ArticleScientific reports2019
Predicting the decision making chemicals used for bacterial growth.
Article in Scientific reports, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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19 citing papers in PubMed, 42 citations in OpenAlex.
- Growth dynamics of 3,909 Escherichia coli single-gene knockouts in rich and minimal media.Scientific data · 2026Article
- Time Series Data Mining for Linking the Shape of Bacterial Growth Curves to Biological Functions.Computational and structural biotechnology journal · 2026Article
- Data-driven analysis reveals distinct genomic and environmental contributions to bacterial growth curves.Scientific reports · 2025Article
- MediaMatch: Prediction of Bacterial Growth on Different Culture Media Using the XGBoost Algorithm.Microbial biotechnology · 2025Article
- Experimental mapping of bacterial fitness landscapes reveals eco-evolutionary fingerprints.Scientific reports · 2025Article
- Translating microbial kinetics into quantitative responses and testable hypotheses using Kinbiont.Nature communications · 2025Article
- Population Dynamics of Escherichia coli Growing under Chemically Defined Media.Scientific data · 2025Article
- Explainable rule-based prediction of cultivation media for microbes.Computational and structural biotechnology journal · 2025Article
- Data-driven discovery of the interplay between genetic and environmental factors in bacterial growth.Communications biology · 2024Article
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- Machine learning-assisted medium optimization revealed the discriminated strategies for improved production of the foreign and native metabolites.Computational and structural biotechnology journal · 2023Article
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- Contribution of the genomic and nutritional differentiation to the spatial distribution of bacterial colonies.Frontiers in microbiology · 2022Article
- Global coordination of the mutation and growth rates across the genetic and nutritional variety inFrontiers in microbiology · 2022Article
- Experimental Evolution Expands the Breadth of Adaptation to an Environmental Gradient Correlated With Genome Reduction.Frontiers in microbiology · 2022Article
- Clustering of Bacterial Growth Dynamics in Response to Growth Media by Dynamic Time Warping.Microorganisms · 2020Article
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Predicting the contribution of media components to bacterial growth was first initiated by introducing machine learning to high-throughput growth assays. A total of 1336 temporal growth records corresponding to 225 different media, which were composed of 13 chemical components, were generated. The growth rate and saturated density of each growth curve were automatically calculated with the newly developed data processing program. To identify the decision making factors related to growth among the 13 chemicals, big datasets linking the growth parameters to the chemical combinations were subjected to decision tree learning. The results showed that the only carbon source, glucose, determined bacterial growth, but it was not the first priority. Instead, the top decision making chemicals in relation to the growth rate and saturated density were ammonium and ferric ions, respectively. Three chemical components (NH
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