ArticleJournal of bacteriology2011
Polycyclic aromatic hydrocarbon metabolic network in Mycobacterium vanbaalenii PYR-1.
Article in Journal of bacteriology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed, 121 citations in OpenAlex.
- The syntrophic network of pyrene degradation by the synthetic halophilic consortium PES.Frontiers in microbiology · 2026Article
- Pseudomonas aeruginosa PR23 isolated from oil contaminated soil tolerate and degrades mixture of polyaromatic hydrocarbons and express novel proteins.World journal of microbiology & biotechnology · 2024Article
- Evidence for novel polycyclic aromatic hydrocarbon degradation pathways in culturable marine isolates.Microbiology spectrum · 2024Article
- Insight into the High-Efficiency Benzo(a)pyrene Degradation Ability ofInternational journal of molecular sciences · 2023Article
- A mutagenic analysis of NahE, a hydratase-aldolase in the naphthalene degradative pathway.Archives of biochemistry and biophysics · 2023Article
- Characterization of three rapidly growing novelFrontiers in microbiology · 2023Article
- Genetic and Comparative Genome Analysis ofMicroorganisms · 2021Article
- An Intracellular Sensing and Signal Transduction System That Regulates the Metabolism of Polycyclic Aromatic Hydrocarbons in Bacteria.mSystems · 2021Article
- Aerobic and Anaerobic Bacterial and Fungal Degradation of Pyrene: Mechanism Pathway Including Biochemical Reaction and Catabolic Genes.International journal of molecular sciences · 2021Review
- Non-Tuberculous Mycobacteria: Molecular and Physiological Bases of Virulence and Adaptation to Ecological Niches.Microorganisms · 2020Review
- CYPminer: an automated cytochrome P450 identification, classification, and data analysis tool for genome data sets across kingdoms.BMC bioinformatics · 2020Article
- Hydroxylation at Multiple Positions Initiated the Biodegradation of Indeno[1,2,3-cd]Pyrene inFrontiers in microbiology · 2020Article
- Preparation of dihydroxy polycyclic aromatic hydrocarbons and activities of two dioxygenases in the phenanthrene degradative pathway.Archives of biochemistry and biophysics · 2019Article
- Polycyclic Aromatic Hydrocarbon (PAH) Degradation Pathways of the Obligate Marine PAH Degrader Cycloclasticus sp. Strain P1.Applied and environmental microbiology · 2018Article
- Article
- Tracing the Biotransformation of Polycyclic Aromatic Hydrocarbons in Contaminated Soil Using Stable Isotope-Assisted Metabolomics.Environmental science & technology letters · 2018Article
- Genome Sequence and Metabolic Analysis of a Fluoranthene-Degrading StrainFrontiers in microbiology · 2018Article
- A Novel Acetaldehyde Dehydrogenase with Salicylaldehyde Dehydrogenase Activity from Rhodococcus ruber Strain OA1.Current microbiology · 2017Article
- Polycyclic Aromatic Hydrocarbons: A Critical Review of Environmental Occurrence and Bioremediation.Environmental management · 2017Article
- Nontarget Analysis Reveals a Bacterial Metabolite of Pyrene Implicated in the Genotoxicity of Contaminated Soil after Bioremediation.Environmental science & technology · 2017Article
Corrections and comments
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Authors and funding
11 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
This study investigated a metabolic network (MN) from Mycobacterium vanbaalenii PYR-1 for polycyclic aromatic hydrocarbons (PAHs) from the perspective of structure, behavior, and evolution, in which multilayer omics data are integrated. Initially, we utilized a high-throughput proteomic analysis to assess the protein expression response of M. vanbaalenii PYR-1 to seven different aromatic compounds. A total of 3,431 proteins (57.38% of the genome-predicted proteins) were identified, which included 160 proteins that seemed to be involved in the degradation of aromatic hydrocarbons. Based on the proteomic data and the previous metabolic, biochemical, physiological, and genomic information, we reconstructed an experiment-based system-level PAH-MN. The structure of PAH-MN, with 183 metabolic compounds and 224 chemical reactions, has a typical scale-free nature. The behavior and evolution of the PAH-MN reveals a hierarchical modularity with funnel effects in structure/function and intimate association with evolutionary modules of the functional modules, which are the ring cleavage process (RCP), side chain process (SCP), and central aromatic process (CAP). The 189 commonly upregulated proteins in all aromatic hydrocarbon treatments provide insights into the global adaptation to facilitate the PAH metabolism. Taken together, the findings of our study provide the hierarchical viewpoint from genes/proteins/metabolites to the network via functional modules of the PAH-MN equipped with the engineering-driven approaches of modularization and rationalization, which may expand our understanding of the metabolic potential of M. vanbaalenii PYR-1 for bioremediation applications.
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