growing bacterial colony

inferredcites →https://doi.org/10.1073/pnas.1512424112openalex-snapshot

In situ proteolysis of the Vibrio cholerae matrix protein RbmA promotes biofilm recruitment

inferredcites →https://doi.org/10.1088/1367-2630/17/3/030401openalex-snapshot

Focus on the physics of biofilms

inferredcites →https://doi.org/10.1093/femsre/fuv015openalex-snapshot

Giving structure to the biofilm matrix: an overview of individual strategies and emerging common themes

inferredcites →https://doi.org/10.1098/rsif.2014.0400openalex-snapshot

The role of mechanical forces in the planar-to-bulk transition in growing Escherichia coli microcolonies

inferredcites →https://doi.org/10.1103/physrevlett.110.228102openalex-snapshot

Fluid Dynamics of Bacterial Turbulence

inferredcites →https://doi.org/10.1103/physrevlett.35.48openalex-snapshot

New Liquid-Crystal Phase Diagram

inferredcites →https://doi.org/10.1103/physrevlett.63.2068openalex-snapshot

Isotropic-nematic phase transition and angular correlations in isotropic suspensions of tobacco mosaic virus

inferredcites →https://doi.org/10.1103/physrevlett.98.158102openalex-snapshot

Concentration Dependence of the Collective Dynamics of Swimming Bacteria

inferredcites →https://doi.org/10.1111/j.1365-2958.2006.05568.xopenalex-snapshot

Smooth to rugose phase variation in Vibrio cholerae can be mediated by a single nucleotide change that targets c‐di‐GMP signalling pathway

inferredcites →https://doi.org/10.1111/j.1462-2920.2005.00787.xopenalex-snapshot

A framework for multidimensional modelling of activity and structure of multispecies biofilms

inferredcites →https://doi.org/10.1111/j.1462-2920.2011.02414.xopenalex-snapshot

iDynoMiCS: next‐generation individual‐based modelling of biofilms

inferredcites →https://doi.org/10.1111/j.1574-695x.2010.00690.xopenalex-snapshot

An update on Pseudomonas aeruginosa biofilm formation, tolerance, and dispersal

inferredcites →https://doi.org/10.1111/j.1574-6976.2008.00150.xopenalex-snapshot

The sociobiology of biofilms

inferredcites →https://doi.org/10.1111/j.1749-6632.1949.tb27296.xopenalex-snapshot

THE EFFECTS OF SHAPE ON THE INTERACTION OF COLLOIDAL PARTICLES

inferredcites →https://doi.org/10.1111/joim.12242openalex-snapshot

Microbial biofilm formation: a need to act

inferredcites →https://doi.org/10.1126/science.1181185openalex-snapshot

Vibrio cholerae VpsT Regulates Matrix Production and Motility by Directly Sensing Cyclic di-GMP

inferredcites →https://doi.org/10.1126/science.1211037openalex-snapshot

Active Starvation Responses Mediate Antibiotic Tolerance in Biofilms and Nutrient-Limited Bacteria

inferredcites →https://doi.org/10.1126/science.1222981openalex-snapshot

Molecular Architecture and Assembly Principles of Vibrio cholerae Biofilms

inferredcites →https://doi.org/10.1128/cmr.15.2.167-193.2002openalex-snapshot

Biofilms: Survival Mechanisms of Clinically Relevant Microorganisms

inferredcites →https://doi.org/10.1128/jb.00374-13openalex-snapshot

Structural Basis for Biofilm Formation via the Vibrio cholerae Matrix Protein RbmA

inferredcites →https://doi.org/10.1128/jb.00946-13openalex-snapshot

Cellulose as an Architectural Element in Spatially Structured Escherichia coli Biofilms

inferredcites →https://doi.org/10.1128/jb.01569-06openalex-snapshot

The rbmBCDEF Gene Cluster Modulates Development of Rugose Colony Morphology and Biofilm Formation in Vibrio cholerae

inferredcites →https://doi.org/10.1128/jb.188.3.1049-1059.2006openalex-snapshot

Identification and Characterization of RbmA, a Novel Protein Required for the Development of Rugose Colony Morphology and Biofilm Structure in Vibrio cholerae

inferredcites →https://doi.org/10.1128/mbio.00103-13openalex-snapshot

Microanatomy at Cellular Resolution and Spatial Order of Physiological Differentiation in a Bacterial Biofilm

inferredcites →https://doi.org/10.1128/mbio.02456-14openalex-snapshot

A Hierarchical Cascade of Second Messengers Regulates Pseudomonas aeruginosa Surface Behaviors

inferredcites →https://doi.org/10.1146/annurev-biophys-051013-022916openalex-snapshot

Microfluidics Expanding the Frontiers of Microbial Ecology

inferredcites →https://doi.org/10.1177/0022034509359403openalex-snapshot

Biofilm Dispersal: Mechanisms, Clinical Implications, and Potential Therapeutic Uses

inferredcites →https://doi.org/10.1371/journal.pbio.0050302openalex-snapshot

Self-Organization in High-Density Bacterial Colonies: Efficient Crowd Control

inferredcites →https://doi.org/10.1371/journal.pbio.1002191openalex-snapshot

Biofilm Formation As a Response to Ecological Competition

inferredcites →https://doi.org/10.1371/journal.pcbi.1003398openalex-snapshot

Metabolic and Demographic Feedbacks Shape the Emergent Spatial Structure and Function of Microbial Communities

inferredcites →https://doi.org/10.1371/journal.pone.0063304openalex-snapshot

Non-Local Interaction via Diffusible Resource Prevents Coexistence of Cooperators and Cheaters in a Lattice Model

inferredcites →https://doi.org/10.1371/journal.pone.0082458openalex-snapshot

Structural Insights into RbmA, a Biofilm Scaffolding Protein of V. Cholerae

inferredcites →https://doi.org/10.1371/journal.ppat.1002210openalex-snapshot

A Communal Bacterial Adhesin Anchors Biofilm and Bystander Cells to Surfaces

inferredcites →https://doi.org/10.1371/journal.ppat.1004405openalex-snapshot

Insights into Vibrio cholerae Intestinal Colonization from Monitoring Fluorescently Labeled Bacteria

inferredcites →https://doi.org/10.3390/sym6020444openalex-snapshot

Chiral Liquid Crystals: Structures, Phases, Effects

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.2139/ssrn.4073174openalex-extracted

inferred← citeshttps://doi.org/10.2139/ssrn.4886568openalex-extracted

Heterogeneous Bacteria-Phage Competition Generates Complex Colony Shapes

inferred← citeshttps://doi.org/10.1002/ijch.202200075openalex-snapshot

Mechanical Characterization and Single‐Cell Imaging of Bacterial Biofilms

inferred← citeshttps://doi.org/10.1002/iub.2439openalex-snapshot

Vibrio cholerae biofilm scaffolding protein RbmA shows an intrinsic, phosphate‐dependent autoproteolysis activity

inferred← citeshttps://doi.org/10.1002/smsc.202200047openalex-snapshot

A Microfluidic Approach for Quantitative Study of Spatial Heterogeneity in Bacterial Biofilms

inferred← citeshttps://doi.org/10.1007/978-3-031-22997-8_2openalex-snapshot

New Insights into Vibrio cholerae Biofilms from Molecular Biophysics to Microbial Ecology

inferred← citeshttps://doi.org/10.1007/978-3-031-70476-5_12openalex-snapshot

Experimental Approaches for Studying the Biofilm Matrix

inferred← citeshttps://doi.org/10.1007/978-3-662-69423-7_6openalex-snapshot

Information Processes

inferred← citeshttps://doi.org/10.1007/978-981-92-0038-2_3openalex-snapshot

Vibrio cholerae: An Emerging Model Organism for Bacteria and Pathogens with Wide Ecological Habitats

inferred← citeshttps://doi.org/10.1007/s10021-017-0114-3openalex-snapshot

Marine Ecosystems as Complex Adaptive Systems: Emergent Patterns, Critical Transitions, and Public Goods

inferred← citeshttps://doi.org/10.1007/s10118-019-2278-0openalex-snapshot

Biofilm Disruption Utilizing α/β Chimeric Polypeptide Molecular Brushes

inferred← citeshttps://doi.org/10.1007/s10295-020-02293-5openalex-snapshot

Biophysical methods to quantify bacterial behaviors at oil–water interfaces

inferred← citeshttps://doi.org/10.1007/s10856-017-5988-2openalex-snapshot

Initial stage of the biofilm formation on the NiTi and Ti6Al4V surface by the sulphur-oxidizing bacteria and sulphate-reducing bacteria

inferred← citeshttps://doi.org/10.1007/s11157-025-09742-6openalex-snapshot

Pleomorphism drives the lifestyle transitions in bacteria for micro-niche adaptation in biofilm

inferred← citeshttps://doi.org/10.1007/s12268-019-1038-6openalex-snapshot

Bakterielle Multizellularität in Biofilmen

inferred← citeshttps://doi.org/10.1007/s42729-022-00958-xopenalex-snapshot

Insight into Exopolysaccharide-Mediated Stress Tolerance in Plants: a Feasible Approach Towards the Development of Next-Generation Bioformulations

inferred← citeshttps://doi.org/10.1016/b978-0-12-801238-3.99205-5openalex-snapshot

Microbial Biofilms ☆

inferred← citeshttps://doi.org/10.1016/b978-0-323-88480-8.00012-1openalex-snapshot

Image processing of biofilms and its applications

inferred← citeshttps://doi.org/10.1016/b978-0-323-99977-9.00012-0openalex-snapshot

Pathogenic biofilms in environment and industrial setups and impact on human health

inferred← citeshttps://doi.org/10.1016/b978-0-443-19143-5.00012-8openalex-snapshot

New perspectives and role of phytochemicals in biofilm inhibition

inferred← citeshttps://doi.org/10.1016/j.bbrc.2023.149198openalex-snapshot

Phenotypic variations induced emergence of orientation order and morphology in Bacillus subtilis biofilm growth

inferred← citeshttps://doi.org/10.1016/j.bioflm.2022.100084openalex-snapshot

Intra-colony channel morphology in Escherichia coli biofilms is governed by nutrient availability and substrate stiffness

inferred← citeshttps://doi.org/10.1016/j.bioflm.2024.100209openalex-snapshot

Yielding behaviour of chemically treated Pseudomonas fluorescens biofilms

inferred← citeshttps://doi.org/10.1016/j.bioflm.2024.100249openalex-snapshot

Surfactin accelerates Bacillus subtilis pellicle biofilm development

inferred← citeshttps://doi.org/10.1016/j.bpj.2021.06.022openalex-snapshot

Spatiotemporal dynamics of growth and death within spherical bacterial colonies

inferred← citeshttps://doi.org/10.1016/j.bpj.2022.05.012openalex-snapshot

Mechanical limitation of bacterial motility mediated by growing cell chains

inferred← citeshttps://doi.org/10.1016/j.chom.2019.06.002openalex-snapshot

Surviving as a Community: Antibiotic Tolerance and Persistence in Bacterial Biofilms

inferred← citeshttps://doi.org/10.1016/j.cis.2017.11.002openalex-snapshot

Physico-chemistry of bacterial transmission versus adhesion

inferred← citeshttps://doi.org/10.1016/j.cis.2018.10.005openalex-snapshot

Physico-chemistry from initial bacterial adhesion to surface-programmed biofilm growth

inferred← citeshttps://doi.org/10.1016/j.cossms.2025.101222openalex-snapshot

Designing biofilm architecture through depletion-mediated self-assembly and emergent nematic order

inferred← citeshttps://doi.org/10.1016/j.cossms.2025.101228openalex-snapshot

Dissecting the physics of bacterial biofilms with agent-based simulations

inferred← citeshttps://doi.org/10.1016/j.cub.2017.09.041openalex-snapshot

Vibrio cholerae Combines Individual and Collective Sensing to Trigger Biofilm Dispersal

inferred← citeshttps://doi.org/10.1016/j.cub.2021.03.036openalex-snapshot

Bacterial predation transforms the landscape and community assembly of biofilms

inferred← citeshttps://doi.org/10.1016/j.fbio.2025.107330openalex-snapshot

Extracellular polymeric substances- the real target in eradicating pseudomonad biofilms

inferred← citeshttps://doi.org/10.1016/j.foodres.2018.11.045openalex-snapshot

Bootstrap parametric GB2 and bootstrap nonparametric distributions for studying shiga toxin-producing Escherichia coli strains growth rate variability

inferred← citeshttps://doi.org/10.1016/j.gde.2018.05.006openalex-snapshot

Microbial multicellular development: mechanical forces in action

inferred← citeshttps://doi.org/10.1016/j.isci.2021.102067openalex-snapshot

Morphogenesis and oxygen dynamics in phototrophic biofilms growing across a gradient of hydraulic conditions

inferred← citeshttps://doi.org/10.1016/j.isci.2021.102443openalex-snapshot

Mimicking biofilm formation and development: Recent progress in in vitro and in vivo biofilm models

inferred← citeshttps://doi.org/10.1016/j.isci.2022.105795openalex-snapshot

Evidence of a possible multicellular life cycle in Escherichia coli

inferred← citeshttps://doi.org/10.1016/j.jconhyd.2019.04.006openalex-snapshot

Upscaling of microbially driven first-order reactions in heterogeneous porous media

inferred← citeshttps://doi.org/10.1016/j.micres.2024.128034openalex-snapshot

Exploitative stress within Bacillus subtilis biofilm determines the spatial distribution of pleomorphic cells

inferred← citeshttps://doi.org/10.1016/j.mtbio.2022.100504openalex-snapshot

Ultra-lightweight living structural material for enhanced stiffness and environmental sensing

inferred← citeshttps://doi.org/10.1016/j.tim.2020.03.016openalex-snapshot

Biofilm Matrixome: Extracellular Components in Structured Microbial Communities

inferred← citeshttps://doi.org/10.1017/jfm.2019.714openalex-snapshot

Bacterial spinning top

inferred← citeshttps://doi.org/10.1017/s1431927618007158openalex-snapshot

STEM Observation of eDNA as a Dominant Component of EPS in Pseudomonas aeruginosa Biofilm

inferred← citeshttps://doi.org/10.1021/acs.jpcb.1c07759openalex-snapshot

Optically Accessible Microfluidic Flow Channels for Noninvasive High-Resolution Biofilm Imaging Using Lattice Light Sheet Microscopy

inferred← citeshttps://doi.org/10.1021/acs.langmuir.9b00271openalex-snapshot

Role of Flagella, Type IV Pili, Biosurfactants, and Extracellular Polymeric Substance Polysaccharides on the Formation of Pellicles by Pseudomonas aeruginosa

inferred← citeshttps://doi.org/10.1021/acsnano.6b05123openalex-snapshot

Evolution of Cell Size Homeostasis and Growth Rate Diversity during Initial Surface Colonization of Shewanella oneidensis

inferred← citeshttps://doi.org/10.1021/acsnano.6b06461openalex-snapshot

An Emerging Grip on the Growth of Grounded Bacteria

inferred← citeshttps://doi.org/10.1038/ismej.2017.190openalex-snapshot

Phage mobility is a core determinant of phage–bacteria coexistence in biofilms

inferred← citeshttps://doi.org/10.1038/ismej.2017.33openalex-snapshot

Environmental fluctuation governs selection for plasticity in biofilm production

inferred← citeshttps://doi.org/10.1038/nmicrobiol.2017.80openalex-snapshot

Surface-attached molecules control Staphylococcus aureus quorum sensing and biofilm development

inferred← citeshttps://doi.org/10.1038/npjbiofilms.2016.10openalex-snapshot

Piggyback-the-Winner in host-associated microbial communities

inferred← citeshttps://doi.org/10.1038/nrmicro.2016.84openalex-snapshot

Spatial structure, cooperation and competition in biofilms

inferred← citeshttps://doi.org/10.1038/s41396-020-0700-9openalex-snapshot

Intra-colony channels in E. coli function as a nutrient uptake system

inferred← citeshttps://doi.org/10.1038/s41467-017-00401-1openalex-snapshot

Extracellular-matrix-mediated osmotic pressure drives Vibrio cholerae biofilm expansion and cheater exclusion

inferred← citeshttps://doi.org/10.1038/s41467-020-14431-9openalex-snapshot

Stochastic pulsing of gene expression enables the generation of spatial patterns in Bacillus subtilis biofilms

inferred← citeshttps://doi.org/10.1038/s41467-020-15165-4openalex-snapshot

Dynamics of bacterial population growth in biofilms resemble spatial and structural aspects of urbanization

inferred← citeshttps://doi.org/10.1038/s41467-020-19866-8openalex-snapshot

Non-invasive single-cell morphometry in living bacterial biofilms

inferred← citeshttps://doi.org/10.1038/s41467-020-19890-8openalex-snapshot

RNA-mediated control of cell shape modulates antibiotic resistance in Vibrio cholerae

inferred← citeshttps://doi.org/10.1038/s41467-021-25408-7openalex-snapshot

Social motility of biofilm-like microcolonies in a gliding bacterium

inferred← citeshttps://doi.org/10.1038/s41467-021-26869-6openalex-snapshot

Mechanical forces drive a reorientation cascade leading to biofilm self-patterning

inferred← citeshttps://doi.org/10.1038/s41467-022-33816-6openalex-snapshot

Quorum-sensing control of matrix protein production drives fractal wrinkling and interfacial localization of Vibrio cholerae pellicles

inferred← citeshttps://doi.org/10.1038/s41467-025-67791-5openalex-snapshot

Emergent collective alignment gives competitive advantage to longer cells during range expansion

inferred← citeshttps://doi.org/10.1038/s41522-020-0126-1openalex-snapshot

Nonlinear rheological characteristics of single species bacterial biofilms

inferred← citeshttps://doi.org/10.1038/s41522-020-0135-0openalex-snapshot

Streptococcus mutans adhesion force sensing in multi-species oral biofilms

inferred← citeshttps://doi.org/10.1038/s41522-023-00380-wopenalex-snapshot

Active layer dynamics drives a transition to biofilm fingering

inferred← citeshttps://doi.org/10.1038/s41522-025-00666-1openalex-snapshot

Disentangling the feedback loops driving spatial patterning in microbial communities

inferred← citeshttps://doi.org/10.1038/s41564-017-0050-1openalex-snapshot

Dynamic biofilm architecture confers individual and collective mechanisms of viral protection

inferred← citeshttps://doi.org/10.1038/s41564-019-0579-2openalex-snapshot

Breakdown of Vibrio cholerae biofilm architecture induced by antibiotics disrupts community barrier function

inferred← citeshttps://doi.org/10.1038/s41564-020-00817-4openalex-snapshot

Quantitative image analysis of microbial communities with BiofilmQ

inferred← citeshttps://doi.org/10.1038/s41567-018-0170-4openalex-snapshot

Verticalization of bacterial biofilms

inferred← citeshttps://doi.org/10.1038/s41567-018-0356-9openalex-snapshot

Emergence of three-dimensional order and structure in growing biofilms

inferred← citeshttps://doi.org/10.1038/s41567-018-0373-8openalex-snapshot

A living liquid crystal dissected

inferred← citeshttps://doi.org/10.1038/s41567-020-01070-6openalex-snapshot

Bacteria solve the problem of crowding by moving slowly

inferred← citeshttps://doi.org/10.1038/s41567-023-02221-1openalex-snapshot

Biofilms as self-shaping growing nematics

inferred← citeshttps://doi.org/10.1038/s41598-018-34754-4openalex-snapshot

Pili mediated intercellular forces shape heterogeneous bacterial microcolonies prior to multicellular differentiation

inferred← citeshttps://doi.org/10.1038/s41598-020-73612-0openalex-snapshot

Characterization of the biofilm matrix composition of psychrotrophic, meat spoilage pseudomonads

inferred← citeshttps://doi.org/10.1038/s41598-021-83523-3openalex-snapshot

Shear stress affects the architecture and cohesion of Chlorella vulgaris biofilms

inferred← citeshttps://doi.org/10.1038/s42003-022-04396-4openalex-snapshot

Instantaneous Clearing of Biofilm (iCBiofilm): an optical approach to revisit bacterial and fungal biofilm imaging

inferred← citeshttps://doi.org/10.1038/s42005-023-01449-wopenalex-snapshot

Collective mechano-response dynamically tunes cell-size distributions in growing bacterial colonies

inferred← citeshttps://doi.org/10.1038/s42254-023-00593-0openalex-snapshot

Proliferating active matter

inferred← citeshttps://doi.org/10.1038/s44431-026-00035-8openalex-snapshot

Mechanobiology of bacterial biofilms: from structure and rheology to developmental dynamics and environmental adaptation

inferred← citeshttps://doi.org/10.1039/c6bm00832aopenalex-snapshot

Modulation of the mechanical properties of bacterial biofilms in response to environmental challenges

inferred← citeshttps://doi.org/10.1039/c7ra05559eopenalex-snapshot

Matrix composition determines the dimensions of Bacillus subtilis NCIB 3610 biofilm colonies grown on LB agar

inferred← citeshttps://doi.org/10.1039/c9ra01955copenalex-snapshot

Importance of the biofilm matrix for the erosion stability of Bacillus subtilis NCIB 3610 biofilms

inferred← citeshttps://doi.org/10.1039/c9sm02540eopenalex-snapshot

When does entropy promote local organization?

inferred← citeshttps://doi.org/10.1039/d2sm01365gopenalex-snapshot

A mechanistic understanding of microcolony morphogenesis: coexistence of mobile and sessile aggregates

inferred← citeshttps://doi.org/10.1039/d3sm00880kopenalex-snapshot

Instabilities in a growing system of active particles: scalar and vectorial systems

inferred← citeshttps://doi.org/10.1039/d4sm01180eopenalex-snapshot

Morphogenesis of confined biofilms: how mechanical interactions determine cellular patterning and global geometry

inferred← citeshttps://doi.org/10.1063/5.0080845openalex-snapshot

Varied solutions to multicellularity: The biophysical and evolutionary consequences of diverse intercellular bonds

inferred← citeshttps://doi.org/10.1063/5.0216862openalex-snapshot

Machine learning assisted sorting of active microswimmers

inferred← citeshttps://doi.org/10.1071/ma22010openalex-snapshot

Feedback loops between mathematics and microbiology

inferred← citeshttps://doi.org/10.1071/mav43n1openalex-snapshot

Volume 43 Number 1

inferred← citeshttps://doi.org/10.1073/pnas.1603016113openalex-snapshot

Three-dimensional architecture of Vibrio cholera biofilms

inferred← citeshttps://doi.org/10.1073/pnas.1611494113openalex-snapshot

Vibrio cholerae biofilm growth program and architecture revealed by single-cell live imaging

inferred← citeshttps://doi.org/10.1073/pnas.1708954115openalex-snapshot

A growing microcolony can survive and support persistent propagation of virulent phages

inferred← citeshttps://doi.org/10.1073/pnas.1718813115openalex-snapshot

Dynamic switching enables efficient bacterial colonization in flow

inferred← citeshttps://doi.org/10.1073/pnas.1719317115openalex-snapshot

Spatial determinants of quorum signaling in a Pseudomonas aeruginosa infection model

inferred← citeshttps://doi.org/10.1073/pnas.1808469115openalex-snapshot

Exopolysaccharide protects Vibrio cholerae from exogenous attacks by the type 6 secretion system

inferred← citeshttps://doi.org/10.1073/pnas.1811722116openalex-snapshot

Learning the space-time phase diagram of bacterial swarm expansion

inferred← citeshttps://doi.org/10.1073/pnas.1819016116openalex-snapshot

Vibrio cholerae filamentation promotes chitin surface attachment at the expense of competition in biofilms

inferred← citeshttps://doi.org/10.1073/pnas.1909447117openalex-snapshot

Biophysical principles of choanoflagellate self-organization

inferred← citeshttps://doi.org/10.1073/pnas.2010199117openalex-snapshot

Vibrio cholerae adapts to sessile and motile lifestyles by cyclic di-GMP regulation of cell shape

inferred← citeshttps://doi.org/10.1073/pnas.2023504118openalex-snapshot

Hierarchical transitions and fractal wrinkling drive bacterial pellicle morphogenesis

inferred← citeshttps://doi.org/10.1073/pnas.2109940118openalex-snapshot

Architecture of cell–cell junctions in situ reveals a mechanism for bacterial biofilm inhibition

inferred← citeshttps://doi.org/10.1073/pnas.2123469119openalex-snapshot

Social evolution of shared biofilm matrix components

inferred← citeshttps://doi.org/10.1073/pnas.2200930119openalex-snapshot

Biotropic liquid crystal phase transformations in cellulose-producing bacterial communities

inferred← citeshttps://doi.org/10.1073/pnas.2212650120openalex-snapshot

Breakdown of clonal cooperative architecture in multispecies biofilms and the spatial ecology of predation

inferred← citeshttps://doi.org/10.1073/pnas.2514210122openalex-snapshot

Single-cell lysis patterns morphogenesis of eDNA in the matrix of Pseudomonas aeruginosa biofilms

inferred← citeshttps://doi.org/10.1074/jbc.ra119.008335openalex-snapshot

The 1.9 Å crystal structure of the extracellular matrix protein Bap1 from Vibrio cholerae provides insights into bacterial biofilm adhesion

inferred← citeshttps://doi.org/10.1080/08927014.2017.1360870openalex-snapshot

Structural changes in S. epidermidis biofilms after transmission between stainless steel surfaces

inferred← citeshttps://doi.org/10.1080/08927014.2019.1669021openalex-snapshot

In situ characterisation of biofilms formed by psychrotrophic meat spoilage pseudomonads

inferred← citeshttps://doi.org/10.1088/1361-6633/aae546openalex-snapshot

Bacterial growth: a statistical physicist’s guide

inferred← citeshttps://doi.org/10.1088/1361-6633/ad058fopenalex-snapshot

Heterogeneous anomalous transport in cellular and molecular biology

inferred← citeshttps://doi.org/10.1088/1367-2630/aa983fopenalex-snapshot

Shape of the growing front of biofilms

inferred← citeshttps://doi.org/10.1088/1478-3975/aac473openalex-snapshot

Complex microbial systems across different levels of description

inferred← citeshttps://doi.org/10.1088/1478-3975/abdc0eopenalex-snapshot

Roadmap on emerging concepts in the physical biology of bacterial biofilms: from surface sensing to community formation

inferred← citeshttps://doi.org/10.1089/mdr.2017.0073openalex-snapshot

Nosocomial, Multidrug-Resistant Klebsiella pneumoniae Strains Isolated from Mexico City Produce Robust Biofilms on Abiotic Surfaces but Not on Human Lung Cells

inferred← citeshttps://doi.org/10.1093/femsre/fuaa062openalex-snapshot

Advances and opportunities in image analysis of bacterial cells and communities

inferred← citeshttps://doi.org/10.1093/femsre/fuaf067openalex-snapshot

Spatial structure: shaping the ecology and evolution of microbial communities

inferred← citeshttps://doi.org/10.1093/femsre/fuy001openalex-snapshot

Emergent heterogeneous microenvironments in biofilms: substratum surface heterogeneity and bacterial adhesion force-sensing

inferred← citeshttps://doi.org/10.1098/rsfs.2022.0062openalex-snapshot

Formation and emergent dynamics of spatially organized microbial systems

inferred← citeshttps://doi.org/10.1098/rsif.2020.0486openalex-snapshot

Accumulation of dead cells from contact killing facilitates coexistence in bacterial biofilms

inferred← citeshttps://doi.org/10.1098/rsos.170463openalex-snapshot

Role of growth rate on the orientational alignment ofEscherichia coliin a slit

inferred← citeshttps://doi.org/10.1101/086462openalex-snapshot

Phage mobility is a core determinant of phage-bacteria coexistence in biofilms

inferred← citeshttps://doi.org/10.1101/2021.05.11.440221openalex-snapshot

Biofilm self-patterning: mechanical forces drive a reorientation cascade

inferred← citeshttps://doi.org/10.1101/2021.08.06.455416openalex-snapshot

Multispecies phase diagram of biofilm architectures reveals biophysical principles of biofilm development

inferred← citeshttps://doi.org/10.1101/2023.06.20.545666openalex-snapshot

Cell arrangement impacts metabolic activity and antibiotic tolerance in Pseudomonas aeruginosa biofilms

inferred← citeshttps://doi.org/10.1101/2024.07.17.603784openalex-snapshot

Cell-scale gene-expression measurements in Vibrio cholerae biofilms reveal spatiotemporal patterns underlying development

inferred← citeshttps://doi.org/10.1101/2024.10.13.618088openalex-snapshot

Surfactin accelerates Bacillus subtilis pellicle biofilm development

inferred← citeshttps://doi.org/10.1101/2024.10.13.618105openalex-snapshot

Real-time high-resolution microscopy reveals how single-cell lysis shapes biofilm matrix morphogenesis

inferred← citeshttps://doi.org/10.1101/2025.01.12.632655openalex-snapshot

Kinking and buckling instability in growing bacterial chains

inferred← citeshttps://doi.org/10.1101/2025.06.03.657734openalex-snapshot

Single-cell imaging reveals spontaneous phenotypic sorting and bet-hedging in developing biofilms

inferred← citeshttps://doi.org/10.1101/2025.07.28.667140openalex-snapshot

Targeted disruption of phage liquid crystalline droplets abolishes antibiotic tolerance of bacterial biofilms

inferred← citeshttps://doi.org/10.1101/2025.09.29.679375openalex-snapshot

Prophage induction states drive structural and synergistic outcomes in marine bacterial biofilms

inferred← citeshttps://doi.org/10.1101/627208openalex-snapshot

Flow-induced symmetry breaking in growing bacterial biofilms

inferred← citeshttps://doi.org/10.1101/851428openalex-snapshot

Functional channels in mature E. coli colonies

inferred← citeshttps://doi.org/10.1103/2zm9-r3qsopenalex-snapshot

Computational model of fractal interface formation in bacterial biofilms

inferred← citeshttps://doi.org/10.1103/8wdc-fl92openalex-snapshot

Biofilms as living soft materials: Towards a mechanistic description of their linear and nonlinear mechanics

inferred← citeshttps://doi.org/10.1103/g5bm-m9c4openalex-snapshot

Structured interactions drive abrupt transitions in the spatial organization of microbial communities

inferred← citeshttps://doi.org/10.1103/physreve.102.032408openalex-snapshot

Diffusion of antibiotics through a biofilm in the presence of diffusion and absorption barriers

inferred← citeshttps://doi.org/10.1103/physrevlett.123.258101openalex-snapshot

Flow-Induced Symmetry Breaking in Growing Bacterial Biofilms

inferred← citeshttps://doi.org/10.1103/physrevresearch.2.043334openalex-snapshot

Analogies between growing dense active matter and soft driven glasses

inferred← citeshttps://doi.org/10.1109/icip.2018.8451137openalex-snapshot

Bacterial Image Analysis and Single-Cell Analytics to Decipher the Behavior of Large Microbial Communities

inferred← citeshttps://doi.org/10.1111/1541-4337.13283openalex-snapshot

Sources and contamination routes of seafood with human pathogenic Vibrio spp.: A Farm‐to‐Fork approach

inferred← citeshttps://doi.org/10.1111/2041-210x.70022openalex-snapshot

Bacterial colony biopsies: Spatial discrimination of heterogeneous cell types by cytometric fingerprinting

inferred← citeshttps://doi.org/10.1111/mmi.15064openalex-snapshot

Single‐cell segmentation in bacterial biofilms with an optimized deep learning method enables tracking of cell lineages and measurements of growth rates

inferred← citeshttps://doi.org/10.1126/science.abb8501openalex-snapshot

Cell position fates and collective fountain flow in bacterial biofilms revealed by light-sheet microscopy

inferred← citeshttps://doi.org/10.1126/science.abd1225openalex-snapshot

Tracing cell trajectories in a biofilm

inferred← citeshttps://doi.org/10.1126/science.adf3345openalex-snapshot

Alcanivorax borkumensis biofilms enhance oil degradation by interfacial tubulation

inferred← citeshttps://doi.org/10.1128/aem.02343-17openalex-snapshot

Influence of Type I Fimbriae and Fluid Shear Stress on Bacterial Behavior and Multicellular Architecture of Early Escherichia coli Biofilms at Single-Cell Resolution

inferred← citeshttps://doi.org/10.1128/jb.00101-19openalex-snapshot

Regulating, Measuring, and Modeling the Viscoelasticity of Bacterial Biofilms

inferred← citeshttps://doi.org/10.1128/mbio.00448-26openalex-snapshot

Label-free microscopy enables high-throughput identification of genes controlling biofilm development

inferred← citeshttps://doi.org/10.1128/mbio.01096-26openalex-snapshot

Ordered assembly of the Vibrio cholerae biofilm exopolysaccharide defined by lipid-linked intermediate profiling

inferred← citeshttps://doi.org/10.1128/mbio.01375-19openalex-snapshot

Chitosan Films for Microfluidic Studies of Single Bacteria and Perspectives for Antibiotic Susceptibility Testing

inferred← citeshttps://doi.org/10.1128/mbio.01885-22openalex-snapshot

VxrB Influences Antagonism within Biofilms by Controlling Competition through Extracellular Matrix Production and Type 6 Secretion

inferred← citeshttps://doi.org/10.1128/mbio.03534-20openalex-snapshot

Understanding the Basis of METH Mouth Using a Rodent Model of Methamphetamine Injection, Sugar Consumption, and Streptococcus mutans Infection

inferred← citeshttps://doi.org/10.1128/mbio.03935-24openalex-snapshot

Non-disruptive matrix turnover is a conserved feature of biofilm aggregate growth in paradigm pathogenic species

inferred← citeshttps://doi.org/10.1128/mmbr.00138-24openalex-snapshot

Resolving spatiotemporal dynamics in bacterial multicellular populations: approaches and challenges

inferred← citeshttps://doi.org/10.1137/17m1138625openalex-snapshot

Upscaling Diffusion Through First-Order Volumetric Sinks: A Homogenization of Bacterial Nutrient Uptake

inferred← citeshttps://doi.org/10.1140/epjst/e2018-800088-6openalex-snapshot

Life in crowded conditions

inferred← citeshttps://doi.org/10.1142/s0219519419500702openalex-snapshot

STUDYING THE INTERNAL STRESS HETEROGENEITY OF THE GROWING BIOFILM BY THE MICROPILLAR DEFORMATION OF THE GROWING SUBSTRATE

inferred← citeshttps://doi.org/10.1146/annurev-biophys-062920-063646openalex-snapshot

How Physical Interactions Shape Bacterial Biofilms

inferred← citeshttps://doi.org/10.1146/annurev-cellbio-100818-125119openalex-snapshot

Not Just Going with the Flow: The Effects of Fluid Flow on Bacteria and Plankton

inferred← citeshttps://doi.org/10.1146/annurev-micro-020518-115919openalex-snapshot

Bent Bacteria: A Comparison of Cell Shape Mechanisms in Proteobacteria

inferred← citeshttps://doi.org/10.1146/annurev-micro-111021-053553openalex-snapshot

Mechanisms Underlying Vibrio cholerae Biofilm Formation and Dispersion

inferred← citeshttps://doi.org/10.1186/s12859-021-04409-9openalex-snapshot

Analytics and visualization tools to characterize single-cell stochasticity using bacterial single-cell movie cytometry data

inferred← citeshttps://doi.org/10.1186/s12918-017-0399-zopenalex-snapshot

Image analysis driven single-cell analytics for systems microbiology

inferred← citeshttps://doi.org/10.1371/journal.pbio.3000429openalex-snapshot

The intragenus and interspecies quorum-sensing autoinducers exert distinct control over Vibrio cholerae biofilm formation and dispersal

inferred← citeshttps://doi.org/10.1371/journal.pbio.3001846openalex-snapshot

Shared biophysical mechanisms determine early biofilm architecture development across different bacterial species

inferred← citeshttps://doi.org/10.1371/journal.pbio.3001913openalex-snapshot

Multispecies biofilm architecture determines bacterial exposure to phages

inferred← citeshttps://doi.org/10.1371/journal.pbio.3002205openalex-snapshot

Cellular arrangement impacts metabolic activity and antibiotic tolerance in Pseudomonas aeruginosa biofilms

inferred← citeshttps://doi.org/10.1371/journal.pbio.3003187openalex-snapshot

Analysis of gene expression within individual cells reveals spatiotemporal patterns underlying Vibrio cholerae biofilm development

inferred← citeshttps://doi.org/10.1371/journal.pbio.3003834openalex-snapshot

Disrupting phage liquid crystalline droplets restores antibiotic susceptibility in Pseudomonas aeruginosa biofilms

inferred← citeshttps://doi.org/10.1371/journal.pcbi.1006094openalex-snapshot

Cell adhesion and fluid flow jointly initiate genotype spatial distribution in biofilms

inferred← citeshttps://doi.org/10.1371/journal.pone.0243280openalex-snapshot

Mechanics of biofilms formed of bacteria with fimbriae appendages

inferred← citeshttps://doi.org/10.1371/journal.ppat.1008745openalex-snapshot

A tyrosine phosphoregulatory system controls exopolysaccharide biosynthesis and biofilm formation in Vibrio cholerae

inferred← citeshttps://doi.org/10.1371/journal.ppat.1011193openalex-snapshot

Architecture and matrix assembly determinants of Bordetella pertussis biofilms on primary human airway epithelium

inferred← citeshttps://doi.org/10.17586/2687-0568-2021-3-1-1-28openalex-snapshot

Chemical Systems for Life Science

inferred← citeshttps://doi.org/10.3389/fcimb.2020.582947openalex-snapshot

Diguanylate Cyclases in Vibrio cholerae: Essential Regulators of Lifestyle Switching

inferred← citeshttps://doi.org/10.3389/fmicb.2017.01364openalex-snapshot

Spatial Organization Plasticity as an Adaptive Driver of Surface Microbial Communities

inferred← citeshttps://doi.org/10.3389/fmicb.2017.02534openalex-snapshot

Geometrical Distribution of Cryptococcus neoformans Mediates Flower-Like Biofilm Development

inferred← citeshttps://doi.org/10.3389/fmicb.2021.686793openalex-snapshot

Searching for the Secret of Stickiness: How Biofilms Adhere to Surfaces

inferred← citeshttps://doi.org/10.3389/fmicb.2022.915095openalex-snapshot

Lineage dynamics in growing biofilms: Spatial patterns of standing vs. de novo diversity

inferred← citeshttps://doi.org/10.3389/fmicb.2023.1211761openalex-snapshot

Dispersive biofilm from membrane bioreactor strains: effects of diffusible signal factor addition and characterization by dispersion index

inferred← citeshttps://doi.org/10.3390/antiox15030361openalex-snapshot

Measuring Communication in Microbial Biofilms in Response to Antibiotics, Phytochemicals and Stressors

inferred← citeshttps://doi.org/10.3390/medicina57080839openalex-snapshot

Mechanisms and Impact of Biofilms and Targeting of Biofilms Using Bioactive Compounds—A Review

inferred← citeshttps://doi.org/10.3390/microorganisms9020417openalex-snapshot

Agent Based Models of Polymicrobial Biofilms and the Microbiome—A Review

inferred← citeshttps://doi.org/10.48550/arxiv.2104.08380openalex-snapshot

Biofilm self-patterning: mechanical forces drive a reorientation cascade

inferred← citeshttps://doi.org/10.5488/cmp.27.13802openalex-snapshot

Toward a realistic model of multilayered bacterial colonies

inferred← citeshttps://doi.org/10.6084/m9.figshare.16907599openalex-snapshot

Additional file 1 of Analytics and visualization tools to characterize single-cell stochasticity using bacterial single-cell movie cytometry data

inferred← citeshttps://doi.org/10.64898/2026.08.30.748126openalex-snapshot

Genome-scale label-free imaging reveals cellular physiology encoded in bacterial collective architecture

inferred← citeshttps://doi.org/10.64898/2026.09.25.752283openalex-snapshot

Matrix-controlled emergence of biofilm architecture shapes antimicrobial survival

inferred← citeshttps://doi.org/10.69631/ipj.v1i3nr50openalex-snapshot

soil plastisphere: The nexus of microplastics, bacteria, and biofilms

inferred← citeshttps://doi.org/10.70675/1c8c154bz8d7dz4823z830bze930345b0345openalex-snapshot

Experimental methodologies to explore 3D development of biofilms in porous media

inferred← citeshttps://doi.org/10.7554/elife.21855openalex-snapshot

Flow environment and matrix structure interact to determine spatial competition in Pseudomonas aeruginosa biofilms

inferred← citeshttps://doi.org/10.7554/elife.26163openalex-snapshot

Structural dynamics of RbmA governs plasticity of Vibrio cholerae biofilms

inferred← citeshttps://doi.org/10.7554/elife.31082openalex-snapshot

Flipping the switch

inferred← citeshttps://doi.org/10.7554/elife.56533openalex-snapshot

Biofilms deform soft surfaces and disrupt epithelia

showing the first 200 of 201

Editorial review for independent work. ICSAC — the Institute for Complexity Science and Advanced Computing — runs a structured editorial panel for researchers publishing outside journals, and publishes on CiteStamp rails. Submission is free and goes through ORCID: icsacinstitute.org/submit.