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1.
J Biol Chem ; 300(7): 107431, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38825006

ABSTRACT

Antibiotic-resistant Enterobacterales pose a major threat to healthcare systems worldwide, necessitating the development of novel strategies to fight such hard-to-kill bacteria. One potential approach is to develop molecules that force bacteria to hyper-activate prodrug antibiotics, thus rendering them more effective. In the present work, we aimed to obtain proof-of-concept data to support that small molecules targeting transcriptional regulators can potentiate the antibiotic activity of the prodrug metronidazole (MTZ) against Escherichia coli under aerobic conditions. By screening a chemical library of small molecules, a series of structurally related molecules were identified that had little inherent antibiotic activity but showed substantial activity in combination with ineffective concentrations of MTZ. Transcriptome analyses, functional genetics, thermal shift assays, and electrophoretic mobility shift assays were then used to demonstrate that these MTZ boosters target the transcriptional repressor MarR, resulting in the upregulation of the marRAB operon and its downstream MarA regulon. The associated upregulation of the flavin-containing nitroreductase, NfsA, was then shown to be critical for the booster-mediated potentiation of MTZ antibiotic activity. Transcriptomic studies, biochemical assays, and electron paramagnetic resonance measurements were then used to show that under aerobic conditions, NfsA catalyzed 1-electron reduction of MTZ to the MTZ radical anion which in turn induced lethal DNA damage in E. coli. This work reports the first example of prodrug boosting in Enterobacterales by transcriptional modulators and highlights that MTZ antibiotic activity can be chemically induced under anaerobic growth conditions.


Subject(s)
Anti-Bacterial Agents , Escherichia coli Proteins , Escherichia coli , Metronidazole , Nitroreductases , Repressor Proteins , Nitroreductases/metabolism , Nitroreductases/genetics , Escherichia coli/drug effects , Escherichia coli/metabolism , Escherichia coli/genetics , Metronidazole/pharmacology , Escherichia coli Proteins/metabolism , Escherichia coli Proteins/genetics , Anti-Bacterial Agents/pharmacology , Anti-Bacterial Agents/chemistry , Aerobiosis , Repressor Proteins/metabolism , Repressor Proteins/genetics , Gene Expression Regulation, Bacterial/drug effects , Small Molecule Libraries/pharmacology , Small Molecule Libraries/chemistry
2.
Am J Physiol Renal Physiol ; 327(3): F463-F475, 2024 Sep 01.
Article in English | MEDLINE | ID: mdl-38991006

ABSTRACT

Identifying effective drugs for focal segmental glomerulosclerosis (FSGS) treatment holds significant importance. Our high-content drug screening on zebrafish larvae relies on nitroreductase/metronidazole (NTR/MTZ)-induced podocyte ablation to generate FSGS-like injury. A crucial factor for successful drug screenings is minimizing variability in injury induction. For this, we introduce nifurpirinol (NFP) as a more reliable prodrug for targeted podocyte depletion. NFP showed a 2.3-fold increase in efficiency at concentrations 1,600-fold lower compared with MTZ-mediated injury induction. Integration into the screening workflow validated its suitability for the high-content drug screening. The presence of crucial FSGS hallmarks, such as podocyte foot process effacement, proteinuria, and activation of parietal epithelial cells, was observed. After the isolation of the glomeruli from the larvae, we identified essential pathways by proteomic analysis. This study shows that NFP serves as a highly effective prodrug to induce the FSGS-like disease in zebrafish larvae and is well-suited for a high-content drug screening to identify new candidates for the treatment of FSGS.NEW & NOTEWORTHY This research investigated the use of nifurpirinol in nanomolar amounts as a prodrug to reliably induce focal segmental glomerulosclerosis (FSGS)-like damage in transgenic zebrafish larvae. Through proteomic analysis of isolated zebrafish glomeruli, we were further able to identify proteins that are significantly regulated after the manifestation of FSGS. These results are expected to expand our knowledge of the pathomechanism of FSGS.


Subject(s)
Glomerulosclerosis, Focal Segmental , Larva , Podocytes , Zebrafish , Animals , Glomerulosclerosis, Focal Segmental/pathology , Glomerulosclerosis, Focal Segmental/metabolism , Glomerulosclerosis, Focal Segmental/chemically induced , Glomerulosclerosis, Focal Segmental/genetics , Larva/drug effects , Podocytes/drug effects , Podocytes/metabolism , Podocytes/pathology , Disease Models, Animal , Proteomics , Prodrugs/pharmacology , Nitroreductases/metabolism , Nitroreductases/genetics , Zebrafish Proteins/metabolism , Zebrafish Proteins/genetics
3.
Antimicrob Agents Chemother ; 68(7): e0024224, 2024 Jul 09.
Article in English | MEDLINE | ID: mdl-38767379

ABSTRACT

Nitrofurantoin resistance in Escherichia coli is primarily caused by mutations damaging two enzymes, NfsA and NfsB. Studies based on small isolate collections with defined nitrofurantoin MICs have found significant random genetic drift in nfsA and nfsB, making it extremely difficult to predict nitrofurantoin resistance from whole-genome sequence (WGS) where both genes are not obviously disrupted by nonsense or frameshift mutations or insertional inactivation. Here, we report a WGS survey of 200 oqxAB-negative E. coli from community urine samples, of which 34 were nitrofurantoin resistant. We characterized individual non-synonymous mutations seen in nfsA and nfsB among this collection using complementation cloning and NfsA/B enzyme assays in cell extracts. We definitively identified R203C, H11Y, W212R, A112E, and A112T in NfsA and R121C, Q142H, F84S, P163H, W46R, K57E, and V191G in NfsB as amino acid substitutions that reduce enzyme activity sufficiently to cause resistance. In contrast, E58D, I117T, K141E, L157F, A172S, G187D, and A188V in NfsA and G66D, M75I, V93A, and A174E in NfsB are functionally silent in this context. We identified that 9/166 (5.4%) nitrofurantoin-susceptible isolates were "pre-resistant," defined as having loss of function mutations in nfsA or nfsB. Finally, using NfsA/B enzyme assays and proteomics, we demonstrated that 9/34 (26.5%) ribE wild-type nitrofurantoin-resistant isolates also carried functionally wild-type nfsB or nfsB/nfsA. In these cases, NfsA/B activity was reduced through downregulated gene expression. Our biological understanding of nitrofurantoin resistance is greatly improved by this analysis but is still insufficient to allow its reliable prediction from WGS data.


Subject(s)
Drug Resistance, Bacterial , Escherichia coli Proteins , Escherichia coli , Nitrofurantoin , Nitroreductases , Humans , Anti-Bacterial Agents/pharmacology , Anti-Infective Agents, Urinary/pharmacology , Drug Resistance, Bacterial/genetics , Escherichia coli/genetics , Escherichia coli/drug effects , Escherichia coli Proteins/genetics , Genome, Bacterial/genetics , Microbial Sensitivity Tests , Mutation , Nitrofurantoin/pharmacology , Nitroreductases/genetics , Nitroreductases/metabolism , Whole Genome Sequencing/methods
4.
Anal Chem ; 96(4): 1774-1780, 2024 01 30.
Article in English | MEDLINE | ID: mdl-38230524

ABSTRACT

In this paper, we demonstrate the existence of an endogenous mitochondrial azoreductase (AzoR) activity that can induce the cleavage of N═N double bonds of azobenzene compounds under normoxic conditions. To this end, 100% OFF-ON azo-based fluorogenic probes derived from 4-amino-1,8-naphthalimide fluorophores were synthesized and evaluated. The in vitro study conducted with other endogenous reducing agents of the cell, including reductases, demonstrated both the efficacy and the selectivity of the probe for AzoR. Confocal experiments with the probe revealed an AzoR activity in the mitochondria of living cells under normal oxygenation conditions, and we were able to demonstrate that this endogenous AzoR activity appears to be expressed at different levels across different cell lines. This discovery provides crucial information for our understanding of the biochemical processes occurring within the mitochondria. It thus contributes to a better understanding of its function, which is implicated in numerous pathologies.


Subject(s)
Amlodipine Besylate, Olmesartan Medoxomil Drug Combination , Naphthalimides , Nitroreductases , NADH, NADPH Oxidoreductases/metabolism , Fluorescent Dyes/chemistry
5.
Anal Chem ; 96(29): 12074-12083, 2024 07 23.
Article in English | MEDLINE | ID: mdl-38981066

ABSTRACT

Activatable probes with a higher signal-to-background ratio and accuracy are essential for monitoring liver cancer as well as intraoperative fluorescence navigation. However, the presence of only one biomarker is usually not sufficient to meet the high requirement of a signal-to-background ratio in cancer surveillance, leading to the risk of misdiagnosis. In this work, a dual-locked activation response probe, Si-NTR-LAP, for nitroreductase and leucine aminopeptidase was reported. This dual-locked probe provides better tumor recognition and a higher signal-to-noise ratio than that of single-locked probes (Si-LAP and Si-NTR). In both the subcutaneous tumor model and the more complex orthotopic hepatocellular carcinoma model, the probe was able to identify tumor tissue with high specificity and accurately differentiate the boundaries between tumor tissue and normal tissue. Therefore, the dual-locked probe may provide a new and practical strategy for applying to real patient tumor tissue samples.


Subject(s)
Leucyl Aminopeptidase , Liver Neoplasms , Nitroreductases , Liver Neoplasms/diagnosis , Liver Neoplasms/metabolism , Humans , Animals , Leucyl Aminopeptidase/metabolism , Leucyl Aminopeptidase/analysis , Nitroreductases/metabolism , Nitroreductases/analysis , Carcinoma, Hepatocellular/diagnosis , Carcinoma, Hepatocellular/metabolism , Mice , Fluorescent Dyes/chemistry , Optical Imaging
6.
Anal Chem ; 96(28): 11318-11325, 2024 07 16.
Article in English | MEDLINE | ID: mdl-38940602

ABSTRACT

Several reductases, including nitroreductase, are upregulated under hypoxic conditions characterized by an oxygen-deficient microenvironment. Given that hypoxia is a prominent feature of solid tumors, our investigation focused on developing a bioconjugative probe designed for staining tissue under hypoxic conditions, particularly activated by nitroreductase. This probe, developed using our trigger-release-bioconjugation system rooted in the ortho-quinone methide chemistry, exhibited selective activation by nitroreductase and fluorophore labeling within mitochondria and endoplasmic reticulum. As a result, it displayed sustained fluorescence that persisted even after washing steps in cells and tissues. We applied this innovative probe to stain mouse kidney tissue in an acute kidney injury model induced by inadequate oxygen supply. Among various organ tissues examined, only kidney tissue showed significantly higher fluorescence in the injury model compared with the control tissue, as revealed by two-photon microscopic imaging. This research presents a promising avenue for the development of practical staining agents for image-guided tumor surgery.


Subject(s)
Fluorescent Dyes , Nitroreductases , Nitroreductases/metabolism , Fluorescent Dyes/chemistry , Animals , Mice , Humans , Kidney/metabolism , Cell Hypoxia , Hypoxia/metabolism , Mitochondria/metabolism , Acute Kidney Injury/metabolism , Optical Imaging
7.
Anal Chem ; 96(29): 11977-11984, 2024 07 23.
Article in English | MEDLINE | ID: mdl-38975827

ABSTRACT

Hypoxia is known as a specific signal of various diseases, such as liver fibrosis. We designed a hypoxia-sensitive fluorometric approach that cleaved the azo bond (N═N) in the presence of hypoxia-controlled agents (sodium dithionite and azoreductase). 4-(2-Pyridylazo) resorcinol (Py-N═N-RC) bears a desirable hypoxia-responsive linker (N═N), and its azo bond breakup can only occur in the presence of sodium dithionite and azoreductase and leads to the release of 2,4-dihydroxyaniline, which can react with 3-[2-(2-aminoethylamino)ethylamino]propyltrimethoxysilane to generate yellow fluorescent silicon nanoparticles. This approach exhibited high selectivity and sensitivity toward both sodium dithionite and azoreductase over other potential interferences. The mouse liver microsome, which is known to contain azoreductase, was applied and confirmed the feasibility of the designed platform. Py-N═N-RC is expected to be a practical substrate for hypoxia-related biological analyses. Furthermore, silicon nanoparticles were successfully applied for Hela cell imaging owing to their negligible cytotoxicity and superb biocompatibility.


Subject(s)
Azo Compounds , Nanoparticles , Silicon , Silicon/chemistry , Humans , Nanoparticles/chemistry , HeLa Cells , Azo Compounds/chemistry , Animals , Mice , Resorcinols/chemistry , Hypoxia/metabolism , Cell Hypoxia , Molecular Structure , Nitroreductases/metabolism
8.
Chembiochem ; 25(10): e202300846, 2024 May 17.
Article in English | MEDLINE | ID: mdl-38502784

ABSTRACT

Arylamines are essential building blocks for the manufacture of valuable pharmaceuticals, pigments and dyes. However, their current industrial production involves the use of chemocatalytic procedures with a significant environmental impact. As a result, flavin-dependent nitroreductases (NRs) have received increasing attention as sustainable catalysts for more ecofriendly synthesis of arylamines. In this study, we assessed a novel NR from Bacillus tequilensis, named BtNR, for the synthesis of pharmaceutically relevant arylamines, including valuable synthons used in the manufacture of blockbuster drugs such as vismodegib, sonidegib, linezolid and sildenafil. After optimizing the enzymatic reaction conditions, high conversion of nitroaromatics to arylamines (up to 97 %) and good product yields (up to 56 %) were achieved. Our results indicate that BtNR has a broad substrate scope, including bulky nitro benzenes, nitro pyrazoles and nitro pyridines. Hence, BtNR is an interesting biocatalyst for the synthesis of pharmaceutically relevant amine-functionalized aromatics, providing an attractive alternative to traditional chemical synthesis methodologies.


Subject(s)
Amines , Bacillus , Nitroreductases , Nitroreductases/metabolism , Bacillus/enzymology , Amines/chemistry , Amines/metabolism , Amines/chemical synthesis , Biocatalysis , Molecular Structure
9.
Chembiochem ; 25(15): e202400257, 2024 Aug 01.
Article in English | MEDLINE | ID: mdl-38847484

ABSTRACT

Nitroreductase (NTR) has long been a target of interest for its important role involved in the nitro compounds metabolism. Various probes have been reported for NTR analysis, but rarely able to distinguish the extracellular NTR from intracellular ones. Herein we reported a new NTR sensor, HCyS-NO2, which was a hemicyanine molecule with one nitro and two sulfo groups attached. The nitro group acted as the reporting group to respond NTR reduction. Direct linkage of nitro group into the hemicyanine π conjugate system facilitated the intramolecular electron transfer (IET) process and thus quenched the fluorescence of hemicyanine core. Upon reduction with NTR, the nitro group was rapidly converted into the hydroxylamino and then the amino group, eliminating IET process and thus restoring the fluorescence. The sulfo groups installed significantly increased the hydrophilicity of the molecule, and introduced negative charges at physiological pH, preventing the diffusion into bacteria. Both gram-negative and gram-positive bacteria were able to turn on the fluorescence of HCyS-NO2, without detectable diffusion into cells, providing a useful tool to probe the extracellular reduction process.


Subject(s)
Fluorescent Dyes , Nitroreductases , Water , Nitroreductases/metabolism , Fluorescent Dyes/chemistry , Water/chemistry , Carbocyanines/chemistry , Solubility , Molecular Structure
10.
Bioconjug Chem ; 35(6): 758-765, 2024 Jun 19.
Article in English | MEDLINE | ID: mdl-38857526

ABSTRACT

Bacterial keratitis, an ocular emergency, is the predominant cause of infectious keratitis. However, diagnostic procedures for it are invasive, time-consuming, and expeditious, thereby limiting effective treatment for the disease in the clinic. It is imperative to develop a timely and convenient method for the noninvasive diagnosis of bacterial keratitis. Fluorescence imaging is a convenient and noninvasive diagnostic method with high sensitivity. In this study, a type of nitroreductase-responsive probe (NTRP), which responds to nitroreductase to generate fluorescence signals, was developed as an activatable fluorescent probe for the imaging diagnosis of bacterial keratitis. Imaging experiments both in vitro and in vivo demonstrated that the probe exhibited "turn-on" fluorescence signals in response to nitroreductase-secreting bacteria within 10 min. Furthermore, the fluorescence intensity reached its highest at 4 or 6 h in vitro and at 30 min in vivo when the excitation wavelength was set at 520 nm. Therefore, the NTRP has the potential to serve as a feasible agent for the rapid and noninvasive in situ fluorescence diagnosis of bacterial keratitis.


Subject(s)
Fluorescent Dyes , Keratitis , Nitroreductases , Fluorescent Dyes/chemistry , Nitroreductases/metabolism , Nitroreductases/analysis , Keratitis/diagnosis , Keratitis/microbiology , Animals , Humans , Optical Imaging/methods , Mice
11.
Chemistry ; 30(31): e202400195, 2024 Jun 03.
Article in English | MEDLINE | ID: mdl-38563653

ABSTRACT

Framework and polymeric nanoreactors (NRs) have distinct advantages in improving chemical reaction efficiency in the tumor microenvironment (TME). Nanoreactor-loaded oxidoreductase enzyme is activated by tumor acidity to produce H2O2 by increasing tumor oxidative stress. High levels of H2O2 induce self-destruction of the vesicles by releasing quinone methide to deplete glutathione and suppress the antioxidant potential of cancer cells. Therefore, the synergistic effect of the enzyme-loaded nanoreactors results in efficient tumor ablation via suppressing cancer-cell metabolism. The main driving force would be to take advantage of the distinct metabolic properties of cancer cells along with the high peroxidase-like activity of metalloenzyme/metalloprotein. A cascade strategy of dual enzymes such as glucose oxidase (GOx) and nitroreductase (NTR) wherein the former acts as an O2-consuming agent such as overexpression of NTR and further amplified NTR-catalyzed release for antitumor therapy. The design of cascade bioreductive hypoxia-responsive drug delivery via GOx regulates NTR upregulation and NTR-responsive nanoparticles. Herein, we discuss tumor hypoxia, reactive oxygen species (ROS) formation, and the effectiveness of these therapies. Nanoclusters in cascaded enzymes along with chemo-radiotherapy with synergistic therapy are illustrated. Finally, we outline the role of the nanoreactor strategy of cascading enzymes along with self-synergistic tumor therapy.


Subject(s)
Glucose Oxidase , Neoplasms , Tumor Microenvironment , Humans , Glucose Oxidase/metabolism , Glucose Oxidase/chemistry , Neoplasms/metabolism , Neoplasms/drug therapy , Nitroreductases/metabolism , Hydrogen Peroxide/metabolism , Hydrogen Peroxide/chemistry , Reactive Oxygen Species/metabolism , Nanoparticles/chemistry , Animals , Antineoplastic Agents/chemistry , Antineoplastic Agents/pharmacology , Oxidative Stress/drug effects
12.
Arch Biochem Biophys ; 757: 110025, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38740275

ABSTRACT

Drug metabolism by human gut microbes is often exemplified by azo bond reduction in the anticolitic prodrug sulfasalazine. Azoreductase activity is often found in incubations with cell cultures or ex vivo gut microbiome samples and contributes to the xenobiotic metabolism of drugs and food additives. Applying metagenomic studies to personalized medicine requires knowledge of the genes responsible for sulfasalazine and other drug metabolism, and candidate genes and proteins for drug modifications are understudied. A representative gut-abundant azoreductase from Anaerotignum lactatifermentan DSM 14214 efficiently reduces sulfasalazine and another drug, phenazopyridine, but could not reduce all azo-bonded drugs in this class. We used enzyme kinetics to characterize this enzyme for its NADH-dependent reduction of these drugs and food additives and performed computational docking to provide the groundwork for understanding substrate specificity in this family. We performed an analysis of the Flavodoxin-like fold InterPro family (IPR003680) by computing a sequence similarity network to classify distinct subgroups of the family and then performed chemically-guided functional profiling to identify proteins that are abundant in the NIH Human Microbiome Project dataset. This strategy aims to reduce the number of unique azoreductases needed to characterize one protein family in the diverse set of potential drug- and dye-modifying activities found in the human gut microbiome.


Subject(s)
Gastrointestinal Microbiome , NADH, NADPH Oxidoreductases , Nitroreductases , Humans , Nitroreductases/metabolism , Nitroreductases/genetics , NADH, NADPH Oxidoreductases/metabolism , NADH, NADPH Oxidoreductases/genetics , NADH, NADPH Oxidoreductases/chemistry , Coloring Agents/metabolism , Molecular Docking Simulation , Substrate Specificity , Sulfasalazine , Bacterial Proteins/metabolism , Bacterial Proteins/genetics , Bacterial Proteins/chemistry , Kinetics , Clostridiales/enzymology , Clostridiales/genetics , Azo Compounds/metabolism , Azo Compounds/chemistry
13.
Biomacromolecules ; 25(8): 5068-5080, 2024 Aug 12.
Article in English | MEDLINE | ID: mdl-39041235

ABSTRACT

Enzyme-responsive self-assembled nanostructures for drug delivery applications have gained a lot of attention, as enzymes exhibit dysregulation in many disease-associated microenvironments. Azoreductase enzyme levels are strongly elevated in many tumor tissues; hence, here, we exploited the altered enzyme activity of the azoreductase enzyme and designed a main-chain azobenzene-based amphiphilic polyurethane, which self-assembles into a vesicular nanostructure and is programmed to disassemble in response to a specific enzyme, azoreductase, with the help of the nicotinamide adenine dinucleotide phosphate (NADPH) coenzyme in the hypoxic environment of solid tumors. The vesicular nanostructure sequesters, stabilizes the hydrophobic anticancer drug, and releases the drug in a controlled fashion in response to enzyme-triggered degradation of azo-bonds and disruption of vesicular assembly. The biological evaluation revealed tumor extracellular matrix pH-induced surface charge modulation, selective activated cellular uptake to azoreductase overexpressed lung cancer cells (A549), and the release of the anticancer drug followed by cell death. In contrast, the benign nature of the drug-loaded vesicular nanostructure toward normal cells (H9c2) suggested excellent cell specificity. We envision that the main-chain azobenzene-based polyurethane discussed in this manuscript could be considered as a possible selective chemotherapeutic cargo against the azoreductase overexpressed cancer cells while shielding the normal cells from off-target toxicity.


Subject(s)
Antineoplastic Agents , Azo Compounds , Nitroreductases , Polyurethanes , Azo Compounds/chemistry , Azo Compounds/pharmacology , Humans , Polyurethanes/chemistry , Antineoplastic Agents/pharmacology , Antineoplastic Agents/chemistry , A549 Cells , Nitroreductases/metabolism , NADH, NADPH Oxidoreductases/metabolism , Drug Liberation , Nanostructures/chemistry , Drug Delivery Systems/methods
14.
Microb Ecol ; 87(1): 63, 2024 May 01.
Article in English | MEDLINE | ID: mdl-38691135

ABSTRACT

Bacterial azoreductases are enzymes that catalyze the reduction of ingested or industrial azo dyes. Although azoreductase genes have been well identified and characterized, the regulation of their expression has not been systematically investigated. To determine how different factors affect the expression of azoR, we extracted and analyzed transcriptional data from the Gene Expression Omnibus (GEO) resource, then confirmed computational predictions by quantitative reverse transcription polymerase chain reaction (qRT-PCR). Results showed that azoR expression was lower with higher glucose concentration, agitation speed, and incubation temperature, but higher at higher culture densities. Co-expression and clustering analysis indicated ten genes with similar expression patterns to azoR: melA, tpx, yhbW, yciK, fdnG, fpr, nfsA, nfsB, rutF, and chrR (yieF). In parallel, constructing a random transposon library in E. coli K-12 and screening 4320 of its colonies for altered methyl red (MR)-decolorizing activity identified another set of seven genes potentially involved in azoR regulation. Among these genes, arsC, relA, plsY, and trmM were confirmed as potential azoR regulators based on the phenotypic decolorization activity of their transposon mutants, and the expression of arsC and relA was confirmed, by qRT-PCR, to significantly increase in E. coli K-12 in response to different MR concentrations. Finally, the significant decrease in azoR transcription upon transposon insertion in arsC and relA (as compared to its expression in wild-type E. coli) suggests their probable involvement in azoR regulation. In conclusion, combining in silico analysis and random transposon mutagenesis suggested a set of potential regulators of azoR in E. coli.


Subject(s)
DNA Transposable Elements , Escherichia coli Proteins , Escherichia coli , Gene Expression Regulation, Bacterial , Nitroreductases , DNA Transposable Elements/genetics , Escherichia coli Proteins/genetics , Escherichia coli Proteins/metabolism , Escherichia coli/genetics , Escherichia coli/metabolism , Nitroreductases/genetics , Nitroreductases/metabolism , NADH, NADPH Oxidoreductases/genetics , NADH, NADPH Oxidoreductases/metabolism , Mutagenesis , Genome, Bacterial , Computational Biology , Mutagenesis, Insertional
15.
Bioorg Chem ; 149: 107531, 2024 Aug.
Article in English | MEDLINE | ID: mdl-38850779

ABSTRACT

Nitroreductase (NTR) overexpression often occurs in tumors, highlighting the significance of effective NTR detection. Despite the utilization of various optical methods for this purpose, the absence of an efficient tumor-targeting optical probe for NTR detection remains a challenge. In this research, a novel tumor-targeting probe (Cy-Bio-NO2) is developed to perform dual-modal NTR detection using near-infrared fluorescence and photoacoustic techniques. This probe exhibits exceptional sensitivity and selectivity to NTR. Upon the reaction with NTR, Cy-Bio-NO2 demonstrates a distinct fluorescence "off-on" response at 800 nm, with an impressive detection limit of 12 ng/mL. Furthermore, the probe shows on-off photoacoustic signal with NTR. Cy-Bio-NO2 has been successfully employed for dual-modal NTR detection in living cells, specifically targeting biotin receptor-positive cancer cells for imaging purposes. Notably, this probe effectively detects tumor hypoxia through dual-modal imaging in tumor-bearing mice. The strategy of biotin incorporation markedly enhances the probe's tumor-targeting capability, facilitating its engagement in dual-modal imaging at tumor sites. This imaging capacity holds substantial promise as an accurate tool for cancer diagnosis.


Subject(s)
Fluorescent Dyes , Nitroreductases , Optical Imaging , Animals , Humans , Mice , Fluorescent Dyes/chemistry , Fluorescent Dyes/chemical synthesis , Mice, Inbred BALB C , Mice, Nude , Molecular Structure , Neoplasms/diagnostic imaging , Neoplasms, Experimental/diagnostic imaging , Neoplasms, Experimental/metabolism , Nitroreductases/metabolism , Nitroreductases/analysis , Photoacoustic Techniques , Nitrogen Dioxide/chemical synthesis , Nitrogen Dioxide/chemistry
16.
J Nanobiotechnology ; 22(1): 468, 2024 Aug 06.
Article in English | MEDLINE | ID: mdl-39103846

ABSTRACT

Ulcerative colitis (UC) is a challenging inflammatory gastrointestinal disorder, whose therapies encounter limitations in overcoming insufficient colonic retention and rapid systemic clearance. In this study, we report an innovative polymeric prodrug nanoformulation for targeted UC treatment through sustained 5-aminosalicylic acid (5-ASA) delivery. Amphiphilic polymer-based 13.5 nm micelles were engineered to incorporate azo-linked 5-ASA prodrug motifs, enabling cleavage via colonic azoreductases. In vitro, micelles exhibited excellent stability under gastric/intestinal conditions while demonstrating controlled 5-ASA release over 24 h in colonic fluids. Orally administered micelles revealed prolonged 24-h retention and a high accumulation within inflamed murine colonic tissue. At an approximately 60% dose reduction from those most advanced recent studies, the platform halted DSS colitis progression and outperformed standard 5-ASA therapy through a 77-97% suppression of inflammatory markers. Histological analysis confirmed intact colon morphology and restored barrier protein expression. This integrated prodrug nanoformulation addresses limitations in colon-targeted UC therapy through localized bioactivation and tailored pharmacokinetics, suggesting the potential of nanotechnology-guided precision delivery to transform disease management.


Subject(s)
Colitis , Colon , Delayed-Action Preparations , Mesalamine , Micelles , Nitroreductases , Polymers , Prodrugs , Animals , Prodrugs/chemistry , Prodrugs/pharmacokinetics , Mesalamine/chemistry , Mesalamine/pharmacokinetics , Nitroreductases/metabolism , Mice , Colon/metabolism , Colon/pathology , Polymers/chemistry , Colitis/drug therapy , Colitis/metabolism , Delayed-Action Preparations/chemistry , NADH, NADPH Oxidoreductases/metabolism , Mice, Inbred C57BL , Colitis, Ulcerative/drug therapy , Colitis, Ulcerative/metabolism , Male
17.
Int J Mol Sci ; 25(8)2024 Apr 17.
Article in English | MEDLINE | ID: mdl-38673999

ABSTRACT

E. coli nitroreductase A (NfsA) is a candidate for gene-directed prodrug cancer therapy using bioreductively activated nitroaromatic compounds (ArNO2). In this work, we determined the standard redox potential of FMN of NfsA to be -215 ± 5 mV at pH 7.0. FMN semiquinone was not formed during 5-deazaflavin-sensitized NfsA photoreduction. This determines the two-electron character of the reduction of ArNO2 and quinones (Q). In parallel, we characterized the oxidant specificity of NfsA with an emphasis on its structure. Except for negative outliers nitracrine and SN-36506, the reactivity of ArNO2 increases with their electron affinity (single-electron reduction potential, E17) and is unaffected by their lipophilicity and Van der Waals volume up to 386 Å. The reactivity of quinoidal oxidants is not clearly dependent on E17, but 2-hydroxy-1,4-naphthoquinones were identified as positive outliers and a number of compounds with diverse structures as negative outliers. 2-Hydroxy-1,4-naphthoquinones are characterized by the most positive reaction activation entropy and the negative outlier tetramethyl-1,4-benzoquinone by the most negative. Computer modelling data showed that the formation of H bonds with Arg15, Arg133, and Ser40, plays a major role in the binding of oxidants to reduced NfsA, while the role of the π-π interaction of their aromatic structures is less significant. Typically, the calculated hydride-transfer distances during ArNO2 reduction are smallwer than for Q. This explains the lower reactivity of quinones. Another factor that slows down the reduction is the presence of positively charged aliphatic substituents.


Subject(s)
Escherichia coli Proteins , Escherichia coli , Nitroreductases , Oxidation-Reduction , Prodrugs , Nitroreductases/metabolism , Nitroreductases/chemistry , Nitroreductases/genetics , Prodrugs/chemistry , Prodrugs/metabolism , Substrate Specificity , Escherichia coli/genetics , Escherichia coli Proteins/metabolism , Escherichia coli Proteins/chemistry , Escherichia coli Proteins/genetics , Potentiometry , Catalysis , Molecular Docking Simulation
18.
Int J Mol Sci ; 25(12)2024 Jun 15.
Article in English | MEDLINE | ID: mdl-38928299

ABSTRACT

Bacterial nitroreductase enzymes capable of activating imaging probes and prodrugs are valuable tools for gene-directed enzyme prodrug therapies and targeted cell ablation models. We recently engineered a nitroreductase (E. coli NfsB F70A/F108Y) for the substantially enhanced reduction of the 5-nitroimidazole PET-capable probe, SN33623, which permits the theranostic imaging of vectors labeled with oxygen-insensitive bacterial nitroreductases. This mutant enzyme also shows improved activation of the DNA-alkylation prodrugs CB1954 and metronidazole. To elucidate the mechanism behind these enhancements, we resolved the crystal structure of the mutant enzyme to 1.98 Å and compared it to the wild-type enzyme. Structural analysis revealed an expanded substrate access channel and new hydrogen bonding interactions. Additionally, computational modeling of SN33623, CB1954, and metronidazole binding in the active sites of both the mutant and wild-type enzymes revealed key differences in substrate orientations and interactions, with improvements in activity being mirrored by reduced distances between the N5-H of isoalloxazine and the substrate nitro group oxygen in the mutant models. These findings deepen our understanding of nitroreductase substrate specificity and catalytic mechanisms and have potential implications for developing more effective theranostic imaging strategies in cancer treatment.


Subject(s)
Metronidazole , Nitroimidazoles , Nitroreductases , Nitroreductases/metabolism , Nitroreductases/chemistry , Nitroreductases/genetics , Nitroimidazoles/chemistry , Nitroimidazoles/metabolism , Metronidazole/chemistry , Metronidazole/metabolism , Metronidazole/pharmacology , Prodrugs/metabolism , Prodrugs/chemistry , Escherichia coli Proteins/metabolism , Escherichia coli Proteins/chemistry , Escherichia coli Proteins/genetics , Positron-Emission Tomography/methods , Escherichia coli/genetics , Escherichia coli/metabolism , Catalytic Domain , Protein Engineering , Models, Molecular , Aziridines/chemistry , Aziridines/metabolism
19.
World J Microbiol Biotechnol ; 40(5): 151, 2024 Mar 30.
Article in English | MEDLINE | ID: mdl-38553582

ABSTRACT

The ubiquity of hexavalent chromium (Cr(VI)) from industrial activities poses a critical environmental threat due to its persistence, toxicity and mutagenic potential. Traditional physico-chemical methods for its removal often entail significant environmental drawbacks. Recent advancements in remediation strategies have emphasized nano and bioremediation techniques as promising avenues for cost-effective and efficient Cr(VI) mitigation. Bioremediation harnesses the capabilities of biological agents like microorganisms, and algae to mitigate heavy metal contamination, while nano-remediation employs nanoparticles for adsorption purposes. Various microorganisms, including E. coli, Byssochlamys sp., Pannonibacter phragmitetus, Bacillus, Aspergillus, Trichoderma, Fusarium, and Chlorella utilize bioreduction, biotransformation, biosorption and bioaccumulation mechanisms to convert Cr(VI) to Cr(III). Their adaptability to different environments and integration with nanomaterials enhance microbial activity, offering eco-friendly solutions. The study provides a brief overview of metabolic pathways involved in Cr(VI) bioreduction facilitated by diverse microbial species. Nitroreductase and chromate reductase enzymes play key roles in nitrogen and chromium removal, with nitroreductase requiring nitrate and NADPH/NADH, while the chromium reductase pathway relies solely on NADPH/NADH. This review investigates the various anthropogenic activities contributing to Cr(VI) emissions and evaluates the efficacy of conventional, nano-remediation, and bioremediation approaches in curbing Cr(VI) concentrations. Additionally, it scrutinizes the mechanisms underlying nano-remediation techniques for a deeper understanding of the remediation process. It identifies research gaps and offers insights into future directions aimed at enhancing the real-time applicability of bioremediation methods for mitigating with Cr(VI) pollution and pave the way for sustainable remediation solutions.


Subject(s)
Chlorella , Escherichia coli , Escherichia coli/metabolism , Chlorella/metabolism , NAD , NADP , Chromium/toxicity , Biodegradation, Environmental , Nitroreductases
20.
J Air Waste Manag Assoc ; 74(5): 335-344, 2024 05.
Article in English | MEDLINE | ID: mdl-38407923

ABSTRACT

Azo dyes, when released untreated in the environment, cause detrimental effects on flora and fauna. Azoreductases are enzymes capable of cleaving commercially used azo dyes, sometimes in less toxic by-products which can be further degraded via synergistic microbial cometabolism. In this study, azoreductases encoded by FMN1 and FMN2 genes were screened from metagenome shotgun sequences generated from the samples of textile dye industries' effluents, cloned, expressed, and evaluated for their azo dye decolorization efficacy. At pH 7 and 45°C temperature, both recombinant enzymes FMN1 and FMN2 were able to decolorize methyl red at 20 and 100 ppm concentrations, respectively. FMN2 was found to be more efficient in decolorization/degradation of methyl red than FMN1. This study offers valuable insights into the possible application of azoreductases to reduce the environmental damage caused by azo dyes, with the hope of contributing to sustainable and eco-friendly practices for the environment management. This enzymatic approach offers a promising solution for the bioremediation of textile industrial effluents. However, the study acknowledges the need for further process optimization to enhance the efficacy of these enzymes in large-scale applications.Implications: The study underscores the environmental hazards associated with untreated release of azo dyes into the environment and emphasizes the potential of azoreductases, specifically those encoded by FMN1 and FMN2 genes, to mitigate the detrimental effects. The study emphasizes the ongoing commitment to refining and advancing the enzymatic approach for the bioremediation of azo dye-containing effluents, marking a positive stride toward more sustainable industrial practices.


Subject(s)
Cloning, Molecular , Industrial Waste , Nitroreductases , Textile Industry , Nitroreductases/genetics , Nitroreductases/metabolism , NADH, NADPH Oxidoreductases/genetics , NADH, NADPH Oxidoreductases/metabolism , Flavin Mononucleotide/metabolism , Azo Compounds/metabolism , Biodegradation, Environmental , Water Pollutants, Chemical/metabolism , Coloring Agents/metabolism , Metagenomics/methods
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