Biofilms vs. cities and humans vs. aliens – a tale of reproducibility in biofilms

Droplet printing reveals the importance of micron-scale structure for bacterial ecology

(2021) Ravinash Krishna Kumar et al.   Nature Communications

Correlative three-dimensional super-resolution and block-face electron microscopy of whole vitreously frozen cells

(2020) David P. Hoffman et al.   SCIENCE

Submicrometer-Sized Roughness Suppresses Bacteria Adhesion

(2020) Noemí Encinas et al.   ACS Applied Materials & Interfaces

Identification of a reliable fixative solution to preserve the complex architecture of bacterial biofilms for scanning electron microscopy evaluation

(2020) Rohana P. Dassanayake et al.   PLoS One

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

(2020) Amauri J. Paula et al.   Nature Communications

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

(2020) Liam M. Rooney et al.   ISME Journal

Drip flow reactor method exhibits excellent reproducibility based on a 10-laboratory collaborative study

(2020) Darla M. Goeres et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Highly multiplexed spatial mapping of microbial communities

(2020) Hao Shi et al.   NATURE

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

(2020) Nikolai Peschek et al.   Nature Communications

Fluidic resistance control enables high-throughput establishment of mixed-species biofilms

(2019) Mads Frederik Hansen et al.   BIOTECHNIQUES

Deep learning: new computational modelling techniques for genomics

(2019) Gökcen Eraslan et al.   NATURE REVIEWS GENETICS

The Ultimate Guide to Bacterial Swarming: An Experimental Model to Study the Evolution of Cooperative Behavior

(2019) Jinyuan Yan et al.   Annual Review of Microbiology

Physically informed artificial neural networks for atomistic modeling of materials

(2019) G. P. Purja Pun et al.   Nature Communications

Development, standardization, and validation of a biofilm efficacy test: The single tube method

(2019) Darla M. Goeres et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Biological imaging of chemical bonds by stimulated Raman scattering microscopy

(2019) Fanghao Hu et al.   NATURE METHODS

Advanced Methods for MALDI-MS Imaging of the Chemical Communication in Microbial Communities

(2019) Eike Ulrich Brockmann et al.   ANALYTICAL CHEMISTRY

Spatial structure in the “Plastisphere”: Molecular resources for imaging microscopic communities on plastic marine debris

(2019) Cathleen Schlundt et al.   Molecular Ecology Resources

Agent-based model of diffusion of N-acyl homoserine lactones in a multicellular environment of Pseudomonas aeruginosa and Candida albicans

(2018) Gael Pérez-Rodríguez et al.   BIOFOULING

MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms

(2018) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

MetaboAnalyst 4.0: towards more transparent and integrative metabolomics analysis

(2018) Jasmine Chong et al.   NUCLEIC ACIDS RESEARCH

Materials characterization by synchrotron x-ray microprobes and nanoprobes

(2018) Lorenzo Mino et al.   REVIEWS OF MODERN PHYSICS

Identifying and Overcoming Threats to Reproducibility, Replicability, Robustness, and Generalizability in Microbiome Research

(2018) Patrick D. Schloss   mBio

Modelling science trustworthiness under publish or perish pressure

(2018) David Robert Grimes et al.   Royal Society Open Science

Mathematical modeling of dispersal phenomenon in biofilms

(2018) B. D’Acunto et al.   MATHEMATICAL BIOSCIENCES

An integrative, multi-omics approach towards the prioritization of Klebsiella pneumoniae drug targets

(2018) Pablo Ivan Pereira Ramos et al.   Scientific Reports

The Pathogen–Host Interface in Three Dimensions: Correlative FIB/SEM Applications

(2018) Allon Weiner et al.   TRENDS IN MICROBIOLOGY

The Role of Reactive Oxygen Species in Antibiotic-Mediated Killing of Bacteria

(2017) Heleen Van Acker et al.   TRENDS IN MICROBIOLOGY

Mathematical modelling of CRISPR-Cas system effects on biofilm formation

(2017) Qasim Ali et al.   Journal of Biological Dynamics

Micropatterned Hydrogel Surface with High-Aspect-Ratio Features for Cell Guidance and Tissue Growth

(2016) Yuhang Hu et al.   ACS Applied Materials & Interfaces

A review on recent developments for biomolecule separation at analytical scale using microfluidic devices

(2016) Kishore K.R. Tetala et al.   ANALYTICA CHIMICA ACTA

Impact ofDelftia tsuruhatensisandAchromobacter xylosoxidansonEscherichia colidual-species biofilms treated with antibiotic agents

(2016) Andreia S. Azevedo et al.   BIOFOULING

Enzyme activity deviates due to spatial and temporal temperature profiles in commercial microtiter plate readers

(2016) Jan-Hendrik Grosch et al.   Biotechnology Journal

Let there be light—at the right place

(2016) Lars Hufnagel et al.   NATURE BIOTECHNOLOGY

Spatial structure, cooperation and competition in biofilms

(2016) Carey D. Nadell et al.   NATURE REVIEWS MICROBIOLOGY

Advancing microbial sciences by individual-based modelling

(2016) Ferdi L. Hellweger et al.   NATURE REVIEWS MICROBIOLOGY

What does research reproducibility mean?

(2016) Steven N. Goodman et al.   Science Translational Medicine

Enzyme activity deviates due to spatial and temporal temperature profiles in commercial microtiter plate readers

(2016) Jan-Hendrik Grosch et al.   Biotechnology Journal

Imaging cellular structures in super-resolution with SIM, STED and Localisation Microscopy: A practical comparison

(2016) Eva Wegel et al.   Scientific Reports

Interplay of physical mechanisms and biofilm processes: review of microfluidic methods

(2015) A. Karimi et al.   LAB ON A CHIP

A Metaproteomics Approach to Elucidate Host and Pathogen Protein Expression during Catheter-Associated Urinary Tract Infections (CAUTIs)

(2015) Christian Lassek et al.   MOLECULAR & CELLULAR PROTEOMICS

The Economics of Reproducibility in Preclinical Research

(2015) Leonard P. Freedman et al.   PLOS BIOLOGY

Ruggedness and reproducibility of the MBEC biofilm disinfectant efficacy test

(2014) A.E. Parker et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Photoactivated Localization Microscopy with Bimolecular Fluorescence Complementation (BiFC-PALM) for Nanoscale Imaging of Protein-Protein Interactions in Cells

(2014) Andrew Nickerson et al.   PLoS One

Minimum information about a biofilm experiment (MIABiE): standards for reporting experiments and data on sessile microbial communities living at interfaces

(2014) Anália Lourenço et al.   Pathogens and Disease

Why the dish makes a difference: Quantitative comparison of polystyrene culture surfaces

(2013) Adam S. Zeiger et al.   Acta Biomaterialia

Dual-objective STORM reveals three-dimensional filament organization in the actin cytoskeleton

(2012) Ke Xu et al.   NATURE METHODS

BiofOmics: A Web Platform for the Systematic and Standardized Collection of High-Throughput Biofilm Data

(2012) Anália Lourenço et al.   PLoS One

Science denial: a guide for scientists

(2012) Joshua Rosenau   TRENDS IN MICROBIOLOGY

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

(2011) Diane McDougald et al.   NATURE REVIEWS MICROBIOLOGY

Discriminating Multi-Species Populations in Biofilms with Peptide Nucleic Acid Fluorescence In Situ Hybridization (PNA FISH)

(2011) Carina Almeida et al.   PLoS One

Correction: Bacterial Surface Appendages Strongly Impact Nanomechanical and Electrokinetic Properties of Escherichia coli Cells Subjected to Osmotic Stress

(2011) Grégory Francius et al.   PLoS One

Functional roles for noise in genetic circuits

(2010) Avigdor Eldar et al.   NATURE

Evaluation of Characterization Techniques for Iron Pipe Corrosion Products and Iron Oxide Thin Films

(2008) Thomas Borch et al.   JOURNAL OF ENVIRONMENTAL ENGINEERING

Comparison of multiple methods for quantification of microbial biofilms grown in microtiter plates

(2007) Elke Peeters et al.   JOURNAL OF MICROBIOLOGICAL METHODS