Whole genome shotgun sequencing of POPs degrading bacterial community dwelling tannery effluents and petrol contaminated soil

Muccee, Fatima; Ejaz, Samina

doi:10.1016/j.micres.2020.126504

Cited by 15 publications

(6 citation statements)

References 63 publications

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“…Naphthalene metabolism has been confirmed in present study bacteria using Next‐Generation Sequencing through whole‐genome shotgun sequencing [44]. The analysis helped us to identify genes associated with novel pathway of naphthalene degradation, that is, gene encoding salicylate hydroxylase and cyclohexanone monooxygenase.…”

Section: Discussionsupporting

confidence: 55%

Molecular and functional analysis of naphthalene‐degrading bacteria isolated from the effluents of indigenous tanneries

et al. 2021

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During present study, four naphthalene‐ metabolizing bacteria were isolated from tanneries effluents through enrichment on naphthalene as sole carbon source in minimal salt medium. The bacteria were analyzed to document growth pattern, naphthalene removal efficiency, biochemical and molecular characteristics, antibiotic sensitivity, and metabolic profile. The 16S ribosomal RNA gene sequences were compared through BLAST (basic local alignment search tool) similarity search tool and three isolates were found homologous to Brevibacillus agri strain NBRC 15538 and one similar to Burkholderia lata strain 383. The naphthalene removal efficiencies ranged from 1.16 ± 0.056 mg/h (IUBN1) to 1.379 ± 0.021 mg/h (IUBN26). All isolates were positive for p‐nitrophenyl phosphate (PO4), esculin, and inulin fermentation tests. Majority were positive for glucosaminidase (IUBN3, 17, and 26) and a few for mannitol and sorbitol fermentation (IUBN1). Identification of metabolites through gas chromatography–mass spectrometry and liquid chromatography–mass spectrometry analysis allowed tracing pathways associated with naphthalene degradation. Intermediates such as cis‐dihydrodiolnaphthalene, 2‐hydroxychromene‐2‐carboxylate, 6‐hydroxyhexanoic acid, acetyl‐CoA confirmed that the present study bacteria can metabolize naphthalene through a pathway which differs from the pathways reported in earlier known bacteria. Due to fast growth rates, high naphthalene removal potentials, and multiple degradation pathways, these bacteria can be exploited for bioremediation of naphthalene.

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Section: Discussionsupporting

confidence: 55%

Molecular and functional analysis of naphthalene‐degrading bacteria isolated from the effluents of indigenous tanneries

et al. 2021

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“…In a similar vein, we grouped another set of HOC into an integrated degradation pathway, − as many of these compounds could potentially be transformation products of several parent HOC. We simplified the pathway and categorized these HOC as parent HOC, aerobic metabolites, and anaerobic metabolites, as depicted in Figure a.…”

Section: Resultsmentioning

confidence: 99%

“…Distribution of several well-known halogenated organic chemicals (HOC) and their metabolites along their integrated degradation pathways. − (a) The integrated degradation pathways. (b) The concentrations of HOC from different locations.…”

Section: Resultsmentioning

confidence: 99%

Nonextractable Residues, an Analytical Iceberg, Contribute Significantly to the Pool of Halogenated Organic Chemicals in Soils across Various Regions

Yang,

Liu,

Guo

et al. 2024

Environ. Sci. Technol. Lett.

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The nonextractable residues (NER) of halogenated organic chemicals (HOC), a crucial yet underexplored component in field soil/sediment monitoring, have traditionally been overshadowed by analyses focusing solely on the solvent extractable fraction (EF). This has led to NER-HOC becoming an invisible “analytical iceberg”, with their compositions, levels, and potential risks obscure. Building on our prior research, which revealed distinct distributions of EF-HOC and NER-HOC in industrialized urban and remote permafrost soils, we expanded our study to include suburban soils from both a megacity and a smaller city. Employing solvent extraction and alkaline hydrolysis, we were able to analyze both EF-HOC and NER-HOC. Our findings showed an increased NER-HOC to EF-HOC ratio and a higher prevalence of metabolite HOC compared to parent HOC in areas with reduced anthropogenic impacts. Notably, except for the soils from a point source site, all other locations exhibited NER to EF ratios exceeding 1, indicating a dominance of NER in these HOC pools. This highlights the potential importance for incorporating NER-HOC analysis in soil/sediment monitoring, especially in nonpoint source and remote locations. Our findings contribute to the understanding of the HOC distribution from diverse sources in varying environmental settings and suggest broader NER-HOC analyses in environmental assessments.

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“…Proteobacteria and Firmicutes possess a diverse metabolic capacity for hydrocarbon degradation. Proteobacteria and Firmicutes can tolerate and survive in a contaminated environment due to their high prevalence (Muccee and Ejaz, 2020). They were present in all samples from landfills, mangroves, and beaches, but phylum composition varied by location (Figure 5.b).…”

Section: Resultsmentioning

confidence: 99%

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2023

JJBS

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Study areas include cell biology, genomics, microbiology, immunology, molecular biology, biochemistry, embryology, immunogenetics, cell and tissue culture, molecular ecology, genetic engineering and biological engineering, bioremediation and biodegradation, bioinformatics, biotechnology regulations, gene therapy, organismal biology, microbial and environmental biotechnology, marine sciences. The JJBS welcomes the submission of manuscript that meets the general criteria of significance and academic excellence. All articles published in JJBS are peerreviewed. Papers will be published approximately one to two months after acceptance.

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Whole genome shotgun sequencing of POPs degrading bacterial community dwelling tannery effluents and petrol contaminated soil

Cited by 15 publications

References 63 publications

Molecular and functional analysis of naphthalene‐degrading bacteria isolated from the effluents of indigenous tanneries

Molecular and functional analysis of naphthalene‐degrading bacteria isolated from the effluents of indigenous tanneries

Nonextractable Residues, an Analytical Iceberg, Contribute Significantly to the Pool of Halogenated Organic Chemicals in Soils across Various Regions

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