ArticleMicrobiome2019
An integrated meta-omics approach reveals substrates involved in synergistic interactions in a bisphenol A (BPA)-degrading microbial community.
Article in Microbiome, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers, 1 of them a synthesis that pooled it.
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Who cites it
46 citing papers in PubMed, 1 synthesis or guideline pooled it, 172 citations in OpenAlex.
- Recent Advanced Technologies for the Characterization of Xenobiotic-Degrading Microorganisms and Microbial Communities.Frontiers in bioengineering and biotechnology · 2021Pooled it
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- Epistatic interactions inform rational design of synthetic microbial communities for bioremediation.Nature microbiology · 2026Article
- Monitoring endocrine-disrupting chemicals and microbial diversity of wastewater treatment maturation ponds.Applied and environmental microbiology · 2026Article
- Bacteria and Fungi Synergistically Reprogram Flavonoid Metabolites in the Pericarp of Citrus Reticulata 'Chachi' During Storage.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
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- Mutualism between degraders and nondegraders stabilizes the function of a natural biopolymer-degrading community.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- The engineering of TBBPA-degrading synthetic microbiomes with integrated strategies.NPJ biofilms and microbiomes · 2025Article
- The impact of Bisphenol A on the endophytic bacterial community and transcriptome of soybean seedlings.iScience · 2025Article
- Collective Microbial Effects Drive Toxin Bioremediation and Enable Rational Design.bioRxiv : the preprint server for biology · 2025Article
- Biodegradation of synthetic organic pollutants: principles, progress, problems, and perspectives.FEMS microbiology reviews · 2025Review
- Modeling bacterial interactions uncovers the importance of outliers in the coastal lignin-degrading consortium.Nature communications · 2025Article
- Omic-driven strategies to unveil microbiome potential for biodegradation of plastics: a review.Archives of microbiology · 2024Review
- Metagenomic and Metabolomic Analyses Reveal the Role of Gut Microbiome-Associated Metabolites in the Muscle Elasticity of the Large Yellow Croaker (Animals : an open access journal from MDPI · 2024Article
- Toward a Circular Bioeconomy: Designing Microbes and Polymers for Biodegradation.ACS synthetic biology · 2024Review
- Unravelling biosynthesis and biodegradation potentials of microbial dark matters in hypersaline lakes.Environmental science and ecotechnology · 2024Article
- BASALT refines binning from metagenomic data and increases resolution of genome-resolved metagenomic analysis.Nature communications · 2024Article
Corrections and comments
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Authors and funding
9 authors at 9 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundUnderstanding microbial interactions in engineering bioprocesses is important to enhance and optimize performance outcomes and requires dissection of the multi-layer complexities of microbial communities. However, unraveling microbial interactions as well as substrates involved in complex microbial communities is a challenging task. Here, we demonstrate an integrated approach of metagenomics, metatranscriptomics, and targeted metabolite analysis to identify the substrates involved in interspecies interactions from a potential cross-feeding model community-bisphenol A (BPA)-biodegrading community, aiming to establish an identification method of microbial interactions in engineering or environmental bioprocesses.
resultsThe community-level BPA-metabolic pathway was constructed using integrated metagenomics and targeted metabolite analyses. The dynamics of active functions and metabolism of major community members were identified using metagenomic and metatranscriptomic analyses in concert. Correlating the community BPA biodegradation performance to the individual bacterial activities enabled the discovery of substrates involved in a synergistic interaction of cross-feeding between BPA-degrading Sphingonomas species and intermediate users, Pseudomonas sp. and Pusillimonas sp. This proposed synergistic interaction was confirmed by the co-culture of a Sphingonomas sp. and Pseudomonas sp. isolates, which demonstrated enhanced BPA biodegradation compared to the isolate of Sphingonomas sp. alone.
conclusionThe three types of integrated meta-omics analyses effectively revealed the metabolic capability at both community-wide and individual bacterial levels. The correlation between these two levels revealed the hidden connection between apparent overall community performance and the contributions of individual community members and their interactions in a BPA-degrading microbial community. In addition, we demonstrated that using integrated multi-omics in conjunction with culture-based confirmation approach is effective to elucidate the microbial interactions affecting the performance outcome. We foresee this approach would contribute the future application and operation of environmental bioprocesses on a knowledge-based control.
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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.