The structure-function relationship of bacterial transcriptional regulators as a target for enhanced biodegradation of aromatic hydrocarbons

Kotoky, Rhitu; Ogawa, Naoto; Pandey, Piyush

doi:10.1016/j.micres.2022.127087

Cited by 15 publications

(4 citation statements)

References 153 publications

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“…TDE_0895 encodes an AraC family transcriptional regulator. The AraC family of transcriptional regulators have been reported to play a role in aromatic hydrocarbon degradation in several Gram‐negative bacteria, including Pseudomonas putida and E. coli (Kotoky et al, 2022). Aromatic hydrocarbons, including terpenes, are abundant in cannabis smoke and have, themselves, been ascribed antimicrobial activities (Nuutinen, 2018; Suganya et al, 2022).…”

Section: Discussionmentioning

confidence: 99%

“…Consistent with a role in aromatic hydrocarbon catabolism is the plurality of helix-turn-helix domains in the TDE_0895 gene product and a predicted molecular weight of 36,000 (https://prosite. expasy.org/), both common features of such transcription factors (Kotoky et al, 2022). Thus, induction of TDE_0895 by CBD may be part of a protective response mechanism against an increased presence of aromatic hydrocarbons.…”

Section: Discussionmentioning

confidence: 99%

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The transcriptomic response to cannabidiol of Treponema denticola, a phytocannabinoid‐resistant periodontal pathogen

Tan,

Lamont,

Sekula

et al. 2023

J Clinic Periodontology

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AimThe use of cannabis, which contains multiple antimicrobials, may be a risk factor for periodontitis. We hypothesized that multiple oral spirochetes would be phytocannabinoid‐resistant and that cannabidiol (CBD) would act as an environmental stressor to which Treponema denticola would respond transcriptionally, thereby providing first insights into spirochetal survival strategies.Materials and MethodsOral spirochete growth was monitored spectrophotometrically in the presence and absence of physiologically relevant phytocannabinoid doses, the transcriptional response to phytocannabinoid exposure determined by RNAseq, specific gene activity fluxes verified using qRT‐PCR and orthologues among fully sequenced oral spirochetes identified.ResultsMultiple strains of oral treponemes were resistant to CBD (0.1–10 μg/mL), while T. denticola ATCC 35405 was resistant to all phytocannabinoids tested (CBD, cannabinol [CBN], tetrahydrocannabinol [THC]). A total of 392 T. denticola ATCC 35405 genes were found to be CBD‐responsive by RNAseq. A selected subset of these genes was independently verified by qRT‐PCR. Genes found to be differentially activated by both methods included several involved in transcriptional regulation and toxin control. Suppressed genes included several involved in chemotaxis and proteolysis.ConclusionsOral spirochetes, unlike some other periodontal bacteria, are resistant to physiological doses of phytocannabinoids. Investigation of CBD‐induced transcriptomic changes provided insight into the resistance mechanisms of this important periodontal pathogen. These findings should be considered in the context of the reported enhanced susceptibility to periodontitis in cannabis users.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

The transcriptomic response to cannabidiol of Treponema denticola, a phytocannabinoid‐resistant periodontal pathogen

Tan,

Lamont,

Sekula

et al. 2023

J Clinic Periodontology

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“…Biodegradation is one of the most effective processes for removing toxic compounds from contaminated environments. This process allows bacteria to transform toxic compounds into nontoxic compounds using the compound as a carbon and energy source [ 12 , 13 , 14 , 15 , 16 ].…”

Section: Introductionmentioning

confidence: 99%

Isolation and Genomic Analysis of 3-Chlorobenzoate-Degrading Bacteria from Soil

et al. 2023

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The compound 3-chlorobenzoate (3-CBA) is a hazardous industrial waste product that can harm human health and the environment. This study investigates the physiological and genetic potential for 3-chlorobenzoate (3-CBA) degradation. Six 3-CBA Gram-negative degraders with different degradation properties belonging to the genera Caballeronia, Paraburkholderia and Cupriavidus were isolated from the soil. The representative strains Caballeronia 19CS4-2 and Paraburkholderia 19CS9-1 showed higher maximum specific growth rates (µmax, h−1) than Cupriavidus 19C6 and degraded 5 mM 3-CBA within 20–28 h. Two degradation products, chloro-cis,cis-muconate and maleylacetate, were detected in all isolates using high-performance liquid chromatography and mass spectrometry. Genomic analyses revealed the presence of cbe and tfd gene clusters in strains 19CS4-2 and 19CS9-1, indicating that they probably metabolized the 3-CBA via the chlorocatechol ortho-cleavage pathway. Strain 19C6 possessed cbe genes, but not tfd genes, suggesting it might have a different chlorocatechol degradation pathway. Putative genes for the metabolism of 3-hydroxybenzoate via gentisate were found only in 19C6, which utilized the compound as a sole carbon source. 19C6 exhibited distinct characteristics from strains 19CS4-2 and 19CS9-1. The results confirm that bacteria can degrade 3-CBA and improve our understanding of how they contribute to environmental 3-CBA biodegradation.

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“…Secondly, the diol intermediates are immediately cleaved by intradiol or extradiol ring-cleaving dioxygenases through either an ortho-cleavage or meta-cleavage pathway, resulting in intermediates of catechols which are converted to TCA cycle intermediates (Pérez-Pantoja et al, 2019;Phale et al, 2020). The genes coding for these degrading enzymes is expressed in all bacteria populations capable of attaching to the Bay-region and K-region (Kotoky et al, 2022;Wang et al, 2018). The most widely reported PAH genes expressed by most hydrocarbondegrading bacterial populations for the degradation LMW and HMW PAHs are aldehyde dehydrogenase (alkB) (Williams et al, 2022), alkane hydroxylase gene (alkH) (Abbasian et al, 2016;Pacwa-Płociniczak et al, 2019), naphthalene dioxygenase (nahAcR) (Mawad et al, 2020), PAH ring hydroxylating dioxygenase (PAH-RHDα) (Imam et al, 2022;Obi et al, 2020), catechol 1,2-dioxygenase (C12O) (Aravind et al, 2021) and catechol 2,3-dioxygenase (C23O) (Mawad et al, 2020 ).…”

Section: Introductionmentioning

confidence: 99%

MOLECULAR CHARACTERISATION OF BACTERIA MONOOXYGENASE AND DEHYDROGENASE GENES INVOLVED IN PAHs REMEDIATION

Okolafor

Ekhaise

2022

OJER

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Bacterial catabolic genes (alkB, alkH, C12O, and C23O) are a good biomarker for choosing the choice of the organism for polycyclic aromatic hydrocarbon (PAH) degradation. Low molecular weight (LMW) and high molecular weight (HMW) PAHs metabolism can be made possible by monooxygenase and dehydrogenase enzymes which code for the catabolic genes. In this study, the monooxygenase and dehydrogenase genes were characterized from the bacterial population isolated from motor mechanic workshop soils and landfill soil artificially polluted with waste engine oil (WEO). Standard microbiological methods were followed for the isolation and characterization of the bacterial population. The PCR cycling for alkB and alkH followed initial denaturation at 94oC for 5 minutes, followed by 35 cycles of denaturation at 95oC for 1 minute, annealing at the correct temperature (alkB 49oC, alkH 72oC). PCR cycling for C12O and C23O genes followed initial denaturation at 95oC for 5 minutes, 35 cycles of denaturation at 94oC for 20 s, annealing at 63oC for 30 s, extension at 60oC for 45 s, with final extension for 5 minutes at 72oC. Final elongation step for all the catabolic genes at 72oC for 10 minutes and holding temperature at 10oC forever. Ampliﬁed fragments were visualized on safe view-stained 1.5% agarose gel electrophoresis. The result of the characterization revealed base pair sizes of the genes; alkB (100 to 300 bp), alkH (< 700 bp), C12O (>250 bp), and C23O (<80 pb). All the bacterial populations invested in this study expressed the monooxygenase and dehydrogenase genes. Monooxygenase and dehydrogenase genes are coding for the enzymes responsible for hydroxylation and intradiol or extradiol ring-cleaving of PAHs.

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The structure-function relationship of bacterial transcriptional regulators as a target for enhanced biodegradation of aromatic hydrocarbons

Cited by 15 publications

References 153 publications

The transcriptomic response to cannabidiol of Treponema denticola, a phytocannabinoid‐resistant periodontal pathogen

The transcriptomic response to cannabidiol of Treponema denticola, a phytocannabinoid‐resistant periodontal pathogen

Isolation and Genomic Analysis of 3-Chlorobenzoate-Degrading Bacteria from Soil

MOLECULAR CHARACTERISATION OF BACTERIA MONOOXYGENASE AND DEHYDROGENASE GENES INVOLVED IN PAHs REMEDIATION

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