ReviewBiochemical Society transactions2018
Constraint-based modeling in microbial food biotechnology.
Review in Biochemical Society transactions, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 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
16 citing papers in PubMed.
- High-throughput generation and comparison of genome-scale metabolic models reveal strain-specific metabolic diversity in 439mSystems · 2026Article
- Dietary patterns influence the in silico GABA production capacity of Bifidobacterium adolescentis HD17T2H and other human gut bacteria.Scientific reports · 2026Article
- Synthetic microbial consortium enhances acetoin production and functional quality of citrus vinegar via metabolic and process optimization.Frontiers in microbiology · 2025Article
- A Study of the Community Relationships Between Methanotrophs and Their Satellites Using Constraint-Based Modeling Approach.International journal of molecular sciences · 2024Article
- Metabolic modelling as a powerful tool to identify critical components of Pneumocystis growth medium.PLoS computational biology · 2024Article
- From genotype to phenotype: computational approaches for inferring microbial traits relevant to the food industry.FEMS microbiology reviews · 2023Review
- A Two-Compartment Fermentation System to Quantify Strain-Specific Interactions in Microbial Co-Cultures.Bioengineering (Basel, Switzerland) · 2023Article
- Genome-Scale Metabolic Modeling Combined with Transcriptome Profiling Provides Mechanistic Understanding of Streptococcus thermophilus CH8 Metabolism.Applied and environmental microbiology · 2022Article
- Construction of Multiscale Genome-Scale Metabolic Models: Frameworks and Challenges.Biomolecules · 2022Review
- Model-based dynamic engineering ofBiotechnology notes (Amsterdam, Netherlands) · 2022Article
- Identifying the essential nutritional requirements of the probiotic bacteria Bifidobacterium animalis and Bifidobacterium longum through genome-scale modeling.NPJ systems biology and applications · 2021Article
- gapseq: informed prediction of bacterial metabolic pathways and reconstruction of accurate metabolic models.Genome biology · 2021Article
- Metabolic modelling approaches for describing and engineering microbial communities.Computational and structural biotechnology journal · 2021Review
- Manually curated genome-scale reconstruction of the metabolic network of Bacillus megaterium DSM319.Scientific reports · 2019Article
- A metabolic reconstruction of Lactobacillus reuteri JCM 1112 and analysis of its potential as a cell factory.Microbial cell factories · 2019Article
- Genome editing of lactic acid bacteria: opportunities for food, feed, pharma and biotech.FEMS microbiology letters · 2019Review
Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Genome-scale metabolic network reconstruction offers a means to leverage the value of the exponentially growing genomics data and integrate it with other biological knowledge in a structured format. Constraint-based modeling (CBM) enables both the qualitative and quantitative analyses of the reconstructed networks. The rapid advancements in these areas can benefit both the industrial production of microbial food cultures and their application in food processing. CBM provides several avenues for improving our mechanistic understanding of physiology and genotype-phenotype relationships. This is essential for the rational improvement of industrial strains, which can further be facilitated through various model-guided strain design approaches. CBM of microbial communities offers a valuable tool for the rational design of defined food cultures, where it can catalyze hypothesis generation and provide unintuitive rationales for the development of enhanced community phenotypes and, consequently, novel or improved food products. In the industrial-scale production of microorganisms for food cultures, CBM may enable a knowledge-driven bioprocess optimization by rationally identifying strategies for growth and stability improvement. Through these applications, we believe that CBM can become a powerful tool for guiding the areas of strain development, culture development and process optimization in the production of food cultures. Nevertheless, in order to make the correct choice of the modeling framework for a particular application and to interpret model predictions in a biologically meaningful manner, one should be aware of the current limitations of CBM.
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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.