ArticleBMC genomics2022
Comparative genome analysis among Variovorax species and genome guided aromatic compound degradation analysis emphasizing 4-hydroxybenzoate degradation in Variovorax sp. PAMC26660.
Article in BMC genomics, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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14 citing papers in PubMed, 28 citations in OpenAlex.
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- Genomic Analysis, Metabolite Characterization, and Wheat Seedling Growth Promotion of Variovorax Endophyticus sp. nov., A Novel Endophyte from Wheat Root Tissue.Current microbiology · 2025Article
- Evaluation of Differentially Expressed Candidate Genes in Benzo[a]pyrene Degradation by Burkholderia vietnamiensis G4.Molecular biotechnology · 2025Article
- Lichens and Health-Trends and Perspectives for the Study of Biodiversity in the Antarctic Ecosystem.Journal of fungi (Basel, Switzerland) · 2025Review
- Resistance to freezing conditions of endemic Antarctic polychaetes is enhanced by cryoprotective proteins produced by their microbiome.Science advances · 2024Article
- Comparison of IncK-Antibiotics (Basel, Switzerland) · 2024Article
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- Variovorax sp. strain P1R9 applied individually or as part of bacterial consortia enhances wheat germination under salt stress conditions.Scientific reports · 2024Article
- Elucidation of 4-Hydroxybenzoic Acid Catabolic Pathways inInternational journal of molecular sciences · 2024Article
- Lymphocystis viral disease impacts the diversity and functional profiles of the skin microbiome in gilthead seabream.Frontiers in microbiology · 2024Article
- Metagenome analyses of microbial population in geotextile fabrics used in permeable reactor barriers for toluene biodegradation.3 Biotech · 2023Article
- Chronicle of Research into Lichen-Associated Bacteria.Microorganisms · 2022Review
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4 authors at 2 institutions in 1 country.
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Abstract
backgroundWhile the genus Variovorax is known for its aromatic compound metabolism, no detailed study of the peripheral and central pathways of aromatic compound degradation has yet been reported. Variovorax sp. PAMC26660 is a lichen-associated bacterium isolated from Antarctica. The work presents the genome-based elucidation of peripheral and central catabolic pathways of aromatic compound degradation genes in Variovorax sp. PAMC26660. Additionally, the accessory, core and unique genes were identified among Variovorax species using the pan genome analysis tool. A detailed analysis of the genes related to xenobiotic metabolism revealed the potential roles of Variovorax sp. PAMC26660 and other species in bioremediation.
resultsTYGS analysis, dDDH, phylogenetic placement and average nucleotide identity (ANI) analysis identified the strain as Variovorax sp. Cell morphology was assessed using scanning electron microscopy (SEM). On analysis of the core, accessory, and unique genes, xenobiotic metabolism accounted only for the accessory and unique genes. On detailed analysis of the aromatic compound catabolic genes, peripheral pathway related to 4-hydroxybenzoate (4-HB) degradation was found among all species while phenylacetate and tyrosine degradation pathways were present in most of the species including PAMC26660. Likewise, central catabolic pathways, like protocatechuate, gentisate, homogentisate, and phenylacetyl-CoA, were also present. The peripheral pathway for 4-HB degradation was functionally tested using PAMC26660, which resulted in the growth using it as a sole source of carbon.
conclusionsComputational tools for genome and pan genome analysis are important to understand the behavior of an organism. Xenobiotic metabolism-related genes, that only account for the accessory and unique genes infer evolution through events like lateral gene transfer, mutation and gene rearrangement. 4-HB, an aromatic compound present among lichen species is utilized by lichen-associated Variovorax sp. PAMC26660 as the sole source of carbon. The strain holds genes and pathways for its utilization. Overall, this study outlines the importance of Variovorax in bioremediation and presents the genomic information of the species.
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