ArticleApplied and environmental microbiology2005
In silico reconstruction of the metabolic pathways of Lactobacillus plantarum: comparing predictions of nutrient requirements with those from growth experiments.
Article in Applied and environmental microbiology, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 83 papers.
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83 citing papers in PubMed.
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- Intestinal GCN2 controlseLife · 2023Article
- Molecular Detection and Identification of Plant-AssociatedInternational journal of molecular sciences · 2023Review
- Tryptophan regulates bile and nitrogen metabolism in two pig gut lactobacilli species in vitro based on metabolomics study.Amino acids · 2022Article
- Calcium DeterminesApplied and environmental microbiology · 2022Article
- Formulation of Chemically Defined Media and Growth Evaluation ofFrontiers in microbiology · 2022Article
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- Cranberry Proanthocyanidins and Dietary Oligosaccharides Synergistically ModulateMicroorganisms · 2021Article
- Searching for principles of microbial physiology.FEMS microbiology reviews · 2020Review
- Characterization of transcriptional response of Lactobacillus plantarum under acidic conditions provides insight into bacterial adaptation in fermentative environments.Scientific reports · 2020Article
- Metabolic cross-feeding in imbalanced diets allows gut microbes to improve reproduction and alter host behaviour.Nature communications · 2020Article
- The local transcriptional regulators SacR1 and SacR2 act as repressors of fructooligosaccharides metabolism in Lactobacillus plantarum.Microbial cell factories · 2020Article
- Drosophila-associated bacteria differentially shape the nutritional requirements of their host during juvenile growth.PLoS biology · 2020Article
- Lipoproteins Contribute to the Anti-inflammatory Capacity ofFrontiers in microbiology · 2020Article
- Understanding the Mechanisms of Positive Microbial Interactions That Benefit Lactic Acid Bacteria Co-cultures.Frontiers in microbiology · 2020Review
- A metabolic reconstruction of Lactobacillus reuteri JCM 1112 and analysis of its potential as a cell factory.Microbial cell factories · 2019Article
- A systematic assessment of current genome-scale metabolic reconstruction tools.Genome biology · 2019Article
23 more citing papers are in PubMed but not listed here.
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7 authors.
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Abstract
On the basis of the annotated genome we reconstructed the metabolic pathways of the lactic acid bacterium Lactobacillus plantarum WCFS1. After automatic reconstruction by the Pathologic tool of Pathway Tools (http://bioinformatics.ai.sri.com/ptools/), the resulting pathway-genome database, LacplantCyc, was manually curated extensively. The current database contains refinements to existing routes and new gram-positive bacterium-specific reactions that were not present in the MetaCyc database. These reactions include, for example, reactions related to cell wall biosynthesis, molybdopterin biosynthesis, and transport. At present, LacplantCyc includes 129 pathways and 704 predicted reactions involving some 670 chemical species and 710 enzymes. We tested vitamin and amino acid requirements of L. plantarum experimentally and compared the results with the pathways present in LacplantCyc. In the majority of cases (32 of 37 cases) the experimental results agreed with the final reconstruction. LacplantCyc is the most extensively curated pathway-genome database for gram-positive bacteria and is open to the microbiology community via the World Wide Web (www.lacplantcyc.nl). It can be used as a reference pathway-genome database for gram-positive microbes in general and lactic acid bacteria in particular.
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