71 results on '"Shakir Ali"'
Search Results
2. Xanthone glucoside 2-β-D-glucopyranosyl-1,3,6,7-tetrahydroxy-9H-xanthen-9-one binds to the ATP-binding pocket of glycogen synthase kinase 3β and inhibits its activity: implications in prostate cancer and associated cardiovascular disease risk
- Author
-
Irengbam Rocky Mangangcha, Djamel Lebeche, Shakir Ali, and Raj Kumar Brojen Singh
- Subjects
Male ,Gene isoform ,animal structures ,Xanthones ,macromolecular substances ,Phosphates ,Serine ,Glycogen Synthase Kinase 3 ,chemistry.chemical_compound ,Glucosides ,Glucoside ,Structural Biology ,GSK-3 ,Xanthone ,Humans ,Protein Isoforms ,Threonine ,Molecular Biology ,Glycogen Synthase Kinase 3 beta ,Kinase ,Prostatic Neoplasms ,Androgen Antagonists ,General Medicine ,Phosphate ,Molecular Docking Simulation ,chemistry ,Biochemistry ,Cardiovascular Diseases ,Androgens - Abstract
Glycogen synthase kinase 3 (GSK3) is a serine/threonine kinase which in the presence of ATP in its ATP-binding pocket transfers a phosphate to a primed substrate. GSK3β is an isoform of GSK3 which has been projected as a potent therapeutic target in human diseases including cancers and metabolic syndrome. Incidentally, cardiovascular disease is a common cause of non-cancer related deaths in prostate cancer (PCa) patients, mainly due to the effects of androgen-deprivation therapy (ADT), a mainstay for PCa treatment. Several small molecular inhibitors of GSK3 are either ATP-competitive (bind to the ATP-binding pocket), or non-ATP-competitive inhibitors (binding to the substrate-binding site of the enzyme). In this study, 2-β-D-glucopyranosyl-1,3,6,7-tetrahydroxy-9H-xanthen-9-one (βDGT), a natural xanthonoid present in many plant species, is reported to bind to the ATP-binding pocket of GSK3β and inhibit its activity, as demonstrated by the molecular docking and molecular dynamics simulation analysis and experimental validation
- Published
- 2021
3. In silico strategies for probing novel DPP-IV inhibitors as anti-diabetic agents
- Author
-
Mohammad Shaqiquzamman, Mohammad Mumtaz Alam, Garima Singh, Shweta Sharma, Shakir Ali, S. R. Singh, Shubham Srivastav, Ruchi Malik, and Mymoona Akhter
- Subjects
Virtual screening ,Dpp iv inhibitors ,Structural Biology ,Chemistry ,In silico ,Structure based ,Identification (biology) ,General Medicine ,Computational biology ,Pharmacophore ,Molecular Biology ,ADME - Abstract
Identification of new DPP-IV inhibitors by integrating validated in silico approach is being presented herein. Novel hits were identified by combining pharmacophore and structure based virtual screening of ZINC and Knowledge Base in house database followed by ADME profiling, consensus docking studies. Six potential hits were identified and analysed for their synthetic accessibility score, novelty analysis and pan assay interference compounds filtration. Out of six, three hits viz., ZINC25060187, ZINC53746227 and KB-10 were analysed for stability studies using Molecular Mechanics/Generalized Born Surface Area (MM/GBSA) and Molecular Dynamics (MD) simulation. The simulation studies of the identified hits revealed that these hits have good selectivity and stability in DPP-IV binding pocket. Important interactions with amino acids viz., Tyr547, Glu205 and Glu206 similar to co-crystallized ligand were also observed. One of the hits viz., KB-10 was synthesized and evaluated for its biological potential. The compound KB-10 showed good DPP-IV inhibition in both in vitro and in vivo studies with IC50: 22.69 µM. This study supports the fact that these techniques hold potential for efficient screening of compounds with unknown affinity for DPP-IV that could serve as candidates for therapeutic development. Communicated by Ramaswamy H. Sarma
- Published
- 2020
4. In-silico profiling and structural insights into the impact of nSNPs in the P. falciparum acetyl-CoA transporter gene to understand the mechanism of drug resistance in malaria
- Author
-
Nidhi Katyal, Dinesh Gupta, Rahila Sardar, Shakir Ali, Dhananjay Jade, and Shahzaib Ahamad
- Subjects
0303 health sciences ,Chemistry ,In silico ,030303 biophysics ,Mutant ,Wild type ,Transporter ,General Medicine ,Computational biology ,Drug resistance ,Transport protein ,03 medical and health sciences ,Structural Biology ,Docking (molecular) ,Binding site ,Molecular Biology - Abstract
The continuous emergence of resistance to the available drugs poses major constraints in the development of effective therapeutics against malaria. Malaria drug resistance has been attributed to be the manifestation of numerous factors. For example, mutations in the parasite transporter protein acetyl-CoA transporter (Pfact) can remarkably affect its uptake affinity for a drug molecule against malaria, and hence enhance its susceptibility to resistance. To identify major contributors to its loss of functionality, we have thoroughly scrutinized eight such recently reported resistant mutants, via in-silico tools in terms of alterations in different properties. We performed molecular dynamics simulations of the selected Pfact mutants to gain deeper insights into the structural perturbation and dynamicity. Comparison of residue interaction network map of mutants with that of Wild type (WT) protein suggests structural changes as a result of the mutation(s) that translate into the weakening of intra-protein interactions, especially around the drug binding pocket. This, in turn, diminishes the affinity of drug molecules towards the binding site, which was validated by docking analysis. Finally, collating all the observations, we have delineated R108K mutant to deviate the most from WT protein, which, intriguingly suggests that replacing an amino acid with another of similar nature can even translate into greater functional effects as those with dissimilar substitutions.Communicated by Ramaswamy H. Sarma.
- Published
- 2020
5. Can the local electric field be a descriptor of catalytic activity? A case study on chorismate mutase
- Author
-
Shakir Ali Siddiqui and Kshatresh Dutta Dubey
- Subjects
Chemistry ,Chorismic Acid ,Static Electricity ,General Physics and Astronomy ,Activation energy ,Molecular Dynamics Simulation ,Catalysis ,Dipole ,Models, Chemical ,Chemical physics ,Transition state analog ,Electric field ,Moment (physics) ,Mutation ,Chorismate mutase ,Biocatalysis ,Thermodynamics ,Physical and Theoretical Chemistry ,Quantum ,Density Functional Theory ,Chorismate Mutase - Abstract
The current theoretical perception of enzymatic activity is highly reliant on the determination of the activation energy of the reactions, which is often calculated using computationally demanding quantum mechanical calculations. With the ever-increasing use of bioengineering techniques that produce too many variants of the same enzyme, a fast and accurate way to study the relative efficiency of enzymes is currently in high demand. Here, we propose the local electric field (LEF) of the enzyme along the reaction axis as a descriptor for the enzymatic activity using the example of chorismate mutase in its native form and several variants (R90A, R90G, and R90K/C88S). The study shows a direct correlation between the calculated enzymatic EF and the enzymatic activity for all the complexes. MD simulations of the Michaelis complex and the transition state analog (TSA) show a stabilizing force on the TSA due to the enzymatic EF. QM/MM and QM-only DFT calculations in the presence of an external electric field (EEF) oriented along the reaction axis show that the electric field can interact with the dipole moment of the TS, thereby stabilizing it and thus lowering the activation energy.
- Published
- 2021
6. Can Electric Field be a Descriptor of Catalytic Activity? A Case Study on Chorismate Mutase
- Author
-
Shakir Ali Siddqui and Kshatresh Dutta Dubey
- Subjects
Dipole ,Transition state analog ,Chemical physics ,Chemistry ,Electric field ,Moment (physics) ,Chorismate mutase ,Activation energy ,Quantum ,Catalysis - Abstract
The current theoretical perception of enzymatic activity is highly reliant on the determination of activation energy of the reactions which is often calculated using a computational demanding quantum mechanical calculation. With the ever-increasing use of bioengineering techniques that produce too many variants of the same enzyme, a fast and accurate way to study the relative efficiency of enzymes is a need of time. Here, we propose the electric field (EF) of the enzyme along the reaction axis as a descriptor for the enzymatic activity using an example of Chorismate Mutase in its native and several variants (R90A, R90G, and R90K/C88S). The study shows a linear correlation between the calculated enzymatic EF and enzymatic activity of all complexes. The MD simulations of the Michaelis complex and the transition state analog (TSA) show a stabilizing force on TSA due to the enzymatic EF. The QM/MM and QM-only DFT calculations with the presence of External Electric Field (EEF) oriented along the reaction axis show that the electric can increase the dipole moment of the TS, thereby, stabilizing it and thus lowers the activation energy.
- Published
- 2021
7. Local Electric Fields Dictate Function: The Different Product Selectivity Observed for Fatty Acids Oxidation by Two Deceptively Very Similar P450-Peroxygenases OleT and BSbeta
- Author
-
Kshatresh Dutta Dubey, Shakir Ali Siddiqui, Sason Shaik, Shalini Yadav, and Surajit Kalita
- Subjects
Hydroxylation ,Reaction mechanism ,chemistry.chemical_compound ,Chemistry ,Biocatalysis ,Stereochemistry ,Decarboxylation ,Substrate (chemistry) ,Protonation ,Selectivity ,Redox - Abstract
Cytochrome P450 peroxygenases use hydrogen peroxide to hydroxylate long-chain fatty acids by bypassing the use of O 2 and a redox partner. Among the peroxygenases, P450 OleT uniquely performs decarboxylation of fatty acids and production of terminal olefins. This root taken by P450 OleT is intriguing, and its importance is augmented by the practical importance of olefin production. As such, this mechanistic choice merits elucidation. To address this puzzle we use hybrid QM/MM calculations and MD simulations for the OleT enzyme as well as for the structurally analogous enzyme, P450 BSβ . The study of P450 OleT reveals that the protonated His85 in the wild-type P450 OleT , plays a crucial role in steering decarboxylation activity by stabilizing the corresponding hydroxoiron(IV) intermediate (Cpd II). In contrast, for P450 BSβ in which Q85 replaces H85, the respective Cpd II species is unstable and it reacts readily with the substrate radical by rebound, producing hydroxylation products. As we show, this single-site difference creates in P450 OleT a local electric field (LEF), which is significantly higher than that in P450 BSβ . In turn, these LEF differences are responsible for the different stabilities of the respective Cpd II/radical intermediates, and hence for different functions of the two enzymes. P450 BSβ uses the common rebound mechanism and leads to hydroxylation, whereas P450 OleT proceeds via decarboxylation and generates terminal olefins. Olefin production projects the power of a single residue to alter the LEF and the enzyme’s function!
- Published
- 2021
8. Computational prediction and experimental validation of the activator function of C2-β-D-glucopyranosyl-1,3,6,7-tetrahydroxyxanthone on pancreatic and hepatic hexokinase
- Author
-
Mymoona Akhter, Tijjani Salihu Shinkafi, Amena Mahmood, Ambrish Kumar Tiwari, Mohammad Mumtaz Alam, Shakir Ali, Abhinav Kaushik, and Dinesh Gupta
- Subjects
0303 health sciences ,Hexokinase ,Activator (genetics) ,Xanthones ,030303 biophysics ,General Medicine ,Experimental validation ,Carbohydrate metabolism ,medicine.disease ,Isozyme ,Molecular Docking Simulation ,03 medical and health sciences ,chemistry.chemical_compound ,medicine.anatomical_structure ,Liver ,Biochemistry ,chemistry ,Structural Biology ,Diabetes mellitus ,medicine ,Pancreas ,Molecular Biology ,Protein Binding - Abstract
This study identifies and validates hexokinase type 4 (HK4), an isozyme of hexokinase in the liver and pancreas, as an important target of C2-β-D-glucopyranosyl-1,3,6,7-tetrahydroxyxanthone (βdGT), a xanthone glucoside suggested to have antidiabetic property. In the study, we applied the computational pipeline of molecular docking followed by the molecular dynamics simulations to shortlist potential βdGT protein targets. The analysis of protein dynamics and the binding free energy (Δ
- Published
- 2019
9. Expansion of a novel lead targeting M. tuberculosis DHFR as antitubercular agents
- Author
-
Kalicharan Sharma, Dharmarajan Sriram, Shakir Ali, Vagolu Siva Krishna, Omprakash Tanwar, M. S. Zaman, Mymoona Akhter, Girdhar Singh Deora, and Mohammad Mumtaz Alam
- Subjects
Models, Molecular ,Indoles ,Tuberculosis ,Stereochemistry ,Clinical Biochemistry ,Antitubercular Agents ,Pharmaceutical Science ,Microbial Sensitivity Tests ,01 natural sciences ,Biochemistry ,Structure-Activity Relationship ,Drug Discovery ,medicine ,Humans ,Structure–activity relationship ,Enzyme Inhibitors ,Molecular Biology ,Dose-Response Relationship, Drug ,Molecular Structure ,010405 organic chemistry ,Chemistry ,Organic Chemistry ,Mycobacterium tuberculosis ,medicine.disease ,In vitro ,0104 chemical sciences ,Tetrahydrofolate Dehydrogenase ,010404 medicinal & biomolecular chemistry ,Molecular Medicine ,Antitubercular Agent - Abstract
A series of 1-(1-benzyl-2-methyl-5-((1-phenyl-1H-1,2,3-triazol-4-yl)methoxy)-1H-indol-3-yl)ethanone and ethyl 1-benzyl-2-methyl-5-((1-phenyl-1H-1,2,3-triazol-4-yl)methoxy)-1H-indole-3-carboxylate derivatives were designed based on bioisosteric replacement of previously reported antitubercular agent (IND-07). Twenty ligands were successfully synthesized and some of them were found to have good in vitro activity (MIC 10 μM) against the H
- Published
- 2019
10. In vivo phenotyping of cytochrome 450 isoforms involved in the metabolism of anti-HIV and anti-tubercular drugs in human using cocktail approach: An LC–MS/MS analysis
- Author
-
Monika Tandon, Ekta Varshney, Shakir Ali, and Nilanjan Saha
- Subjects
Adult ,Drug ,Efavirenz ,CYP2B6 ,Anti-HIV Agents ,Arylamine N-Acetyltransferase ,media_common.quotation_subject ,Metabolite ,Clinical Biochemistry ,Antitubercular Agents ,Cmax ,Pharmaceutical Science ,HIV Infections ,Pharmacology ,01 natural sciences ,Losartan ,Analytical Chemistry ,Young Adult ,chemistry.chemical_compound ,Therapeutic index ,Tandem Mass Spectrometry ,In vivo ,Drug Discovery ,Humans ,Tuberculosis ,Bupropion ,Spectroscopy ,Cytochrome P-450 CYP2C9 ,media_common ,Polymorphism, Genetic ,Coinfection ,010405 organic chemistry ,010401 analytical chemistry ,Healthy Volunteers ,0104 chemical sciences ,Isoenzymes ,Cytochrome P-450 CYP2B6 ,Drug Combinations ,Phenotype ,chemistry ,Inactivation, Metabolic ,Dapsone ,Drug metabolism - Abstract
Purpose In vivo phenotyping of CYP isoforms involved in the metabolism of anti-HIV and antitubercular drugs is important to determine therapeutic dose levels in HIV/AIDS-TB coinfections. In this study, we used a cocktail of bupropion, losartan and dapsone for in vivo phenotyping of CYP2B6, CYP2C9 and N-acetyltransferase-2 (NAT2) in plasma. CYP2B6 is the main catalyst of anti-HIV efavirenz, while NAT2 is involved in antitubercular drug isoniazid metabolism. CYP2C9 has a significant association with antitubercular drug-induced reactions. The activity level of these isoforms has a significant bearing on therapeutic dose in rapid and poor metabolizers. Methods Briefly, a cocktail of probe drugs was administered to human volunteers and the drugs and metabolites were determined by an inhouse LC–MS/MS method in 250 μl plasma. The mobile phase and drug/metabolite extraction methods were optimized before analysis. Retention time, Cmax and tmax were calculated from the same sample and the values were used for phenotyping the isoforms. Results Retention time of drugs and metabolites was calculated. The method was sensitive (4.5–8.2 %CV) and no interfering peak was observed in any batch. %Accuracy of the calibrator and QC was 85–115%. %CV of storage stability testing was within FDA approved limits. Cmax and tmax were comparable to the values reported for individual drugs. Conclusions This study advocates the use of a cocktail of bupropion, losartan and dapsone for in vivo phenotyping of CYP2B6, CYP2C9 and NAT2, which is important in determining therapeutic dose levels of anti-HIV and anti-TB drugs in HIV/AIDS-TB coinfections.
- Published
- 2019
11. (3R, 3’R)-zeaxanthin protects the retina from photo-oxidative damage via modulating the inflammation and visual health molecular markers
- Author
-
Vijaya Juturu, Ibrahim Hanifi Ozercan, Hasan Gencoglu, Fatih Akdemir, Ismet Yilmaz, Kazim Sahin, Mehmet Tuzcu, Cemal Orhan, Nurhan Sahin, and Shakir Ali
- Subjects
Male ,Light ,genetic structures ,Anti-Inflammatory Agents ,Inflammation ,Toxicology ,medicine.disease_cause ,Antioxidants ,Retina ,Oxidative damage ,chemistry.chemical_compound ,Zeaxanthins ,Malondialdehyde ,medicine ,Animals ,Rats, Wistar ,Eye Proteins ,chemistry.chemical_classification ,Reactive oxygen species ,Retinal Degeneration ,food and beverages ,General Medicine ,eye diseases ,Cell biology ,Zeaxanthin ,medicine.anatomical_structure ,Gene Expression Regulation ,chemistry ,sense organs ,medicine.symptom ,Biomarkers ,Oxidative stress - Abstract
Zeaxanthin protects the macula from ocular damage due to light or radiation by scavenging harmful reactive oxygen species. In the present study, zeaxanthin product (OmniXan®; OMX), derived from paprika pods (Capsicum annum; Family-Solanaceae), was tested for its efficacy in the rat retina against photooxidation.Forty-two male 8-week-old Wistar rats exposed to 12L/12D, 16L/8D and 24L/0D hours of intense light conditions were orally administrated either 0 or 100 mg/kg BW of zeaxanthin concentration. Retinal morphology was analyzed by histopathology, and target gene expressions were detected with real-time polymerase chain reaction methods.OMX treatment significantly increased the serum zeaxanthin concentration (p 0.001) and ameliorated oxidative damage by increasing the antioxidant enzyme activities in the retina induced by light (p 0.001). OMX administration significantly upregulated the expression of genes, including Rhodopsin (Rho), Rod arrestin (SAG), Gα Transducin 1 (GNAT-1), neural cell adhesion molecule (NCAM), growth-associated protein 43 (GAP43), nuclear factor-(erythroid-derived 2)-like 2 (Nrf2) and heme oxygenase (HO-1) and decreased the expression of nuclear factor-κB (NF- κB) and GFAP by OMX treatment rats. The histologic findings confirmed the antioxidant and gene expression data.This study suggests that OMX is a potent substance that can be used to protect photoreceptor cell degeneration in the retina exposed to intense light.
- Published
- 2019
12. Influence of the water–sediment interaction on the major ions chemistry and fluoride pollution in groundwater of the Older Alluvial Plains of Delhi, India
- Author
-
Prabhas Pande, Prosun Bhattacharya, Trupti Chandrasekhar, S. P. Rai, Shashank Shekhar, Shakir Ali, Chandrashekhar Azad Kashyap, Naresh Kumar Arora, Akhilesh K. Yadav, and Dornadulla Chandrasekharam
- Subjects
010504 meteorology & atmospheric sciences ,δ18O ,Sediment ,engineering.material ,010502 geochemistry & geophysics ,01 natural sciences ,Alluvial plain ,chemistry.chemical_compound ,Albite ,chemistry ,Environmental chemistry ,Illite ,engineering ,General Earth and Planetary Sciences ,Environmental isotopes ,Chlorite ,Groundwater ,0105 earth and related environmental sciences - Abstract
Fluoride (F–) pollution in groundwater of the Older Alluvial Plain (OAP) of Delhi has been reported as a major problem. About 34% of the groundwater samples collected for this study had F– level beyond the permissible limit; with F– concentration in the range of 0.14–3.15 mg/L (average 1.20 mg/L). In this context, this article for the first time attempts on the genesis of major ions chemistry and F– pollution in groundwater of OAP Delhi by going beyond the statistical analysis to sediment geochemistry, chemical weathering processes and understanding of the processes using stable environmental isotopes (2H and 18O). The XRD of the OAP sediments revealed the dominance of fluor-biotite, albite, calcite, quartz, and chlorite. Whereas, the separated clay revealed the dominance of chlorite, kaolinite, and illite minerals. The saturation index (SI) values indicated that the groundwater chemistry is in the process of further F– enrichment by way of sediment groundwater interaction. With the given mineralogy of the sediments, the dominance of major ions like Na+, K+, Mg2+, Ca2+, Cl– and F– has been attributed to chemical weathering of biotites, phlogopites, albite, and calcite during sediment–water interaction. While the dominance of SO42– has been attributed to anthropogenic sources and confirmed by its association with heavier stable isotopes of hydrogen (δ2H: −50.44 to −40.02‰) and oxygen (δ18O: −7.19 to −5.62‰) indicating evaporative enrichment during isotopic fractionation.
- Published
- 2021
13. Synthesis, characterization and anti-inflammatory activity evaluation of 1,2,4-triazole and its derivatives as a potential scaffold for the synthesis of drugs against prostaglandin-endoperoxide synthase
- Author
-
Fareeda Athar, Sonu Chand Thakur, Bushra Khan, Shakir Ali, and Abdullah Naiyer
- Subjects
Antioxidant ,medicine.drug_class ,medicine.medical_treatment ,030303 biophysics ,Anti-Inflammatory Agents ,Anti-inflammatory ,Nitric oxide ,03 medical and health sciences ,chemistry.chemical_compound ,Structure-Activity Relationship ,Structural Biology ,In vivo ,medicine ,Animals ,Binding site ,Molecular Biology ,chemistry.chemical_classification ,0303 health sciences ,Reactive oxygen species ,biology ,Cyclooxygenase 2 Inhibitors ,Molecular Structure ,Anti-Inflammatory Agents, Non-Steroidal ,General Medicine ,Triazoles ,In vitro ,Rats ,Molecular Docking Simulation ,chemistry ,Biochemistry ,Pharmaceutical Preparations ,Cyclooxygenase 2 ,biology.protein ,Cyclooxygenase - Abstract
Substituted 1,2,4-triazole nucleus is common in several drugs used in a variety of clinical conditions including infections, hypoglycemia, hypertension and cancer. In this study, we synthesized 1,2,4-triazole and its 16 hydrazone derivatives (B1-B16), characterized them by IR, NMR and Mass spectroscopy, and evaluated their radical scavenging and anti-inflammatory activities in vitro and in vivo. Out of 16 derivatives, five (B1, B5, B6, B9, and B13) demonstrated a significant radical scavenging and anti-inflammatory activity in vitro. B6, which possessed two electron-donating hydroxyl groups, was most active among all. Molecular docking and MD simulation of the complex of B6 with prostaglandin-endoperoxide synthase (PTGS) or cyclooxygenase (COX) showed that B6 occupied celecoxib binding site in COX with high affinity (the binding free energy of the complex with COX-1 was -10.5, and -11.2 kcal/mol with COX-2). Maximum anti-inflammatory activity was also shown by the B6 derivative in vivo, in the rat model of carrageenan-induced inflammation. B6, along with four other derivatives (B1, B5, B9 and B13) exhibited 80-90% free radical scavenging activity. The IC50 values of these compounds were ≥40 µM. Griess nitrite and dichloro-dihydro-fluorescein-diacetate assays suggested a significant inhibition of nitric oxide and reactive oxygen species, especially by B6 and B9. Taken together, out of 16 derivatives, B6 is reported to have highest anti-inflammatory and antioxidant activity at a low dose level, which may be attributed to its two electron-donating hydroxyls. B6 is proposed to be an important scaffold for the synthesis of new drugs against PTGS for use in a myriad of inflammatory and infectious diseases.Communicated by Ramaswamy H. Sarma.
- Published
- 2020
14. Structural comparison of Mtb-DHFR and h-DHFR for design, synthesis and evaluation of selective non-pteridine analogues as antitubercular agents
- Author
-
Mymoona Akhter, Omprakash Tanwar, Kalicharan Sharma, M. S. Zaman, Shakir Ali, Shweta Sharma, and Mohammad Mumtaz Alam
- Subjects
0301 basic medicine ,medicine.drug_class ,Population ,Antitubercular Agents ,Microbial Sensitivity Tests ,Antimycobacterial ,01 natural sciences ,Biochemistry ,Molecular Docking Simulation ,Structure-Activity Relationship ,03 medical and health sciences ,Bacterial Proteins ,Catalytic Domain ,parasitic diseases ,Drug Discovery ,medicine ,Humans ,Structure–activity relationship ,heterocyclic compounds ,Enzyme Inhibitors ,education ,Molecular Biology ,education.field_of_study ,Virtual screening ,Binding Sites ,010405 organic chemistry ,Chemistry ,Pteridines ,Organic Chemistry ,Hydrogen Bonding ,Mycobacterium tuberculosis ,respiratory system ,bacterial infections and mycoses ,Protein Structure, Tertiary ,0104 chemical sciences ,Tetrahydrofolate Dehydrogenase ,030104 developmental biology ,Docking (molecular) ,Drug Design ,Nucleic acid ,Pteridine ,medicine.drug - Abstract
Tuberculosis is an infectious disease that affects millions of population every year. Mtb-DHFR is a validated target that is vital for nucleic acids biosynthesis and therefore DNA formation and cell replication. This paper report identification and synthesis of novel compounds for selective inhibition of Mtb-DHFR and unleash the selective structural features necessary to inhibit the same. Virtual screening of databases was carried out to identify novel compounds on the basis of difference between the binding pockets of the two proteins. Consensus docking was performed to improve upon the results and best ten hits were selected. Hit 1 was subjected to analogues design and the analogues were docked against Mtb-DHFR. From the docking results 11 compounds were selected for synthesis and biological assay against H37Rv. Most potent compound (IND-07) was tested for selectivity using enzymatic assay against Mtb-DHFR and h-DHFR. The compounds were found to have good inhibitory activity (25-200 µM) against H37Rv and in enzyme assay against Mtb-DHFR and h-DHFR the compound was found selective towards Mtb-DHFR with selectivity index of 6.53. This work helped to identify indole moiety as novel scaffold for development of novel selective Mtb-DHFR inhibitors as antimycobacterial agents.
- Published
- 2018
15. Elevated fluoride in groundwater of Siwani Block, Western Haryana, India: A potential concern for sustainable water supplies for drinking and irrigation
- Author
-
A.K. Chandrashekhar, Trupti Chandrasekhar, Shakir Ali, Prosun Bhattacharya, Shashank Shekhar, and Gaurav Verma
- Subjects
Irrigation ,Environmental Engineering ,Sodium ,0208 environmental biotechnology ,Geography, Planning and Development ,Environmental engineering ,chemistry.chemical_element ,02 engineering and technology ,010501 environmental sciences ,01 natural sciences ,020801 environmental engineering ,chemistry.chemical_compound ,chemistry ,Groundwater pollution ,Evapotranspiration ,Sodium adsorption ratio ,Environmental Chemistry ,Environmental science ,Sodium carbonate ,Fluoride ,Groundwater ,0105 earth and related environmental sciences ,Water Science and Technology - Abstract
Groundwater pollution is a serious health concern in north-western India. In this study, we have reported very high concentration of fluoride i.e. 18.5 and 16.6 mg/l from Sainiwas locality in Siwani block of Bhiwani district, Haryana, India. The values are much higher than the permissible limit set by WHO and BIS. The evapotranspiration in the area leads to Ca2+ precipitation, which allows an increase in F- content in the groundwater. In addition, the replacement of hydroxyl of secondary clay mineral under alkaline condition is responsible for release of F-. In absence of alternative source, the fluoride polluted groundwater in some of these localities is also used for drinking. Further, the suitability of groundwater for irrigation is also evaluated by various parameters such as Sodium Adsorption Ratio (SAR), Sodium Percentage (Na%), Kelly's Ratio (KR), Magnesium Hazard (MH) and Residual Sodium Carbonate (RSC). It emerges out that in a few localities, groundwater is not suitable for irrigation and with respect to Magnesium Hazard (MH) almost all samples are unsuitable for irrigation. This article highlights groundwater quality of Siwani block in Haryana and proposes for immediate remedial measures.
- Published
- 2018
16. In silico approach for bioremediation of arsenic by structure prediction and docking studies of arsenite oxidase from Pseudomonas stutzeri TS44
- Author
-
Munazzah Tasleem, Shakir Ali, Mohammad Mumtaz Alam, and Mymoona Akhter
- Subjects
0301 basic medicine ,biology ,In silico ,030106 microbiology ,Active site ,Ectoine ,biology.organism_classification ,Microbiology ,Pseudomonas stutzeri ,Biomaterials ,03 medical and health sciences ,chemistry.chemical_compound ,030104 developmental biology ,Protein structure ,chemistry ,Biochemistry ,Docking (molecular) ,biology.protein ,Homology modeling ,Waste Management and Disposal ,Arsenite - Abstract
Pseudomonas stutzeri TS44 is a moderately halotolerant, arsenite-oxidizing bacterium, containing genes for arsenite oxidation, arsenic resistance, and ectoine/hydroxyectoine biosynthesis. This paper reports in silico studies to understand bioremediation to eliminate toxic metal arsenic in water, air and soil by arsenite oxidase (AO), the bacterial enzyme from P. stutzeri TS44 that can be used for a low cost and eco-friendly removal of arsenite from the environment. To understand the activity of AO in elimination of arsenite, sequence analysis was carried out and homologs, orthologs, domains, family, and conserved residues were identified followed by model generation using various homology modeling tools. The generated models were validated for the best quality protein structure and the best model was used for further optimization using energy minimization approach. Molecular docking studies were performed to study the binding interaction of AO with arsenite. The study predicts and validates the 3D structure of P. stutzeri TS44 arsenite oxidase and reports four active site residues (His197, Glu205, Arg421, and His425) from a close structural homolog of AO from A. faecalis (PDB ID: 1G8K_A). The molecular docking studies suggested the formation of a stable complex and in silico site-directed mutagenesis revealed the importance of Arg421, which resulted in a decrease in stability of the complex when mutated. The study implicates P. stutzeri TS44 arsenite oxidase as a non virulent protein for low cost and eco-friendly bioremediation of arsenite.
- Published
- 2017
17. Soy Isoflavones in Integrative Oncology: Increased Efficacy and Decreased Toxicity of Cancer Therapy
- Author
-
Omer Kucuk, Kazim Sahin, Ilyas Sahin, Birdal Bilir, and Shakir Ali
- Subjects
0301 basic medicine ,medicine.medical_treatment ,Genistein ,Antineoplastic Agents ,Review Article ,Pharmacology ,chemotherapy ,lcsh:RC254-282 ,Metastasis ,genistein ,03 medical and health sciences ,chemistry.chemical_compound ,Prostate cancer ,0302 clinical medicine ,Neoplasms ,medicine ,Animals ,Humans ,Integrative Oncology ,radiotherapy ,Chemotherapy ,Cancer prevention ,business.industry ,Isoflavones ,prostate cancer ,medicine.disease ,lcsh:Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,Radiation therapy ,030104 developmental biology ,Complementary and alternative medicine ,Oncology ,chemistry ,030220 oncology & carcinogenesis ,Cancer cell ,Soybeans ,business - Abstract
Soy consumption in human diet has been linked to decreased incidence of a variety of cancers, suggesting a potential role of soy products in cancer prevention and control. Furthermore, a substantial body of evidence in the literature suggests that soy supplementation may improve the efficacy and prevent the adverse effects of cancer chemotherapy and radiation therapy. Isoflavones constitute the predominant anticancer bioactive compounds in soy. Genistein, which is the most abundant and active isoflavone in soy, has a multitude of effects on cancer cells, including inhibition of NF-κB activation and DNA methylation, enhancement of histone acetylation, inhibition of cell growth and metastasis, and antiangiogenic, anti-inflammatory, and anti-oxidant effects. Isoflavones are orally bioavailable, easily metabolized, and usually considered safe. In this article, we review in vitro and in vivo evidence as well as the results of clinical and epidemiological studies on the effects of soy isoflavones, with a focus on sensitization of cancer cells to chemotherapy and radiation while at the same time protecting normal cells from the harmful effects of these treatments.
- Published
- 2019
18. Mining of potential dipeptidyl peptidase-IV inhibitors as anti-diabetic agents using integrated in silico approaches
- Author
-
Shubham Srivastava, Mohammad Shaqiquzzaman, Faisal A. Almalki, Mymoona Akhter, Khalid Saifullah, Shweta Sharma, Ruchi Malik, Shakir Ali, Mohammad Mumtaz Alam, and Apeksha Shrivastava
- Subjects
0303 health sciences ,Virtual screening ,Chemistry ,In silico ,030303 biophysics ,General Medicine ,Computational biology ,03 medical and health sciences ,Structural Biology ,Feature (computer vision) ,Receptor ,Molecular Biology ,Dipeptidyl-Peptidase IV Inhibitors ,ADME - Abstract
The dipeptidyl peptidase-IV (DPP-IV) family of receptors possesses a large binding cavity that imparts promiscuity for number of ligand binding which is not common to other receptors. This feature increases the challenge of using computational methods to identify DPP-IV inhibitors, therefore using both pharmacophore and structure-based screening seems to be a reliable approach. Mining of novel DPP-IV inhibitors by integrating both of these in silico techniques was reported. Pharmacophore model (Model_008) obtained from structurally diverse reported compounds was used as a template for screening of MolMall database followed by structure-based screening against PDB ID: 5T4E. After absorption, distribution, metabolism and excretion (ADME) analysis of shortlisted compounds, consensus docking and molecular mechanics/generalized born surface area studies were carried out. The results of the docking studies obtained were comparable to that of the reference ligand. Out of nine hits identified, only one hit (ID MolMall-20062) was available which was procured through exchange program. Molecular dynamic simulation studies of the procured hit revealed its good selectivity and stability in DPP-IV binding pocket and interactions observed with important amino acids viz., Trp629, Lys544 and Arg125. Biological testing of the compound MolMall-20062 showed promising DPP-IV inhibition activity with IC50: 6.2 µM. Compound MolMall-20062 could be taken as a good lead for the development of DPP-IV inhibitors. AbbreviationsADMEabsorption, distribution, metabolism and excretionChEBIchemical entities of biological interestDPP-IVdipeptidyl peptidase IVDISCOtechdistance comparisonsHTVShigh throughput virtual screeningMDmolecular dynamicsMM-GBSAmolecular mechanics‐generalized born surface areaOGTToral glucose tolerance testPBVSpharmacophore-based virtual screeningPDBprotein data bankRMSDroot mean square deviationROCreceiver operating characteristicsSPstandard precisionSBVSstructure-based virtual screeningVSvirtual screeningXPextra precision absorption, distribution, metabolism and excretion chemical entities of biological interest dipeptidyl peptidase IV distance comparisons high throughput virtual screening molecular dynamics molecular mechanics‐generalized born surface area oral glucose tolerance test pharmacophore-based virtual screening protein data bank root mean square deviation receiver operating characteristics standard precision structure-based virtual screening virtual screening extra precision Communicated by Ramaswamy H. Sarma
- Published
- 2019
- Full Text
- View/download PDF
19. Worldwide contamination of water by fluoride
- Author
-
Aditya Sarkar, Shakir Ali, Shashank Shekhar, and Sachin Kumar Thakur
- Subjects
Alkalinity ,chemistry.chemical_element ,010501 environmental sciences ,Contamination ,010502 geochemistry & geophysics ,medicine.disease ,01 natural sciences ,Arid ,Industrial waste ,Skeletal fluorosis ,chemistry.chemical_compound ,chemistry ,Environmental chemistry ,medicine ,Environmental Chemistry ,Environmental science ,Fluoride ,Groundwater ,Arsenic ,0105 earth and related environmental sciences - Abstract
Fluoride contamination in water is a major problem across the globe, with health hazards such as dental and skeletal fluorosis. Most earlier studies are confined to local or regional scales. As the problem has serious socioeconomic implications, there is a need for a global perspective. Thus, here we review worldwide research for nearly a century on fluoride contamination in water. We investigated the distribution of fluoride contamination in water, its sources, mobilization and association. The major findings are: (1) Anomalous fluoride concentration in groundwater is mainly confined to arid and semiarid regions of Asia and North Africa. (2) The geogenic sources of fluoride in water are mainly fluorine-bearing minerals in rocks and sediments, whereas anthropogenic sources of fluoride in water are mainly pesticides and industrial waste. (3) Fluoride mobilization from geogenic sources is mainly controlled by alkalinity and temperature. (4) Fluoride occurrence in water is associated with ions such as sodium, arsenic chloride and bicarbonate. There are few associations of fluoride in water with calcium and magnesium.
- Published
- 2016
20. Distribution, genesis and geochemical modeling of fluoride in the water of tribal area of Bijapur district, Chhattisgarh, central India
- Author
-
Swati Singh, Trupti Chandrasekhar, Hemant Kumar Singh, Arindam Ghosh, Chandrashekhar Azad Kashyap, Shakir Ali, and Dornadulla Chandrasekharam
- Subjects
Environmental Engineering ,0208 environmental biotechnology ,Geography, Planning and Development ,Population ,Aquifer ,02 engineering and technology ,010501 environmental sciences ,engineering.material ,01 natural sciences ,chemistry.chemical_compound ,Skeletal fluorosis ,medicine ,Environmental Chemistry ,Dominance (ecology) ,education ,0105 earth and related environmental sciences ,Water Science and Technology ,Geochemical modeling ,education.field_of_study ,geography ,geography.geographical_feature_category ,medicine.disease ,020801 environmental engineering ,chemistry ,Environmental chemistry ,engineering ,Environmental science ,Fluoride ,Biotite ,Groundwater - Abstract
The present study has been carried out to determine the sources and distribution of fluoride (F−) contamination in the water of district Bijapur, Chhattisgarh, central India. For this study, 45 water samples were collected from surface and groundwater from shallow and deeper aquifers. It was observed that 50% of groundwater samples have elevated F− level and varies from 0.1 to 7.1 mg/L, though, F− level in water bodies was below the WHO maximum permissible limit (1.5 mg/L). The major ions of water samples reveal the dominance of Ca–Mg–HCO3 hydrochemical facies. This study suggests F− contaminated water shows a significant correlation with Cl− which further supported by statistical correlation. Analysis of rocks and sediments from the study area suggests leaching of minerals like biotite, hornblende, and richterite which are likely sources for elevated F− level in groundwater. Gibbs diagram reveals the dominance of the evaporative process for contaminated water by F− in the study area. Due to improper awareness, the local tribal population (≈2, 55,000) of the area is consuming F− enriched groundwater and vulnerable to dental and skeletal fluorosis. Thus, surface and uncontaminated water w.r.t F− should be developed for providing safe water to the inhabitants.
- Published
- 2020
21. Boron inhibits apoptosis in hyperapoptosis condition: Acts by stabilizing the mitochondrial membrane and inhibiting matrix remodeling
- Author
-
Indusmita Routray and Shakir Ali
- Subjects
0301 basic medicine ,Programmed cell death ,DNA damage ,Cell Survival ,Cell ,Biophysics ,Caspase 3 ,Apoptosis ,Phosphatidylserines ,Mitochondrion ,Biochemistry ,03 medical and health sciences ,0302 clinical medicine ,Cell Line, Tumor ,medicine ,In Situ Nick-End Labeling ,Humans ,Inner mitochondrial membrane ,Molecular Biology ,Nitrites ,Boron ,Membrane Potential, Mitochondrial ,Neurons ,biology ,Chemistry ,Cytochrome c ,Cytochromes c ,Neurodegenerative Diseases ,Cell biology ,030104 developmental biology ,medicine.anatomical_structure ,030220 oncology & carcinogenesis ,Mitochondrial Membranes ,biology.protein ,DNA Damage - Abstract
An abnormally high apoptosis has been associated with a number of clinical conditions including embryonal malformations and various pathologies such as neuronal degeneration and diabetes. In this study, boron is reported to inhibit apoptosis in hyperapoptosis conditions as demonstrated in a model of hyperapoptosis. Boron is a metalloid which is present in food in small amounts and is suggested here to inhibit apoptosis by stabilizing the mitochondrial membrane structure, thus preventing matrix remodeling and the release of cytochrome c, an apoptosis-inducer protein from the mitochondrion. The protective effect was assessed by measuring the changes in mitochondrial membrane potential, the levels of cytochrome c and downstream activation of caspase 3, besides phosphatidylserine exposure on the cell surface and DNA damage. The study has implication in clinical conditions characterized by hyperapoptosis as seen in certain embryonal malformations and various pathologies.
- Published
- 2018
22. Dataset on non-carcinogenic risk via nitrate and nitrite in the groundwater of Divandarreh County, Kurdistan province, Iran: A potential concern for drinking
- Author
-
Yadolah Fakhri, Bigard Moradi, Shakir Ali, Abotaleb Bay, Mansoureh Ghezelsofla, and Hassan Keramati
- Subjects
inorganic chemicals ,Nitrite ,Non carcinogenic risk ,010501 environmental sciences ,lcsh:Computer applications to medicine. Medical informatics ,Nitrate ,01 natural sciences ,Groundwater contamination ,chemistry.chemical_compound ,0404 agricultural biotechnology ,Divandarreh County ,lcsh:Science (General) ,0105 earth and related environmental sciences ,Risk assessment ,Multidisciplinary ,food and beverages ,04 agricultural and veterinary sciences ,040401 food science ,chemistry ,Environmental chemistry ,Environmental Science ,Environmental science ,lcsh:R858-859.7 ,Rural Iran ,Groundwater ,lcsh:Q1-390 - Abstract
The presence of elevated nitrate (NO3-) and nitrite (NO2-) concentration in drinking water higher than the standard limits could endanger the health of consumers. For this data article, concentration of NO3- and NO2- was measured in 118 samples collected from 59 active rural wells in Divandarreh County and the non-carcinogenic risk in the adults and children was estimated by Monte Carlo simulation (MCS). The obtained data showed that the average concentration of NO3- and NO2- was ranges from 31.37 ± 18.87 mg/L and 1.45 ± 0.90 mg/L respectively. Based on acquired data, NO3- concentrations were 37 times higher than NO2- with significant p value of < 0.05. The average concentration of NO3- and NO2- was lower than the national standard with p value < 0.05. However, the concentration of NO3- and NO2- in 23.7% and 13.5% of wells was higher than the national standard of Iran. Total target hazard quotient (TTHQ) in the adults and children was 1.78 and 1.54, respectively. Although, the average concentration of NO3- and NO2- in drinking water was lower than the national standard limits, but the non-carcinogenic risk assessment showed that the children and adults are at a significant risk via nitrate and nitrite in the rural Divandarreh County (TTHQ > 1). Keywords: Nitrate, Nitrite, Groundwater contamination, Risk assessment, Rural Iran, Divandarreh County
- Published
- 2018
23. Color removal from textile wastewater using capparis spinosa as natural coagulant
- Author
-
Ali J. Jaeel and Noor Shakir Ali
- Subjects
Absorbance ,Flocculation ,food ,Settling ,Wastewater ,Chemistry ,Capparis spinosa ,Coagulation (water treatment) ,Sewage treatment ,Acidity function ,Pulp and paper industry ,food.food - Abstract
Natural coagulant is a habitually developed; plants derived coagulant which could be applied in coagulation- flocculation activity of textile wastewater treatment for reducing the concentration of dyes. In this study the capability of Capparis Spinosa in excluding dyes has been investigated. At a number of dosages of the dye the absorbance amount is noticed applying a coupled ray UV spectrophotometer and a standardization curve has been made. A set of examinations were implemented for verifying the dye removal efficiency using a powder extracted from Capparis Spinosa plant. The effects of various factors such as the acidity function, dye concentration, Capparis Spinosa concentration and the settling time have been investigated. PH implies be a remarkable parameter and dye removal efficiency declines as pH rises and settling time decreases after 20 minutes of settling. The findings illustrate that the dye removal efficiency is achieved highest equal to 96% using Capparis Spinosa as a natural coagulant.
- Published
- 2018
24. Quinazoline based small molecule exerts potent tumour suppressive properties by inhibiting PI3K/Akt/FoxO3a signalling in experimental colon cancer
- Author
-
Mushtaq A. Aga, Shashank K. Singh, Asif Khurshid Qazi, Abid Hamid, Saima Khan, Shakir Ali, Ajit Kumar Saxena, Akanksha Behl, Aashiq Hussain, Subhash C. Taneja, Dilip M. Mondhe, and Bhahwal Ali Shah
- Subjects
Male ,Cancer Research ,Time Factors ,Class I Phosphatidylinositol 3-Kinases ,Antineoplastic Agents ,Apoptosis ,Biology ,Transfection ,Mice ,Phosphatidylinositol 3-Kinases ,chemistry.chemical_compound ,In vivo ,Animals ,Humans ,Gene silencing ,Molecular Targeted Therapy ,Carcinoma, Ehrlich Tumor ,Protein Kinase Inhibitors ,Protein kinase B ,PI3K/AKT/mTOR pathway ,Cell Proliferation ,Phosphoinositide-3 Kinase Inhibitors ,Membrane Potential, Mitochondrial ,Dose-Response Relationship, Drug ,Cell growth ,Forkhead Box Protein O3 ,Forkhead Transcription Factors ,HCT116 Cells ,G1 Phase Cell Cycle Checkpoints ,Hedgehog signaling pathway ,Tumor Burden ,Class Ia Phosphatidylinositol 3-Kinase ,Oncology ,Biochemistry ,chemistry ,Drug Design ,Colonic Neoplasms ,Quinazolines ,Cancer research ,Female ,RNA Interference ,Phosphatidylinositol 3-Kinase ,Growth inhibition ,Proto-Oncogene Proteins c-akt ,Signal Transduction - Abstract
Deregulation of PI3K signalling pathway is strongly involved in pathology of cancer and development of resistance in tumour cells. Here, we report that pharmacologically active vasicinone analogue, RLX (7, 8, 9, 10-Tetrahydroazepino [2, 1-b] quinazolin-12-(6H)-on), exhibited potent anticancer activities both in vitro and in vivo. In this study, RLX treatment displayed strong inhibition of proliferation against various cancer cell lines. However, colon cancer cells were found to be the most sensitive towards RLX mediated inhibition of proliferation. The result showed that RLX treatment followed strong concentration dependent inhibition of HCT-116 cell proliferation and colony formation. RLX treatment to HCT-116 was observed to be associated with down-regulation of p110α and p85 subunits of PI3K thereby decreasing the expression of subsequent downstream effector proteins. Interestingly, silencing of PI3K gene by siRNA in combination with RLX confirmed the anti-proliferation effect of RLX against HCT-116 cells and is mediated by the PI3K pathway. We also found that RLX induced sub-G1 arrest and mitochondrial potential loss followed by pFoxO3a(Thr32) nuclear-cytoplasmic translocation inhibition. Moreover, RLX treatment in in vivo models substantially resulted in a tumour growth inhibition. Overall, our findings reveal the functional role of the PI3K/Akt/FoxO3a pathway that gets deregulated in cancer and suggests its simultaneous targeting by RLX thereby further identifying the compound as a potent inhibitor of the PI3K/Akt/FoxO3a pathway under in vitro and tumour regression in vivo.
- Published
- 2015
25. Eugenol-rich Fraction of Syzygium aromaticum (Clove) Reverses Biochemical and Histopathological Changes in Liver Cirrhosis and Inhibits Hepatic Cell Proliferation
- Author
-
Omer Kucuk, Kazim Sahin, Shakir Ali, Indusmita Routray, Tijjani Salihu Shinkafi, Ram Prasad, and Amena Mahmood
- Subjects
Pathology ,medicine.medical_specialty ,Cirrhosis ,Pharmacology ,medicine.disease_cause ,chemistry.chemical_compound ,Medicine ,Clove ,Cell proliferation ,business.industry ,fungi ,food and beverages ,medicine.disease ,Ascorbic acid ,Fibrosis ,Eugenol ,Liver ,chemistry ,Hepatocellular carcinoma ,Hepatic stellate cell ,Alkaline phosphatase ,Original Article ,Thioacetamide ,business ,Oxidative stress - Abstract
Background Dried flower bud of Syzygium aromaticum (clove) is rich in eugenol, an antioxidant and antiinflammatory compound that can protect liver against injury. Clove, besides eugenol, also contains other pharmacologically active phytochemicals such as β-sitosterol and ascorbic acid. This study reports the effect of eugenol-rich fraction (ERF) of clove on liver cirrhosis induced by thioacetamide. Methods Cirrhosis of the liver, which predisposes to hepatocellular carcinoma, was induced by administering thioacetamide (0.03%) in drinking water for 16 weeks. Cirrhotic animals were divided into two groups; the treated group was administered ERF for 9 weeks, one week after discontinuation of thioacetamide, while the other group received normal saline for a similar duration of time. Results The treatment with ERF, as determined by histopathology and through a battery of biochemical markers of hepatic injury, oxidative stress and drug metabolizing enzymes, significantly ameliorated the signs of liver cirrhosis. It lowered the elevated levels of alkaline phosphatase, γ-glutamyl transferase and other biochemical changes in liver cirrhosis. Histopathology of the liver corroborated the effect of ERF with biochemical findings. ERF treatment further inhibited cell proliferation, as demonstrated by reduced [(3)H]-thymidine uptake. Conclusions Data provide evidence supporting the protective action of ERF on liver cirrhosis. The study assumes significance because cirrhosis predisposes the liver to cancer, which is characterized by abnormal cell proliferation. ERF in this study is reported to inhibit hepatic cell proliferation and at the same time decrease oxidative stress, which might be the mechanism of protection against liver cirrhosis.
- Published
- 2014
26. Lycopene: Multitargeted Applications in Cancer Therapy
- Author
-
OmerKucuk, Nurhan Sahin, Shakir Ali, Cemal Orhan, and Kazım Şahin
- Subjects
0301 basic medicine ,Oncology ,medicine.medical_specialty ,business.industry ,Cancer therapy ,Lycopene ,03 medical and health sciences ,chemistry.chemical_compound ,030104 developmental biology ,0302 clinical medicine ,chemistry ,030220 oncology & carcinogenesis ,Internal medicine ,Medicine ,business - Published
- 2017
27. Size dependent toxicity of zinc oxide nano-particles in soil nematodeCaenorhabditis elegans
- Author
-
Madhavi Sonane, Kailash Chand Gupta, Yogendra Nagar, Shakir Ali, Priyanka Khare, Nida Moin, and Aruna Satish
- Subjects
inorganic chemicals ,technology, industry, and agriculture ,Biomedical Engineering ,Oxide ,Metal Nanoparticles ,Nanoparticle ,chemistry.chemical_element ,Context (language use) ,Zinc ,Biology ,Toxicology ,chemistry.chemical_compound ,chemistry ,Toxicity ,Daf-16 ,Biophysics ,Animals ,Particle Size ,Zinc Oxide ,Signal transduction ,Caenorhabditis elegans ,Function (biology) - Abstract
Zinc oxide nano-particles (ZnO NPs), with their unique physico-chemical properties conferred by various size formulations, are extensively used in consumer products. The enormous usage coupled with their release to the environment demands risk assessment of ZnO NPs on health and the environment. Toxicity of ZnO NPs is well understood in comparison to the bulk ZnO. However, toxicity in relation to the NP size is poorly understood. In this context, we examined the adverse effects of different sizes (35 nm, 50 nm and 100 nm) of ZnO NPs in soil nematode C. elegans along with bulk ZnO and ZnCl2. Here, we show that growth, reproduction and behavior of worms were adversely affected by ZnO NPs in a size dependent manner. Further, exposure to ZnO NPs caused modulation of expression/function of genes associated with Insulin/IGF-like signaling pathway and/or stress response pathway in a size dependent manner in exposed worms. The expression of pro-apoptotic gene and suppression of anti-apoptotic genes, together with increased numbers of cell corpses in the germ line, indicated that apoptosis was also dependent on the size of the ZnO NP. Taken together, our study provides evidence that exposure to ZnO NPs disrupts various physiological processes and causes apoptosis in the germ-line even at very low concentration in a size dependent manner. Our finding suggests the inclusion of size as an additional measure for the cautious monitoring of ZnO NP disposal into the environment.
- Published
- 2014
28. Analysis of oxytocin in milk samples and intake pattern in different age groups of Indian population
- Author
-
Mukul Das, Manjari Mishra, and Shakir Ali
- Subjects
Male ,Adolescent ,Health, Toxicology and Mutagenesis ,India ,Oxytocin ,Toxicology ,Immunoenzyme Techniques ,Age groups ,medicine ,Animals ,Humans ,Food science ,Solid phase extraction ,Child ,Chromatography, High Pressure Liquid ,Food frequency ,Chemistry ,Age Factors ,Indian population ,Infant ,food and beverages ,Food frequency questionnaire ,Milk ,Child, Preschool ,Cattle ,Female ,Uttar pradesh ,medicine.drug ,Intake assessment - Abstract
Oxytocin (OT) injections have been indiscriminately used to milk cattle in dairy industries. There is no study available regarding surveillance of OT in market milk samples.OT from milk samples was extracted by precipitation with trichloroacetic acid and passed through the solid phase extraction column. OT was eluted and evaporated to dryness under a gentle stream of nitrogen. The residue was either dissolved in milli Q water or buffer for analysis through HPLC or EIA. The intake assessment of OT through milk was assessed through the Food Frequency Recall method employing a Food Frequency Questionnaire. On the basis of milk consumption and the values of OT in milk, the actual intake of OT was calculated.In the present study, a total of 55 milk samples (39 milkman and 16 branded) were analyzed for occurrence of OT by EIA and UV-HPLC from different locations of Lucknow, Uttar Pradesh (India). OT contamination in milkman samples was found to be 21 pg/mL to 18.9 ng/mL with the mean value of 8.9 ng/mL. The average daily intake of OT in terms of µg/day/person was highest (2.3-2.4 µg/day/person) in 1-3-year age group.Since there is no prescribed level of OT in milk and the intake of OT through this commodity is quite high there is need to implement regulatory laws so that non-physiological OT exposure may not occur in children which may have deleterious effects.
- Published
- 2014
29. Involvement of attenuated antioxidant and Bcl2 signalling property in UV-R/ sunlight irradiated piperine treated ischemia/reperfusion rat model. Highlights
- Author
-
Manish Kumar Pal, Ashish Dwivedi, Ratan Singh Ray, Durga Prasad Mishra, Amit Kumar Tripathi, and Shakir Ali
- Subjects
musculoskeletal diseases ,Mitochondrial ROS ,Antioxidant ,Chemistry ,medicine.medical_treatment ,fungi ,Cell ,Ischemia ,Endogeny ,Pharmacology ,medicine.disease ,Neuroprotection ,body regions ,chemistry.chemical_compound ,medicine.anatomical_structure ,Biochemistry ,Piperine ,parasitic diseases ,medicine ,lipids (amino acids, peptides, and proteins) ,Viability assay - Abstract
Introduction: Piperine (PIP) is well known multifunctional antioxidant and anti-inflammatory phytochemical that showed neuroprotection. Pre-treatment of UV-R irradiated piperine (UVR-PIP) 10 mg/kg body weight bw, intravenously showed attenuated neuroprotective effects compared to that of PIP (10µM) in PC12, cortical neuronal culture in-vitro and a rat model of focal cerebral ischemia in-vivo. Method: Neurological parameters were evaluated for UVR-PIP and PIP treated against transient focal cerebral ischemia of SD rats through quantification of infarct volume by TTC staining. In-vitro results deal with reduction of cell viability on UVR-PIP treatment in PC12 and cortical neuronal cell. The result of photodegradation of PIP under UV-R irradiation revealed the formation of photoproducts. Estimation of Mitochondrial ROS, antioxidant enzyme and non-enzyme activities in UVR-PIP and PIP treated brain tissue. Results: Results indicated OGD induced primary cortical neuron cultures and PC12 cells showed that SUN-PIP treatment decrease cell viability and increased LDH secretion compared to that of the PIP pre-treatment. In addition, Bcl-2 expression was decreases after the SUN-PIP treatment. Thus, our results demonstrated that SUN-PIP preconditioning failed to increase levels of Bcl-2 and normalized the endogeneous antioxidant, mediating the neuroprotective effects of PIP. UV-R irradiation attenuated the neuroprotective effects of PIP through modulation of the antioxidant and Bcl-2 mediated pathway. Conclusion: Thus, the ability of UV-R to serve as a modulator of this neuroprotective signaling pathway. Piperine loses some of its neuroprotective ability when irradiated by UV radiation and care has to be taken during storage to avoid exposing piperine to the sun.
- Published
- 2014
30. Modulation of Macrophage Activity by a Herbo-mineral Formulation in Murine Model
- Author
-
Yadhu Sharma, Farah Khan, Samina Bashir, Asif Elahi, and Shakir Ali
- Subjects
Environmental Engineering ,business.industry ,Phagocytosis ,Pharmacology ,Industrial and Manufacturing Engineering ,Nitric oxide ,chemistry.chemical_compound ,chemistry ,Murine model ,Interferon ,medicine ,Splenocyte ,Macrophage ,business ,Interleukin 4 ,medicine.drug - Published
- 2014
31. Concentration of fluoride in groundwater of India: A systematic review, meta-analysis and risk assessment
- Author
-
Abdolazim Alinejad, Shashank Shekhar, Prosun Bhattacharya, Shakir Ali, Yadolah Fakhri, Mehdi Golbini, Sachin Kumar Thakur, and Iman Parseh
- Subjects
Pollution ,Environmental Engineering ,Health risk assessment ,media_common.quotation_subject ,0208 environmental biotechnology ,Geography, Planning and Development ,Context (language use) ,02 engineering and technology ,010501 environmental sciences ,01 natural sciences ,020801 environmental engineering ,Water resources ,chemistry.chemical_compound ,chemistry ,Environmental health ,Environmental Chemistry ,Environmental science ,Rural area ,Risk assessment ,Fluoride ,Groundwater ,0105 earth and related environmental sciences ,Water Science and Technology ,media_common - Abstract
It is a well-known fact that the Indian groundwater is polluted by fluoride. However, for the first time in India, non-carcinogenic risk assessments and meta-analysis of fluoride exposure to humans were carried out due to consumption of groundwater. In this context, we collected fluoride concentration data in groundwater across India by systematic searches conducted in various international search engines databases. Here, we demonstrated a detailed meta-analysis and meta-regression of fluoride and evaluated health risk assessment. For this purpose, meta-analysis of 63 studies on fluoride in groundwater in India, comprising 57381 samples are included. We found that 1.) The pooled concentration of fluoride in India is around 2.37 mg/L with 95% confident interval (1.46–3.28 mg/L) which is higher than WHO and national standards limit of 1.5 mg/L. 2) The meta-analysis of data suggests that in rural parts of the country, fluoride concentration is 1.85 times higher than urban areas. 3) The concentration of fluoride in groundwater decreased significantly (p 1). The findings are helpful in identifying the affected areas of India and we recommend that the safer options of drinking water should be adopted.
- Published
- 2019
32. Okadaic acid-induced Tau phosphorylation in rat brain: Role of NMDA receptor
- Author
-
Abul Kalam Najmi, Shakir Ali, Shivika Rai, Supriya Swarnkar, Pradeep Kumar Kamat, Chandishwar Nath, and Rakesh Shukla
- Subjects
Male ,medicine.medical_specialty ,Tau protein ,Hyperphosphorylation ,tau Proteins ,Receptors, N-Methyl-D-Aspartate ,Cholinergic Antagonists ,Rats, Sprague-Dawley ,Glycogen Synthase Kinase 3 ,chemistry.chemical_compound ,Piperidines ,Memantine ,Internal medicine ,Ca2+/calmodulin-dependent protein kinase ,Okadaic Acid ,Phosphoprotein Phosphatases ,medicine ,Animals ,Donepezil ,Enzyme Inhibitors ,Phosphorylation ,Maze Learning ,Neurons ,Glycogen Synthase Kinase 3 beta ,biology ,Calpain ,Chemistry ,General Neuroscience ,Neurotoxicity ,Brain ,Okadaic acid ,medicine.disease ,Rats ,Endocrinology ,Biochemistry ,Indans ,biology.protein ,NMDA receptor ,Calcium ,Dizocilpine Maleate ,Calcium-Calmodulin-Dependent Protein Kinase Type 2 ,Excitatory Amino Acid Antagonists ,medicine.drug - Abstract
Okadaic acid (OKA) is a potent inhibitor of protein phosphatases 1/2A (PP2A). Inhibition of PP2A leads to hyperphosphorylation of Tau protein. Hyperphosphorylated Tau protein is present in intraneuronal neurofibrillary tangles a characteristic feature of neuropathology of Alzheimer's disease. Intracerebroventricular (ICV) administration of OKA causes neurotoxicity, which is associated with increased intracellular Ca(2+) level, oxidative stress, and mitochondrial dysfunction in the brain areas. The present study explored Tau phosphorylation in OKA-treated rats in relation to memory function, PP2A activity, intracellular Ca(2+), glycogen synthase kinase-3β (GSK-3β) and N-methyl-d-aspartate (NMDA) receptor after 13days of OKA (200ng, ICV) administration in rats, memory was found impaired in the water maze test. OKA-induced memory-impaired rats showed increased mRNA and protein expression of Tau, Ca(2+)/calmodulin-dependent protein kinase II (CaMKII), Calpain and GSK3β in the hippocampus and cerebral cortex. On the other hand, mRNA expression and activity of PP2A was reduced in these brain areas. OKA treatment also, resulted in decrease in mRNA expression of C and N terminals of Tau. Treatment with NMDA antagonist, MK801 (0.05mg/kg, i.p.) for 13days significantly prevented OKA-induced changes in the expression of PP2A, Tau, GSK3β, CaMKII and Calpain. Further, daily administration of anticholinergic drug, donepezil (5mg/kg, p.o.), and the NMDA receptor antagonist, memantine (10mg/kg, p.o.) initiated after OKA administration for 13days significantly attenuated OKA-induced variation in Tau, Tau-C terminal, Tau-N terminal CaMKII, Calpain, PP2A and GSK3β. These results infer that NMDA antagonist MK801 and memantine are effective against OKA-induced neurotoxicity. Therefore, the present study clearly indicates the involvement of NMDA receptor in OKA (ICV)-induced Tau hyperphosphorylation.
- Published
- 2013
33. A New Extraction Method for the Determination of Oxytocin in Milk by Enzyme Immune Assay or High-Performance Liquid Chromatography: Validation by Liquid Chromatography–Mass Spectrometry
- Author
-
Manjari Mishra, Mukul Das, and Shakir Ali
- Subjects
Detection limit ,chemistry.chemical_classification ,Chromatography ,Chemistry ,Coefficient of variation ,Extraction (chemistry) ,Applied Microbiology and Biotechnology ,High-performance liquid chromatography ,Analytical Chemistry ,Milking ,Enzyme ,Oxytocin ,Liquid chromatography–mass spectrometry ,medicine ,Safety, Risk, Reliability and Quality ,Safety Research ,Food Science ,medicine.drug - Abstract
There has been a controversy regarding the use of exogenous oxytocin (OT) in milking cattle which may have toxicological consequences during nonphysiological exposure. In the present study, a new sensitive extraction method for OT was developed followed by enzyme immune assay (EIA) or high-performance liquid chromatography (HPLC) analysis. The extraction of OT in milk involves two steps: (1) TCA precipitation of milk proteins and (2) solid-phase extraction (SPE) cleanup process. Without these steps, analysis of OT in milk was not possible. Utilizing EIA as a quantitative tool the limit of detection (LOD) and limit of quantitation (LOQ) were found to be 7.74 and 10.3 pg ml−1, precision in terms of intra- and interday coefficient of variation was below 13 % (%RSD, N = 8), while percent recoveries were between 85 and 92 %. Utilizing UV-HPLC, the LOD, LOQ, precision, and recovery values were found to be 4.1 ng ml−1, 9.8 ng ml−1, 2–10 %, and 84–91 %, respectively. OT was found to be stable against adverse temperature (up to 100 °C) and pH (2 to 10) and simulated gastric fluid digestibility assay. Four milk samples collected from the market were analyzed, which showed that TCA precipitation and SPE steps are mandatory and the results were validated by LC-MS showing mass ion peak at 1 kD.
- Published
- 2012
34. Arginine Silicate Inositol Complex Accelerates Cutaneous Wound Healing
- Author
-
Oguzhan Ozdemir, James R. Komorowski, Shakir Ali, Kazim Sahin, Cemal Orhan, Ali Durmus, Ibrahim Hanifi Ozercan, Nurhan Sahin, and Mehmet Tuzcu
- Subjects
0301 basic medicine ,medicine.medical_specialty ,Arginine ,Endocrinology, Diabetes and Metabolism ,Clinical Biochemistry ,Fibroblast growth factor ,Biochemistry ,Inorganic Chemistry ,Ointments ,030207 dermatology & venereal diseases ,03 medical and health sciences ,Hydroxyproline ,chemistry.chemical_compound ,0302 clinical medicine ,Internal medicine ,medicine ,Animals ,Inositol ,Rats, Wistar ,Skin ,Wound Healing ,integumentary system ,biology ,Dose-Response Relationship, Drug ,Chemistry ,Silicates ,Biochemistry (medical) ,Granulation tissue ,General Medicine ,Rats ,Nitric oxide synthase ,Vascular endothelial growth factor ,030104 developmental biology ,medicine.anatomical_structure ,Endocrinology ,biology.protein ,Female ,Wound healing - Abstract
Arginine silicate inositol (ASI) complex is a composition of arginine, silicon, and inositol that has been shown to have beneficial effects on vascular health. This study reports the effects of an ASI ointment on wound healing in rats. A full-thickness excision wound was created by using a disposable 5 mm diameter skin punch biopsy tool. In this placebo-controlled study, the treatment group’s wound areas were covered by 4 or 10 % ASI ointments twice a day for 5, 10, or 15 days. The rats were sacrificed either 5, 10, or 15 days after the wounds were created, and biopsy samples were taken for biochemical and histopathological analysis. Granulation tissue appeared significantly faster in the ASI-treated groups than in the control groups (P
- Published
- 2016
35. Boron Induces Lymphocyte Proliferation and Modulates the Priming Effects of Lipopolysaccharide on Macrophages
- Author
-
Indusmita Routray and Shakir Ali
- Subjects
Lipopolysaccharides ,Male ,0301 basic medicine ,Lipopolysaccharide ,Interleukin-1beta ,lcsh:Medicine ,Lymphocyte proliferation ,Pathology and Laboratory Medicine ,Biochemistry ,Mice ,White Blood Cells ,chemistry.chemical_compound ,0302 clinical medicine ,Animal Cells ,Borates ,Medicine and Health Sciences ,Cytotoxic T cell ,Lymphocytes ,lcsh:Science ,Immune Response ,Cells, Cultured ,Mice, Inbred BALB C ,Multidisciplinary ,biology ,T Cells ,Neurochemistry ,Nitric oxide synthase ,Chemistry ,030220 oncology & carcinogenesis ,Physical Sciences ,Tumor necrosis factor alpha ,Inflammation Mediators ,Cellular Types ,Neurochemicals ,medicine.symptom ,Research Article ,Chemical Elements ,Immune Cells ,Immunology ,Macrophage polarization ,Cytotoxic T cells ,Inflammation ,Nitric Oxide ,03 medical and health sciences ,Signs and Symptoms ,Immune system ,Lymphocyte Proliferation ,medicine ,Animals ,Immunologic Factors ,Boron ,Cell Proliferation ,Blood Cells ,Interleukin-6 ,Tumor Necrosis Factor-alpha ,Macrophages ,lcsh:R ,Biology and Life Sciences ,Cell Biology ,Molecular biology ,030104 developmental biology ,chemistry ,biology.protein ,lcsh:Q ,Neuroscience - Abstract
Chemical mediators of inflammation (CMI) are important in host defense against infection. The reduced capacity of host to induce the secretion of these mediators following infection is one of the factors in host susceptibility to infection. Boron, which has been suggested for its role in infection, is reported in this study to increase lymphocyte proliferation and the secretion of CMI by the lipopolysaccharide (LPS)-stimulated peritoneal macrophages in BALB/c mice. Boron was administered to mice orally as borax at different doses for 10 consecutive days, followed by the stimulation of animals with ovalbumin and isolation of splenocytes for proliferation assay. The lymphocyte subsets were determined by flow cytometry in spleen cell suspension. The mediators of inflammation, TNF-α, IL-6, IL-1β and nitric oxide (NO), were measured in culture supernatant of LPS-primed macrophages isolated from borax treated mice. TNF and ILs were measured by ELISA. NO was determined by Griess test. The expression of inducible nitric oxide synthase (iNOS) in macrophages was studied by confocal microscopy. Results showed a significant increase in T and B cell populations, as indicated by an increase in CD4 and CD19, but not CD8, cells. Boron further stimulated the secretion of TNF-α, IL-6, IL-1β, NO and the expression of iNOS by the LPS-primed macrophages. The effect was dose dependent and most significant at a dose level of 4.6 mg/kg b. wt. Taken together, the study concludes that boron at physiological concentration induces lymphocyte proliferation and increases the synthesis and secretion of pro-inflammatory mediators by the LPS-primed macrophages, more specifically the M1 macrophages, possibly acting through Toll-like receptor. The study implicates boron as a regulator of the immune and inflammatory reactions and macrophage polarization, thus playing an important role in augmenting host defense against infection, with possible role in cancer and other diseases.
- Published
- 2016
36. Mitochondrial dysfunction: A crucial event in okadaic acid (ICV) induced memory impairment and apoptotic cell death in rat brain
- Author
-
Santoshkumar Tota, Pradeep Kumar Kamat, Abul Kalam Najmi, Shakir Ali, Chandishwar Nath, and Rakesh Shukla
- Subjects
Male ,medicine.medical_specialty ,Clinical Biochemistry ,Morris water navigation task ,Hippocampus ,Apoptosis ,Biology ,Toxicology ,medicine.disease_cause ,Biochemistry ,Rats, Sprague-Dawley ,Lipid peroxidation ,Behavioral Neuroscience ,chemistry.chemical_compound ,Internal medicine ,Okadaic Acid ,medicine ,Animals ,Memory impairment ,Biological Psychiatry ,Injections, Intraventricular ,Pharmacology ,chemistry.chemical_classification ,Memory Disorders ,Reactive oxygen species ,Brain ,Mitochondria ,Rats ,Endocrinology ,chemistry ,NMDA receptor ,Lipid Peroxidation ,Oxidative stress - Abstract
Mitochondrial abnormalities have been identified in a large proportion of neurodegenerative diseases. Recently we have reported that intracerebroventricular (ICV) administration of okadaic acid (OKA) causes memory impairment in rat. However involvement of mitochondrial function in OKA induced memory impairment and neuronal damage has not been determined. OKA (200 ng) was administered by ICV route. After 13th day of OKA administration memory function was evaluated by Morris Water Maze test. Following completion of behavioral studies on 16th day, mitochondrial membrane potential, Ca(2+) and reactive oxygen species were evaluated in mitochondrial preparation of cortex, hippocampus, striatum and cerebellum of rat brain. While ATP, mitochondrial activity, lipid peroxidation and nitrite were investigated in synaptosomal preparation of rat brain areas. The activities and mRNA expression of apoptotic factors, caspase-3 and caspase-9, were studied in rat brain regions. The neuronal damage was also confirmed by histopathological study. OKA treated rats showed memory impairment including increased Ca(2+) and reactive oxygen species and decreased mitochondrial membrane potential, ATP and mitochondrial activity in mitochondrial preparation. There was a significant increase in lipid peroxidation and nitrite in synaptosomal preparations. Preventive treatment daily for 13 days with antidementic drugs, donepezil (5 mg/kg, p.o) and memantine (10 mg/kg, p.o), significantly attenuated OKA induced mitochondrial dysfunction, apoptotic cell death, memory impairment and histological changes. Mitochondrial dysfunction appeared as a key factor in OKA induced memory impairment and apoptotic cell death. This study indicates that clinically used antidementic drugs are effective against OKA induced adverse changes at behavioral, cellular, and histological levels and mitochondrial dysfunction.
- Published
- 2011
37. Polyols Stabilize the Denatured States of Multidomain Protein Ovomucoid
- Author
-
M.G. Mustafa, Shakir Ali, and Tanveer Ali Dar
- Subjects
Pharmacology ,Chromatography ,Biochemistry ,Chemistry - Published
- 2011
38. Scorpion (Androctonus crassicauda) venom limits growth of transformed cells (SH-SY5Y and MCF-7) by cytotoxicity and cell cycle arrest
- Author
-
Mir Sajad, Mohammad Naime, Jamil Zargan, Sadiq Umar, Haider A. Khan, and Shakir Ali
- Subjects
DNA Replication ,Cell Survival ,Clinical Biochemistry ,Scorpion Venoms ,Tetrazolium Salts ,Apoptosis ,Breast Neoplasms ,Venom ,DNA Fragmentation ,Biology ,Nitric Oxide ,complex mixtures ,Pathology and Forensic Medicine ,Neuroblastoma ,chemistry.chemical_compound ,Cell Line, Tumor ,Animals ,Humans ,Viability assay ,Inner mitochondrial membrane ,Cytotoxicity ,Lactate Dehydrogenases ,Molecular Biology ,Tumor Stem Cell Assay ,Reactive nitrogen species ,Cell Line, Transformed ,Cell Proliferation ,Membrane Potential, Mitochondrial ,Formazans ,Cell Cycle ,Molecular biology ,Bromodeoxyuridine ,chemistry ,Cell culture ,DNA fragmentation ,Female - Abstract
The purpose of study was to examine the cytotoxic and anti-cancer properties along with addressing the plausible pathway followed by scorpion venom to reduce cell viability in SH-SY5Y and MCF-7 cells. Following exposure of cells with scorpion venom, cytotoxicity was estimated using MTT and lactate dehydrogenase assays. Apoptotic effects were measured by assessment of mitochondrial membrane potential, reactive nitrogen species, DNA fragmentation, and caspase-3 activity whereas antiproliferative effect was assayed using BrdU incorporation. Our results indicate that scorpion venom causes suppression of proliferation by arresting S-phase and induction of apoptosis through increased nitric oxide production, caspase-3 activity and depolarization of mitochondrial membrane. Induction of apoptosis and arrest of DNA synthesis are critical determinant factors for development of anti cancer drugs. These properties may lead to isolation of effective molecule(s) with potential anticancer activity from scorpion venom of Androctonus crassicauda.
- Published
- 2011
39. Dried peel fraction of Citrus sinensis partially reverses pathological changes in rat model of liver cirrhosis
- Author
-
Indusmita Routray, Ram Prasad, Amena Mahmood, Kazim Sahin, Shakir Ali, Mohammed Naime, Mehmet Yalniz, Hina Zafar, and Ibrahim Halil Bahcecioglu
- Subjects
Limonene ,medicine.medical_specialty ,Nutrition and Dietetics ,Cirrhosis ,Endocrinology, Diabetes and Metabolism ,Pharmacology ,Biology ,medicine.disease_cause ,medicine.disease ,Ascorbic acid ,chemistry.chemical_compound ,chemistry ,Biochemistry ,medicine ,Alkaline phosphatase ,Histopathology ,Thioacetamide ,Citrus × sinensis ,Oxidative stress ,Food Science - Abstract
Citrus sinensis is a seasonal fruit. Its zester is rich in bioactive phytochemicals, such as limonene, β-sitosterol, and ascorbic acid, which possess pharmacological action. In this study, we report the effect of fraction prepared from dried peel of C. sinensis on biochemical and histopathological changes in rat model of liver cirrhosis. Liver cirrhosis was induced in rats by administering thioacetamide at a concentration of 0.03% in drinking water for 16 weeks. Thioacetamide was discontinued after 16 weeks and from the 18th week rats were given the extract orally for 9 weeks. Following the completion of the treatment, animals were killed and biochemical and histopathological changes associated with liver cirrhosis were evaluated. The treatment was found to reverse the elevated levels of alkaline phosphatase, γ-glutamyl transferase, and other biochemical markers related to oxidative stress and selected drug metabolizing enzymes. Histopathology of the hepatic tissue confirmed the curative effect of the extract, and corroborated with the biochemical findings. HPTLC fingerprinting of the test fraction confirmed the presence of limonene, β-sitosterol, and ascorbic acid, which may partially explain the effect. The extract was also found to possess the anti-proliferative activity, determined by measuring the incorporation of radioactive thymidine by the hepatic DNA. The study indicates the inhibitory action of the test preparation on collagen accumulation in the extracellular matrix, and hence suggests its use as a potential therapeutic agent in liver fibrosis and cirrhosis.
- Published
- 2010
40. Boron increases the transition temperature and enhances thermal stability of heme proteins
- Author
-
Deeba S. Jairajpuri, Amena Mahmood, Shakir Ali, Humaira Farooqui, and Faizan Ahmad
- Subjects
inorganic chemicals ,Hemeprotein ,biology ,Chemistry ,Cytochrome c ,Transition temperature ,Inorganic chemistry ,chemistry.chemical_element ,Condensed Matter Physics ,BORO ,Metmyoglobin ,biology.protein ,Denaturation (biochemistry) ,Thermal stability ,Physical and Theoretical Chemistry ,Boron - Abstract
Transition temperature and thermal stability of proteins were studied in the presence and absence of boron. The observed midpoint of thermal denaturation (T m) of cytochrome c (Cyt c) at pH 9.2 was 68.8 °C, which in the presence of boron increased to 71.0 °C. For metmyoglobin, T m increased from 79.7 °C in the absence of boron to 83.5 °C in the presence of boron. Boron caused an increase of 10% in the reversibility of thermal denaturation of cytochrome c when compared with control. Activity measurements of the heat treated proteins and T m suggest an increased thermal stability toward inactivation and denaturation of heme proteins in the presence of boron.
- Published
- 2010
41. Hemodynamic Forces-Induced Biochemical Changes in Aortic wall: Effect on Redox State of the Tissue
- Author
-
Alok R. Ray, Shakir Ali, and Husain Syed Yawer
- Subjects
Microbiology (medical) ,chemistry.chemical_classification ,medicine.medical_specialty ,Antioxidant ,biology ,Glutathione peroxidase ,medicine.medical_treatment ,Immunology ,Glutathione reductase ,Hydrostatic pressure ,Glutathione ,medicine.disease_cause ,Lipid peroxidation ,Superoxide dismutase ,chemistry.chemical_compound ,Endocrinology ,chemistry ,Biochemistry ,Internal medicine ,medicine ,biology.protein ,Immunology and Allergy ,Oxidative stress - Abstract
Shear stress and hydrostatic pressure-induced stretch are known to enhance the production of free radicals, causing oxidative stress in the vascular wall and have been implicated in endothelial inflammation and vascular lesions. Production of antioxidant enzymes such as superoxide dismutase, glutathione peroxidase, and catalase probably constitute a key factor in maintaining the redox state of arterial wall in response to hemodynamic forces. In the present study, redox state of arterial wall at constant pulsatile/laminar shear and varying hydrostatic pressure (70 and 150 cm water) was evaluated. The aim was to study the pressure, in combination with different flow patterns (laminar/pulsatile shear stress), induced oxidative stress which presumably cause arterial wall inflammation leading to vascular legions. The level of reduced glutathione (GSH), lipid peroxidation (LPO) and enzymes known to contribute to the redox status of the cell/tissue, have been measured. Present study quantitatively evaluates the hemodynamic forces induced vascular oxidative stress. We individually assessed the activity of Superoxide Dismutase (SOD), catalase, glutathione peroxidase (GPx), xanthine oxidase (XO), and glutathione-s-transferase (GST) under hemodynamic stress. Secondary antioxidant enzymes like glucose-6-phosphate dehydrogenase (G6PD) and glutathione reductase (GR) were also measured. The increased oxidative stress under pulsatile shear stress and high hydrostatic pressure potentially suggests that vascular inflammation is the key to understand initiation of vascular lesions. Higher concentrations of SOD in arterial wall ought to be considered since this explains arterial wall antioxidant defense in vascular pathologies, which potentially involve oxidative stress. In conclusion, pulsatile shear stress in combination with hydrostatic pressure is a weak inducer of antioxidant defense in blood vessels, hence, considered to be atherogenic. The finding is relevant to both the normal and pathophysiologically relevant hemodynamically stress rabbit thoracic aorta.
- Published
- 2010
42. Antibacterial and Anti-inflammatory Potential Bergenia ligulata
- Author
-
Tasleem Ahmad, Hamdard Nagar, G N Bader, Afzal Zargar, Tehseen Sajad, Mohammad Naime, M Afzal Zargar, and Shakir Ali
- Subjects
Microbiology (medical) ,biology ,medicine.drug_class ,Immunology ,Glutathione ,Pharmacology ,biology.organism_classification ,Anti-inflammatory ,Superoxide dismutase ,Lipid peroxidation ,chemistry.chemical_compound ,Biochemistry ,chemistry ,biology.protein ,medicine ,Immunology and Allergy ,Bergenia ligulata ,Antibacterial activity ,Xanthine oxidase ,Antibacterial agent - Abstract
Bergenia ligulata Wall., family Saxifragaceae, is an Indian folk medicine used for a variety of pharmacological effects. In this study, evidence is provided in animal model to demonstrate the role of aqueous as well as 50% ethanolic extract of B. ligulata in inflammation and as antibacterial agent. Oral administration of the extract at a dose level of 1 gm/kg bw showed anti-inflammatory and free radical scavenging activity as evaluated using pharmacological and biochemical parameters. The effect was studied on biochemical parameters reportedly perturbed in inflammation. While the extract treatment could alleviate the level of succinate dehydrogenase and xanthine oxidase, which increase in inflammation, the level of superoxide dismutase increased following the treatment with the extract as well as the diclofenac. Role of oxygen free radicals/peroxides was evaluated by measuring lipid peroxidation and glutathione. Treatment with the extract could significantly decrease the enhanced level of lipid peroxidation in inflammation, and increased the level of glutathione. Further, the antibacterial activity of various fractions was tested in vitro using cultures of Escherichia coli, Baccillus subtilis, and S. aureus, and the fractions were found to be antibacterial. The antifungal activity was also tested using the culture of Saccharomyces. However, the drug was ineffective in inhibiting fungal growth. Results provide evidence suggesting the anti-inflammatory as well as the antibacterial role of B. ligulata, thus implicating the plant extract in treatment against the bacterial infection and inflammation.
- Published
- 2010
43. Hemodynamic Forces Induce the Release of Nitric Oxide from Aortic Endothelium: Combined Effect of Shear Stress and Pressure
- Author
-
Husain S. Yawer, Sadik R. Panwar, Shakir Ali, Nidhi Priya, and Alok R Rays
- Subjects
chemistry.chemical_compound ,medicine.medical_specialty ,chemistry ,Internal medicine ,Aortic endothelium ,Shear stress ,medicine ,Cardiology ,Ocean Engineering ,Hemodynamic forces ,Nitric oxide - Published
- 2018
44. Pressure-induced covalent immobilization of enzymes onto solid surface
- Author
-
Pradip Nahar, Dileep Kumar Kannoujia, and Shakir Ali
- Subjects
Environmental Engineering ,Chromatography ,biology ,Immobilized enzyme ,Biomedical Engineering ,Bioengineering ,Absorbance ,chemistry.chemical_compound ,Microtiter plate ,Invertase ,chemistry ,Covalent bond ,biology.protein ,Glucose oxidase ,Polystyrene ,Biosensor ,Biotechnology - Abstract
Here in, we demonstrate a rapid method for covalent immobilization of enzymes onto activated polystyrene microtiter plate by application of pressure. Thus, when HRP, taken in an activated well of a polystyrene microtiter plate, is subjected to an optimum pressure of 2.0 × 10 5 Pa for an optimum time of 25 min in a closed chamber, it shows more than 5-fold increase in absorbance value compared to control experiment carried out without applying pressure. Pressure-induced immobilized HRP shows better thermal and storage stability with respect to free enzyme. Reusability study shows that immobilized enzyme retained almost full activity after three successive uses; however activity falls to half after ten cycles of repeated use. The Michaelis–Menten constant ( K m) and maximum reaction velocity ( V max) for pressure-induced immobilized HRP are found to be 55.3 μM and 0.957 mM/min, respectively, whereas for free enzyme the corresponding values are 34.7 μM and 1.089 mM/min. The method is found to be equally effective for immobilization of other enzymes including glucose oxidase, alkaline phosphatase and invertase. As no thermal incubation is required, pressure-induced immobilization could be used for immobilization of heat sensitive biomolecules useful for preparation of biosensors, biochips and protein-microarrays.
- Published
- 2009
45. Attenuation by boron supplementation of the biochemical changes associated with thioacetamide-induced hepatic lesions
- Author
-
Mfmf Siddiqui, Shakir Ali, G Diwakar, Swatantra Kumar Jain, Sonica Pawa, and M. Abdulla
- Subjects
inorganic chemicals ,Liver injury ,medicine.medical_treatment ,Lethal dose ,Intraperitoneal injection ,chemistry.chemical_element ,Pharmacology ,medicine.disease ,Biochemistry ,Pathogenesis ,Lipid peroxidation ,chemistry.chemical_compound ,chemistry ,medicine ,Alkaline phosphatase ,Thioacetamide ,Boron - Abstract
Acute hepatic failure is a severe complication induced by certain chemicals, drugs, or virus. Thioacetamide generally has been used for the study of hepatic failure in experimental animal model. The present study was aimed at to examine the role of boron in the pathogenesis of acute hepatic failure in rats. A single intraperitoneal injection of thioacetamide produced severe liver injury, as manifested by elevation in serum aminotransferases, alkaline phosphatase, and hepatic lipid peroxidation. Boron, when administered in the form of boric acid for three consecutive days followed by thioace-tamide, attenuated thioacetamide-mediated changes in the level of these biochemical parameters in a dose-dependent manner. The effect of boron supplementation on the survival rates of rats treated with a lethal dose of thioacetamide was also determined and found to lower the mortality rates in the group of animals supplemented with boron followed by thioacetmide. The effects on biochemical parameters and the survival rates were dependent on the dose of boron administered as boric acid. It is concluded that boron provides protection against the thioacetamide-induced acute hepatic failure in rats in a dose-dependent manner. J. Trace Elem. Exp. Med. 15: 47–55, 2002. © 2002 Wiley-Liss, Inc.
- Published
- 2002
46. Orally administered lycopene attenuates diethylnitrosamine-induced hepatocarcinogenesis in rats by modulating Nrf-2/HO-1 and Akt/mTOR pathways
- Author
-
Osman Güler, Shakir Ali, Necip Ilhan, Cemal Orhan, Kazim Sahin, Nurhan Sahin, Omer Kucuk, Ibrahim Halil Bahcecioglu, Ibrahim Hanifi Ozercan, and Mehmet Tuzcu
- Subjects
Male ,Cancer Research ,Bilirubin ,NF-E2-Related Factor 2 ,medicine.medical_treatment ,Intraperitoneal injection ,Medicine (miscellaneous) ,Administration, Oral ,Pharmacology ,Antioxidants ,Superoxide dismutase ,chemistry.chemical_compound ,Lycopene ,Malondialdehyde ,medicine ,Animals ,Diethylnitrosamine ,Aspartate Aminotransferases ,Rats, Wistar ,chemistry.chemical_classification ,Glutathione Peroxidase ,Nutrition and Dietetics ,biology ,Superoxide Dismutase ,Glutathione peroxidase ,TOR Serine-Threonine Kinases ,Liver Neoplasms ,NF-kappa B ,Alanine Transaminase ,Glutathione ,Catalase ,Carotenoids ,Rats ,Oncology ,Biochemistry ,chemistry ,Alanine transaminase ,Cyclooxygenase 2 ,Heme Oxygenase (Decyclizing) ,biology.protein ,Proto-Oncogene Proteins c-akt ,Signal Transduction - Abstract
Hepatocarcinogenesis is one of the most prevalent and lethal cancers. We studied the mechanisms underlying the inhibition of diethylnitrosamine (DEN)-induced hepatocarcinogenesis by lycopene in rats. Hepatocarcinogenesis was induced by an intraperitoneal injection of DEN followed by promotion with phenobarbital for 24 successive wk. The rats were given lycopene (20 mg/kg body weight) 3 times a week orally for 4 wk prior to initiation, and the treatment was continued for 24 consecutive wk. Lycopene reduced incidence, number, size, and volume of hepatic nodules. Serum alanine transaminase, aspartate aminotransferase, total bilirubin, and malondialdehyde (MDA) considerably increased and hepatic antioxidant enzymes (catalase, superoxide dismutase, glutathione peroxidase) and glutathione decreased in DEN-treated rats when compared with the control group. Lycopene significantly reversed these biochemical changes and increased the expression of NF-E-2-related factor-2)/heme oxygenase-1, and it decreased NF-κB/cyclooxygenase-2, inhibiting the inflammatory cascade and activating antioxidant signaling (P0.05). Lycopene also decreased DEN-induced increases in phosphorylated mammalian target of rapamycin (p-mTOR), phosphorylated p70 ribosomal protein S6 kinase 1, phosphorylated 4E-binding protein 1, and protein kinase B (P0.05). Lycopene is an active chemopreventive agent that offers protection against DEN-induced hepatocarcinogenesis by inhibiting NF-κB and mTOR pathways.
- Published
- 2014
47. Analysis of antibody response (IgM, IgG, IgG3) to Chikungunya virus using panel of peptides derived from envelope protein for serodiagnosis
- Author
-
Manoranjan Parida, Santwana Bhatnagar, D.N. Rao, S.L. Hoti, Shakir Ali, Pradeep Kumar, Vinita Chattree, and Priyanka Verma
- Subjects
Molecular Sequence Data ,Clinical Biochemistry ,Enzyme-Linked Immunosorbent Assay ,Peptide ,Biology ,Antibodies, Viral ,medicine.disease_cause ,Subclass ,Virus ,Epitope ,Viral Envelope Proteins ,Antigen ,medicine ,Humans ,Amino Acid Sequence ,Chikungunya ,chemistry.chemical_classification ,Alphavirus Infections ,Biochemistry (medical) ,virus diseases ,General Medicine ,Virology ,Protein Structure, Tertiary ,Immunoglobulin Isotypes ,Antibody response ,Immunoglobulin M ,ROC Curve ,chemistry ,Immunoglobulin G ,Chikungunya Fever ,Peptides ,Early phase ,Chikungunya virus - Abstract
Many epidemic outbreaks of Chikungunya fever (CHIKF) have been reported throughout the world including India after its reemergence in 2005. The immuno protective role of envelope proteins during Chikungunya virus (CHIKV) infection has been reported. With the aim of identifying the immunodominant epitopes within the envelope protein we investigated the detailed analysis of fine specificity of antibody response in different individuals during CHIKV infection.The peptides corresponding to the full length of E1, E2 and E3 proteins of S27 strain of CHIKV were synthesized and their seroreactivity with CHIKV positive patients’ sera collected from different epidemic regions of India was determined using indirect ELISA.The data analysis reveals many potent epitopes throughout the length of envelope E2 protein thus displaying it as the most promising antigen for diagnostic purpose. We found that the main IgG isotype response to envelope protein was predominantly of subclass IgG3. Interestingly, most of the epitopes were found to be conserved for detecting IgM, IgG and IgG3 antibody response.Peptides E2P3, E2P7, E2P16 and E2P17 were revealed as the most immunodominant peptides that together can form the basis for designing an accurate, economical and easy to synthesize a peptide-based immunodiagnostic for CHIKV. This study provides new and important insight into the humoral response generated by CHIKV S27 strain during the early phase of infection.
- Published
- 2014
48. Nardostachys jatamansi protects against liver damage induced by thioacetamide in rats
- Author
-
Shakir Ali, G Diwakar, Khursheed Ahmad Ansari, H Kabeer, and M.A Jafry
- Subjects
Male ,India ,Thioacetamide ,Pharmacognosy ,law.invention ,chemistry.chemical_compound ,Oral administration ,law ,Drug Discovery ,Animals ,Medicine ,Rats, Wistar ,Pharmacology ,Plants, Medicinal ,biology ,Traditional medicine ,Plant Extracts ,business.industry ,Nardostachys jatamansi ,biology.organism_classification ,Rats ,Liver ,Hepatoprotection ,chemistry ,Toxicity ,Alkaline phosphatase ,business ,Phytotherapy - Abstract
Nardostachys jatamansi is a medically important herb of Indian origin used for centuries in Ayurvedic and Unani systems of medicine for the treatment of various ailments. In the present paper, a 50% ethanolic extract of the rhizomes of N. jatamansi is shown to possess hepatoprotective activity. Pretreatment of rats with the extract (800 mg/kg body wt, orally) for three consecutive days significantly ameliorated the liver damage in rats exposed to the hepatotoxic compound thioacetamide. Elevated levels of serum transaminases (aminotransferases) and alkaline phosphatase, observed in thioacetamide alone treated group of animals, were significantly lowered in N. jatamansi pretreated rats. Pretreatment of the animals with the extract also resulted in an increase in survival in rats intoxicated with LD90 dose of the hepatotoxic drug.
- Published
- 2000
49. Effect of lower doses of vanadate in combination with Azadirachta indica leaf extract on hepatic and renal antioxidant enzymes in streptozotocin-induced diabetic rats
- Author
-
Shakir Ali, Jaya Upreti, and Seemi Farhat Basir
- Subjects
Male ,Antioxidant ,Endocrinology, Diabetes and Metabolism ,medicine.medical_treatment ,Clinical Biochemistry ,Glutathione reductase ,Pharmacology ,Kidney ,Biochemistry ,Antioxidants ,Diabetes Mellitus, Experimental ,Inorganic Chemistry ,Superoxide dismutase ,medicine ,Animals ,Hypoglycemic Agents ,Vanadate ,Rats, Wistar ,chemistry.chemical_classification ,Azadirachta ,biology ,Dose-Response Relationship, Drug ,Chemistry ,Plant Extracts ,Glutathione peroxidase ,Insulin ,Biochemistry (medical) ,food and beverages ,General Medicine ,biology.organism_classification ,Streptozotocin ,Rats ,Plant Leaves ,Liver ,biology.protein ,Vanadates ,Oxidoreductases ,medicine.drug - Abstract
The present study was undertaken to investigate short-term (21 days) effects of oral administration of Azadirachta indica leaf extract and vanadate, separately and in combination, on the activities of antioxidant enzymes in streptozotocin-induced diabetic rats. Vanadate is a remarkable antidiabetic agent and shows insulin mimetic effect. However, severe toxicity is associated with vanadate when used in high concentration while at lower concentration the hypoglycemic property of vanadate is reduced. So, we used a low dose of vanadate in combination with A. indica leaf extract and evaluated their effect on the antioxidant defense system. Streptozotocin-diabetic rats were treated separately with insulin, vanadate (0.6 mg/ml), A. indica, and with combined dose of vanadate (0.2 mg/ml) and A. indica. At the end of the experiment, rats were sacrificed and serum glucose levels and activities of superoxide dismutase, catalase, glutathione peroxidase, and glutathione reductase were determined in cytosolic fraction of liver and kidney. Diabetic rats showed hyperglycemic condition and alteration in antioxidant enzyme activities. Treatment with antidiabetic compounds resulted in the reduction of glucose levels and restoration of enzyme activities to normal. Results showed that combined treatment of vanadate and A. indica leaf extract was the most effective in normalizing altered antioxidant enzyme system.
- Published
- 2013
50. Paraquat induced DNA damage by reactive oxygen species
- Author
-
M. Abdulla, Mohammad Athar, Swatantra Kumar Jain, and Shakir Ali
- Subjects
Paraquat ,chemistry.chemical_classification ,Reactive oxygen species ,Oxidase test ,biology ,DNA damage ,Clinical Biochemistry ,Cell Biology ,Biochemistry ,Molecular biology ,Oxygen ,Endonuclease ,Restriction site ,chemistry.chemical_compound ,chemistry ,Genetics ,biology.protein ,Microsome ,Reactive Oxygen Species ,Molecular Biology ,DNA ,DNA Damage - Abstract
The redox cycling contact herbicide paraquat (PQ) causes oxidative damage to pulmonary tissue. PQ is reduced enzymatically to PQ radical in lung where it reacts with molecular oxygen, generating reactive oxygen species (ROS). ROS damage various macromolecules including DNA. However, the ability of paraquat to mediate DNA damage is unknown. In this study, Bam H1 site (5'-GGATCC-3') on pBR322 DNA was chosen as the target sequence for a study of the PQ-mediated DNA damage. The incubation of PQ with plasmid DNA in the presence of freshly prepared rat lung microsomes and NADPH resulted in damage to the restriction site. The PQ-treated DNA was not digested with the endonuclease reflected by the digestion pattern of DNA on agarose gels. The effect was dependent on the dose of PQ. The PQ-mediated damage to DNA was comparable to DNA damage caused by ROS generated through the xanthine-xanthine oxidase system. The results of the present study suggest that ROS generated by PQ in vitro under aerobic conditions may lead to a modification of the restriction site on DNA.
- Published
- 1996
Catalog
Discovery Service for Jio Institute Digital Library
For full access to our library's resources, please sign in.