ArticleCell systems2019
Microbial Interaction Network Inference in Microfluidic Droplets.
Article in Cell systems, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 76 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
76 citing papers in PubMed, 137 citations in OpenAlex.
- Article
- SubCom analysis: dissecting microbial community functions into taxon-specific contributions and interaction contexts.Microbiome · 2026Article
- Article
- Slow spatial migration can help eradicate cooperative antimicrobial resistance in time-varying environments.PLoS computational biology · 2026Article
- Droplet microfluidics strategies for overcoming bottlenecks in antibiotics discovery.iScience · 2026Review
- Spatial structure: shaping the ecology and evolution of microbial communities.FEMS microbiology reviews · 2026Review
- Microbial community assembly in the fermentation of cigar tobacco leaves.Frontiers in bioengineering and biotechnology · 2026Review
- Deciphering microbial interactions using a label-free microbead sorting approach.ISME communications · 2026Article
- Droplet-Based Microfluidics in Single-Bacterium Analysis: Advancements in Cultivation, Detection, and Application.Biosensors · 2025Review
- A digital plating platform for robust and versatile microbial detection and analysis.Scientific reports · 2025Article
- Habitat fragmentation enhances microbial collective defence.Journal of the Royal Society, Interface · 2025Article
- Droplet microfluidics for single-cell studies: a frontier in ecological understanding of microbiomes.FEMS microbiology reviews · 2025Review
- A data-driven modeling framework for mapping genotypes to synthetic microbial community functions.bioRxiv : the preprint server for biology · 2025Article
- Decoding emergent properties of microbial community functions through subcommunity observations and interpretable machine learning.The ISME journal · 2025Article
- Roles of microbial interactions in determining the establishment and function of synthetic consortium inoculants for soil applications.The ISME journal · 2025Article
- Environment-Organism Feedbacks Drive Changes in Ecological Interactions.Ecology letters · 2025Article
- Deciphering microbial spatial organization: insights from synthetic and engineered communities.ISME communications · 2025Review
- The Role of Phosphate-Solubilizing Microbial Interactions in Phosphorus Activation and Utilization in Plant-Soil Systems: A Review.Plants (Basel, Switzerland) · 2024Review
- Microbial community interactions on a chip.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Engineering Microbial Consortia as Living Materials: Advances and Prospectives.ACS synthetic biology · 2024Review
16 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors at 1 institution in 1 country.
Funding
Abstract
Microbial interactions are major drivers of microbial community dynamics and functions but remain challenging to identify because of limitations in parallel culturing and absolute abundance quantification of community members across environments and replicates. To this end, we developed Microbial Interaction Network Inference in microdroplets (MINI-Drop). Fluorescence microscopy coupled to computer vision techniques were used to rapidly determine the absolute abundance of each strain in hundreds to thousands of droplets per condition. We showed that MINI-Drop could accurately infer pairwise and higher-order interactions in synthetic consortia. We developed a stochastic model of community assembly to provide insight into the heterogeneity in community states across droplets. Finally, we elucidated the complex web of interactions linking antibiotics and different species in a synthetic consortium. In sum, we demonstrated a robust and generalizable method to infer microbial interaction networks by random encapsulation of sub-communities into microfluidic droplets.
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What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.