The Organophosphate Degradation (opd) Island-borne Esterase-induced Metabolic Diversion in Escherichia coli and Its Influence on p-Nitrophenol Degradation

Chakka, Deviprasanna; Gudla, Ramurthy; Madikonda, Ashok Kumar; Paul, Pandeeti Emmanuel Vijay; Parthasarathy, Sunil; Nandavaram, Aparna; Siddavattam, Dayananda

doi:10.1074/jbc.m115.661249

Cited by 18 publications

(14 citation statements)

References 32 publications

(41 reference statements)

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“…Propionate-dependent repression of co293 therefore abolishes translational inhibition of hcaR facilitating synthesis of abundant amounts of HcaR required for activation of the PP and HPP pathways [22]. We have previously shown involvement of the hca and MHP operons in p-nitrophenol catabolism [10]. The experimental evidence gained in the present study suggests that the PNPsupported growth of E. coli MG1165 (pSDP10) cells could be due to repression of co293 expression in the presence of Orf306.…”

Section: Discussionmentioning

confidence: 62%

“…In silico analysis of Orf306-responsive sRNAs As described in our previous studies, we designed sense and antisense probes to identify ncRNAs made from each of the 2240 intergenic regions found in the genome of E. coli MG1655 [10]. The microarray data generated from these probes were then used to identify Orf306-responsive ncRNAs.…”

Section: Resultsmentioning

confidence: 99%

“…Oxidation of these fatty acids to propionyl-CoA could then lead to induction of the propionate catabolic operons. However, this hypothesis required a mechanism for the induction of the hca and MHP operons and the repression of the ace operon [10]. In this paper, we describe studies to determine the mechanism by which Orf306 facilitates this remodeling of carbon metabolism.…”

Section: Introductionmentioning

confidence: 99%

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Metabolic remodeling in Escherichia coli MG1655. A prophage e14‐encoded small RNA, co293, post‐transcriptionally regulates transcription factors HcaR and FadR

et al. 2020

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In previous studies, we have shown the existence of metabolic remodeling in glucose-grown Escherichia coli MG1655 cells expressing the esterase Orf306 from the opd island of Sphingobium fuliginis. We now show that Orf306-dependent metabolic remodeling is due to regulation of a novel small RNA (sRNA). Endogenous propionate, produced due to the esterase/lipase activity of Orf306, repressed expression of a novel E. coli sRNA, co293. This sRNA post-transcriptionally regulates expression of the transcription factors HcaR and FadR either by inhibiting translation or by destabilizing their transcripts. Hence, repression of co293 expression elevates the levels of HcaR and FadR with consequent activation of alternative carbon catabolic pathways. HcaR activates the hca and MHP operons leading to upregulation of the phenyl propionate and hydroxy phenyl propionate (HPP) degradation pathways. Similarly, FadR stimulates the expression of the transcription factor IclR which negatively regulates the glyoxylate bypass pathway genes, aceBAK.

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Section: Discussionmentioning

confidence: 62%

Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Metabolic remodeling in Escherichia coli MG1655. A prophage e14‐encoded small RNA, co293, post‐transcriptionally regulates transcription factors HcaR and FadR

et al. 2020

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“…In presence of MP, transcriptomic data reveals the induction of genes involved in several cellular processes, including genes that codify efflux pumps, porins, permeases, transcriptional regulators and transporters involved in multidrug resistance. Chakka et al (2015) reported that transcriptional regulation is not limited only to regulation of the genes involved in PNP degradation but to a whole set of metabolic and transcriptional processes. In this study, as a result of the presence of MP, different transcriptional regulator showed an induction, the number of these kinds of genes, that showed an overexpression increases as the culture time increases (two genes at 0 h, 29 genes at 3 h, and 41 genes at 9 h).…”

Section: Discussionmentioning

confidence: 99%

Transcriptional analysis reveals the metabolic state ofBurkholderia zhejiangensisCEIB S4-3 during methyl parathion degradation

Castrejón-Godínez

Ortiz-Hernández

Salazar

et al. 2019

PeerJ

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Burkholderia zhejiangensis CEIB S4-3 has the ability to degrade methyl parathion (MP) and its main hydrolysis byproduct p-nitrophenol (PNP). According to genomic data, several genes related with metabolism of MP and PNP were identified in this strain. However, the metabolic state of the strain during the MP degradation has not been evaluated. In the present study, we analyzed gene expression changes during MP hydrolysis and PNP degradation through a transcriptomic approach. The transcriptional analysis revealed differential changes in the expression of genes involved in important cellular processes, such as energy production and conversion, transcription, amino acid transport and metabolism, translation, ribosomal structure and biogenesis, among others. Transcriptomic data also exhibited the overexpression of both PNP-catabolic gene clusters (pnpABA′E1E2FDC and pnpE1E2FDC) present in the strain. We found and validated by quantitative reverse transcription polymerase chain reaction the expression of the methyl parathion degrading gene, as well as the genes responsible for PNP degradation contained in two clusters. This proves the MP degradation pathway by the strain tested in this work. The exposure to PNP activates, in the first instance, the expression of the transcriptional regulators multiple antibiotic resistance regulator and Isocitrate Lyase Regulator (IclR), which are important in the regulation of genes from aromatic compound catabolism, as well as the expression of genes that encode transporters, permeases, efflux pumps, and porins related to the resistance to multidrugs and other xenobiotics. In the presence of the pesticide, 997 differentially expressed genes grouped in 104 metabolic pathways were observed. This report is the first to describe the transcriptomic analysis of a strain of B. zhejiangensis during the biodegradation of PNP.

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“…The ability to survive under difficult environmental conditions combined with the extensive knowledge on its genetics, transcriptome, proteome and metabolome makes Escherichia coli a well-established model organism for bacterial molecular studies (Idalia and Bernardo, 2017). The transcriptomic studies on the stress responses of E coli to pesticides such as glyphosate (Lu et al, 2013), paraquat (Allen and Griffiths, 2012) and p- nitrophenol (Chakka et al, 2015) were recently reported. Though CP is a widely used and moderately toxic insecticide with several reports on its bacterial degradation, the existing literature on the molecular mechanism aiding bacterial response to chlorpyrifos (CP) are scarce to none.…”

Section: Introductionmentioning

confidence: 99%

Efflux mediated chlorpyrifos tolerance inEscherichia coliBL21(DE3)

Aswathi

Pandey

Sukumaran

2020

Preprint

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Bacteria are continually challenged with variety of synthetic chemicals/xenobiotics in their immediate surroundings, including pesticides. Chlorpyrifos is one of the most commonly used organophosphate pesticides in the world. The non-environmental strain of Escherichia coli, BL21 (DE3) displayed high tolerance to chlorpyrifos but with no/negligible degradation. The intrinsic resistance mechanisms that aid the organism in its high tolerance are probed. Efflux pumps being ubiquitous in nature and capable of conferring resistance against wide variety of xenobiotics were found to be over-expressed in the presence of CP. Also, an efflux pump inhibitor PAβN increased the susceptibility of E. coli to chlorpyrifos due to the intracellular accumulation of CP. The tripartite efflux pump EmrAB-TolC with increased expression in both transcript and protein on CP exposure, might play a major role in CP tolerance. The transcriptional regulators involved in multidrug resistance along with transporters belonging to all the major families conferring antimicrobial resistance were up-regulated. Also up-regulated were the genes involved in phopshonate metabolism and all the genes in the copper or silver export system. The common resistance mechanisms i.e, activation of efflux pumps between CP, antibacterial metals and antibiotics resistance might result in cross-resistance, ultimately increasing the prevalence of multidrug resistant strains, making infections hard to treat.

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The Organophosphate Degradation (opd) Island-borne Esterase-induced Metabolic Diversion in Escherichia coli and Its Influence on p-Nitrophenol Degradation

Cited by 18 publications

References 32 publications

Metabolic remodeling in Escherichia coli MG1655. A prophage e14‐encoded small RNA, co293, post‐transcriptionally regulates transcription factors HcaR and FadR

Metabolic remodeling in Escherichia coli MG1655. A prophage e14‐encoded small RNA, co293, post‐transcriptionally regulates transcription factors HcaR and FadR

Transcriptional analysis reveals the metabolic state ofBurkholderia zhejiangensisCEIB S4-3 during methyl parathion degradation

Efflux mediated chlorpyrifos tolerance inEscherichia coliBL21(DE3)

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