84 results on '"Vyas VK"'
Search Results
2. Homology modeling a fast tool for drug discovery: Current perspectives
- Author
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Vyas, VK, primary, Ukawala, RD, additional, Chintha, C, additional, and Ghate, M, additional
- Published
- 2012
- Full Text
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3. CRISPR system opens window to C. albicans pathology.
- Author
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Vyas, VK
- Published
- 2015
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4. A review on synthetic inhibitors of dual-specific tyrosine phosphorylation-regulated kinase 1A (DYRK1A) for the treatment of Alzheimer's disease (AD).
- Author
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Gehlot P, Pathak R, Kumar S, Choudhary NK, and Vyas VK
- Subjects
- Humans, Animals, Structure-Activity Relationship, Molecular Structure, Phosphorylation drug effects, Alzheimer Disease drug therapy, Alzheimer Disease metabolism, Dyrk Kinases, Protein-Tyrosine Kinases antagonists & inhibitors, Protein-Tyrosine Kinases metabolism, Protein Serine-Threonine Kinases antagonists & inhibitors, Protein Serine-Threonine Kinases metabolism, Protein Kinase Inhibitors pharmacology, Protein Kinase Inhibitors chemistry, Protein Kinase Inhibitors chemical synthesis
- Abstract
Alzheimer's disease (AD) is a complex disorder that is influenced by a number of variables, such as age, gender, environmental factors, disease, lifestyle, infections, and many more. The main characteristic of AD is the formation of amyloid plaque and neurofibrillary tangles (NFT), which are caused by various reasons such as inflammation, impairment of neurotransmitters, hyperphosphorylation of tau protein, generation of toxic amyloid beta (Aβ) 40/42, oxidative stress, etc. Protein kinases located in chromosome 21, namely dual-specific tyrosine phosphorylation-regulated kinase 1A (DYRK1A), play an essential role in the pathogenesis of AD. DYRK1A stimulates the Aβ peptide aggregation and phosphorylation of tau protein to generate the NFT formation that causes neurodegeneration. Thus, DYRK1A is associated with AD, and inhibition of DYRK1A has the potential to treat AD. In this review, we discussed the pathophysiology of AD, various factors responsible for AD, and the role of DYRK1A in AD. We have also discussed the latest therapeutic potential of DYRK1A inhibitors for neurogenerative disease, along with their structure-activity relationship (SAR) studies. This article provides valuable information for guiding the future discovery of novel and target-specific DYRK1A inhibitors over other kinases and their structural optimization to treat AD., Competing Interests: Declaration of competing interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper., (Copyright © 2024 Elsevier Ltd. All rights reserved.)
- Published
- 2024
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5. A comprehensive review of synthetic strategies and SAR studies for the discovery of PfDHODH inhibitors as antimalarial agents. Part 2: Non-DSM compounds.
- Author
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Sharma M, Lolli ML, and Vyas VK
- Abstract
Malaria remains a severe global health concern, with 249 million cases reported in 2022, according to the World Health Organization (WHO) [1]. PfDHODH is an essential enzyme in malaria parasites that helps to synthesize certain building blocks for their growth and development. It has been confirmed that targeting Plasmodium falciparum dihydroorotate dehydrogenase (PfDHODH) enzyme could lead to new and effective antimalarial drugs. Inhibitors of PfDHODH have shown potential for slowing down parasite growth during both the blood and liver stages. Over the last two decades, many species selective PfDHODH inhibitors have been designed, including DSM compounds and other non-DSM compounds. In the first chapter [2] of this review, we have reviewed all synthetic schemes and structure-activity relationship (SAR) studies of DSM compounds. In this second chapter, we have compiled all the other non-DSM PfDHODH inhibitors based on dihydrothiophenones, thiazoles, hydroxyazoles, and N-alkyl-thiophene-2-carboxamides. The review not only offers an insightful overview of the synthetic methods employed but also explores into alternative routes and innovative strategies involving different catalysts and chemical reagents. A critical aspect covered in the review is the SAR studies, which provide a comprehensive understanding of how structural modifications impact the efficacy of PfDHODH inhibitors and challenges related to the discovery of PfDHODH inhibitors. This information is invaluable for scientists engaged in the development of new antimalarial drugs, offering insights into the most promising scaffolds and their synthetic techniques., Competing Interests: Declaration of competing interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper., (Copyright © 2024 Elsevier Inc. All rights reserved.)
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- 2024
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6. Neuroprotective effect of taxifolin against aluminum chloride-induced dementia and pathological alterations in the brain of rats: possible involvement of toll-like receptor 4.
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Saxena B, Parmar P, Chauhan H, Singh P, Datusalia AK, Vyas VK, Tripathi N, and Shah J
- Subjects
- Animals, Humans, Male, Rats, Cell Line, Tumor, Dementia chemically induced, Dementia drug therapy, Dementia prevention & control, Dementia pathology, Dose-Response Relationship, Drug, Molecular Docking Simulation, Oxidative Stress drug effects, Rats, Wistar, Aluminum Chloride toxicity, Brain drug effects, Brain pathology, Brain metabolism, Neuroprotective Agents pharmacology, Neuroprotective Agents therapeutic use, Quercetin analogs & derivatives, Quercetin pharmacology, Quercetin therapeutic use, Toll-Like Receptor 4 metabolism
- Abstract
Aluminum (Al) overexposure damages various organ systems, especially the nervous system. Regularly administered aluminum chloride (AlCl
3 ) to rats causes dementia and pathophysiological alterations linked to Alzheimer's disease (AD). Taxifolin's neuroprotective effects against AlCl3 -induced neurotoxicity in vitro and in vivo studies were studied. Taxifolin (0.1, 0.3, 1, 3, and 10 μM) was tested against AlCl3 (5 mM)-induced neurotoxicity in C6 and SH-SY5Y cells using 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyl tetrazolium bromide (MTT) and lactate dehydrogenase (LDH) assays. Additionally, neural morphology was examined by confocal microscopy. Additionally, taxifolin's mode of binding with the co-receptor of toll-like receptor 4 (TLR4), human myeloid differentiation-2 ( h MD-2) was investigated. AlCl3 (25 mg/kg/d, i.p. ) was administered to rats for 14 d, and from the eighth day, taxifolin (1, 2, and 5 mg/kg/d, i.p. ) was given along with AlCl3 . This study assessed memory impairment using the Morris water maze, plus maze, and pole tests. This study also performed measurement of oxidant (malondialdehyde [MDA] and nitrite), antioxidant (reduced glutathione), and inflammatory (myeloperoxidase [MPO] activity, TLR4 expression) parameters in rats' brain in addition to histopathology. The docking score for taxifolin with h MD-2 was found to be -4.38 kcal/mol. Taxifolin treatment reduced the neurotoxicity brought on by AlCl3 in both C6 and SH-SY5Y cells. Treatment with 10 μM taxifolin restored AlCl3 -induced altered cell morphology. AlCl3 administration caused memory loss, oxidative stress, inflammation (increased MPO activity and TLR4 expression), and brain atrophy. Taxifolin treatment significantly improved the AlCl3 -induced memory impairment. Taxifolin treatment also mitigated the histopathological and neurochemical consequences of repeated AlCl3 administration in rats. Thus, taxifolin may protect the brain against AD.- Published
- 2024
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7. A comprehensive review of synthetic strategies and SAR studies for the discovery of PfDHODH inhibitors as antimalarial agents. Part 1: triazolopyrimidine, isoxazolopyrimidine and pyrrole-based (DSM) compounds.
- Author
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Sharma M, Pandey V, Poli G, Tuccinardi T, Lolli ML, and Vyas VK
- Subjects
- Plasmodium falciparum, Pyrroles pharmacology, Dihydroorotate Dehydrogenase, Enzyme Inhibitors pharmacology, Enzyme Inhibitors chemistry, Antimalarials chemistry, Oxidoreductases Acting on CH-CH Group Donors chemistry
- Abstract
One of the deadliest infectious diseases, malaria, still has a significant impact on global morbidity and mortality. Plasmodium falciparum dihydroorotate dehydrogenase (PfDHODH) catalyzes the fourth step in de novo pyrimidine nucleotide biosynthesis and has been clinically validated as an innovative and promising target for the development of novel targeted antimalarial drugs. PfDHODH inhibitors have the potential to significantly slow down parasite growth at the blood and liver stages. Several PfDHODH inhibitors based on various scaffolds have been explored over the past two decades. Among them, triazolopyrimidines, isoxazolopyrimidines, and pyrrole-based derivatives known as DSM compounds showed tremendous potential as novel antimalarial agents, and one of the triazolopyrimidine-based compounds (DSM265) was able to reach phase IIa clinical trials. DSM compounds were synthesized as PfDHODH inhibitors with various substitutions based on structure-guided medicinal chemistry approaches and further optimised as well. For the first time, this review provides an overview of all the synthetic approaches used for the synthesis, alternative synthetic routes, and novel strategies involving various catalysts and chemical reagents that have been used to synthesize DSM compounds. We have also summarized SAR study of all these PfDHODH inhibitors. In an attempt to assist readers, scientists, and researchers involved in the development of new PfDHODH inhibitors as antimalarials, this review provides accessibility of all synthetic techniques and SAR studies of the most promising triazolopyrimidines, isoxazolopyrimidines, and pyrrole-based PfDHODH inhibitors., Competing Interests: Declaration of competing interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper., (Copyright © 2024 Elsevier Inc. All rights reserved.)
- Published
- 2024
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8. Squeezing formaldehyde into C 60 fullerene.
- Author
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Vyas VK, Bacanu GR, Soundararajan M, Marsden ES, Jafari T, Shugai A, Light ME, Nagel U, Rõõm T, Levitt MH, and Whitby RJ
- Abstract
The cavity inside fullerene C
60 provides a highly symmetric and inert environment for housing atoms and small molecules. Here we report the encapsulation of formaldehyde inside C60 by molecular surgery, yielding the supermolecular complex CH2 O@C60 , despite the 4.4 Å van der Waals length of CH2 O exceeding the 3.7 Å internal diameter of C60 . The presence of CH2 O significantly reduces the cage HOMO-LUMO gap. Nuclear spin-spin couplings are observed between the fullerene host and the formaldehyde guest. The rapid spin-lattice relaxation of the formaldehyde13 C nuclei is attributed to a dominant spin-rotation mechanism. Despite being squeezed so tightly, the encapsulated formaldehyde molecules rotate freely about their long axes even at cryogenic temperatures, allowing observation of the ortho-to-para spin isomer conversion by infrared spectroscopy. The particle in a box nature of the system is demonstrated by the observation of two quantised translational modes in the cryogenic THz spectra., (© 2024. The Author(s).)- Published
- 2024
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9. A Patent Review of Human Dihydroorotate Dehydrogenase (hDHODH) Inhibitors as Anticancer Agents and their Other Therapeutic Applications (1999-2022).
- Author
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Gehlot P and Vyas VK
- Subjects
- Humans, Dihydroorotate Dehydrogenase, Patents as Topic, Enzyme Inhibitors pharmacology, Enzyme Inhibitors therapeutic use, Pyrimidines therapeutic use, Oxidoreductases Acting on CH-CH Group Donors, Antineoplastic Agents pharmacology, Antineoplastic Agents therapeutic use, Neoplasms drug therapy
- Abstract
Highly proliferating cells, such as cancer cells, are in high demand of pyrimidine nucleotides for their proliferation, accomplished by de novo pyrimidine biosynthesis. The human dihydroorotate dehydrogenase (hDHODH) enzyme plays a vital role in the rate-limiting step of de novo pyrimidine biosynthesis. As a recognised therapeutic target, hDHODH plays a significant role in cancer and other illness. In the past two decades, small molecules as inhibitors hDHODH enzyme have drawn much attention as anticancer agents, and their role in rheumatoid arthritis (RA), and multiple sclerosis (MS). In this patent review, we have compiled patented hDHODH inhibitors published between 1999 and 2022 and discussed the development of hDHODH inhibitors as anticancer agents. Therapeutic potential of small molecules as hDHODH inhibitors for the treatment of various diseases, such as cancer, is very well recognised. Human DHODH inhibitors can rapidly cause intracellular uridine monophosphate (UMP) depletion to produce starvation of pyrimidine bases. Normal cells can better endure a brief period of starvation without the side effects of conventional cytotoxic medication and resume synthesis of nucleic acid and other cellular functions after inhibition of de novo pathway using an alternative salvage pathway. Highly proliferative cells such as cancer cells do not endure starvation because they are in high demand of nucleotides for cell differentiation, which is fulfilled by de novo pyrimidine biosynthesis. In addition, hDHODH inhibitors produce their desired activity at lower doses rather than a cytotoxic dose of other anticancer agents. Thus, inhibition of de novo pyrimidine biosynthesis will create new prospects for the development of novel targeted anticancer agents, which ongoing preclinical and clinical experiments define. Our work brings together a comprehensive patent review of the role of hDHODH in cancer, as well as various patents related to the hDHODH inhibitors and their anticancer and other therapeutic potential. This compiled work on patented DHODH inhibitors will guide researchers in pursuing the most promising drug discovery strategies against the hDHODH enzyme as anticancer agents., (Copyright© Bentham Science Publishers; For any queries, please email at epub@benthamscience.net.)
- Published
- 2024
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10. Recent Advances in Therapeutic Approaches Against Ebola Virus Infection.
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Soni M, Tulsian K, Barot P, and Vyas VK
- Subjects
- Humans, Ebola Vaccines therapeutic use, Ebola Vaccines immunology, Animals, Africa, Western epidemiology, Hemorrhagic Fever, Ebola drug therapy, Hemorrhagic Fever, Ebola therapy, Hemorrhagic Fever, Ebola prevention & control, Hemorrhagic Fever, Ebola virology, Ebolavirus drug effects, Ebolavirus pathogenicity, Antiviral Agents therapeutic use, Antiviral Agents pharmacology
- Abstract
Background: Ebola virus (EBOV) is a genus of negative-strand RNA viruses belonging to the family Filoviradae that was first described in 1976 in the present-day Democratic Republic of the Congo. It has intermittently affected substantial human populations in West Africa and presents itself as a global health menace due to the high mortality rate of patients, high transmission rate, difficult patient management, and the emergence of complicated autoimmune disease-like conditions post-infection., Objective: EBOV or other EBOV-like species as a biochemical weapon pose a significant risk; hence, the need to develop both prophylactic and therapeutic medications to combat the virus is unquestionable., Methods: In this review work, we have compiled the literature pertaining to transmission, pathogenesis, immune response, and diagnosis of EBOV infection. We included detailed structural details of EBOV along with all the available therapeutics against EBOV disease. We have also highlighted current developments and recent advances in therapeutic approaches against Ebola virus disease (EVD)., Discussion: The development of preventive vaccines against the virus is proving to be a successful effort as of now; however, problems concerning logistics, product stability, multi- dosing, and patient tracking are prominent in West Africa. Monoclonal antibodies that target EBOV proteins have also been developed and approved in the clinic; however, no small drug molecules that target these viral proteins have cleared clinical trials. An understanding of clinically approved vaccines and their shortcomings also serves an important purpose for researchers in vaccine design in choosing the right vector, antigen, and particular physicochemical properties that are critical for the vaccine's success against the virus across the world., Conclusion: Our work brings together a comprehensive review of all available prophylactic and therapeutic medications developed and under development against the EBOV, which will serve as a guide for researchers in pursuing the most promising drug discovery strategies against the EBOV and also explore novel mechanisms of fighting against EBOV infection., (Copyright© Bentham Science Publishers; For any queries, please email at epub@benthamscience.net.)
- Published
- 2024
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11. Recent advances on patents of Plasmodium falciparum dihydroorotate dehydrogenase ( Pf DHODH) inhibitors as antimalarial agents.
- Author
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Gehlot P and Vyas VK
- Subjects
- Humans, Dihydroorotate Dehydrogenase, Plasmodium falciparum metabolism, Patents as Topic, Pyrimidines pharmacology, Enzyme Inhibitors pharmacology, Pyrimidine Nucleotides pharmacology, Antimalarials pharmacology, Antimalarials chemistry, Oxidoreductases Acting on CH-CH Group Donors chemistry, Oxidoreductases Acting on CH-CH Group Donors metabolism
- Abstract
Introduction: Pyrimidine nucleotides are essential for the parasite's growth and replication. Parasites have only a de novo pathway for the biosynthesis of pyrimidine nucleotides. Dihydroorotate dehydrogenase (DHODH) enzyme is involved in the rate-limiting step of the pyrimidine biosynthesis pathway. DHODH is a biochemical target for the discovery of new antimalarial agents., Area Covered: This review discussed the development of patented Pf DHODH inhibitors published between 2007 and 2023 along with their chemical structures and activities., Expert Opinion: Pf DHODH enzyme is involved in the rate-limiting fourth step of the pyrimidine biosynthesis pathway. Thus, inhibition of Pf DHODH using species-selective inhibitors has drawn much attention for treating malaria because they inhibit parasite growth without affecting normal human functions. Looking at the current scenario of antimalarial drug resistance with most of the available antimalarial drugs, there is a huge need for targeted newer agents. Newer agents with unique mechanisms of action may be devoid of drug toxicity, adverse effects, and the ability of parasites to quickly gain resistance, and Pf DHODH inhibitors can be those newer agents. Many Pf DHODH inhibitors were patented in the past, and the dependency of Plasmodium on de novo pyrimidine provided a new approach for the development of novel antimalarial agents.
- Published
- 2023
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12. Medicinal chemistry approaches for the discovery of Plasmodium falciparum dihydroorotate dehydrogenase inhibitors as antimalarial agents.
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Vyas VK, Shukla T, and Sharma M
- Abstract
Malaria is a severe human disease and a global health problem because of drug-resistant strains. Drugs reported to prevent the growth of Plasmodium parasites target various phases of the parasites' life cycle. Antimalarial drugs can inhibit key enzymes that are responsible for the cellular growth and development of parasites. Plasmodium falciparum dihydroorotate dehydrogenase is one such enzyme that is necessary for de novo pyrimidine biosynthesis. This review focuses on various medicinal chemistry approaches used for the discovery and identification of selective P. falciparum dihydroorotate dehydrogenase inhibitors as antimalarial agents. This comprehensive review discusses recent advances in the selective therapeutic activity of distinct chemical classes of compounds as P. falciparum dihydroorotate dehydrogenase inhibitors and antimalarial drugs.
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- 2023
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13. 3D-QSAR-based design, synthesis and biological evaluation of 2,4-disubstituted quinoline derivatives as antimalarial agents.
- Author
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Vyas VK, Bhati S, Sharma M, Gehlot P, Patel N, and Dalai S
- Subjects
- Models, Molecular, Quantitative Structure-Activity Relationship, Amides, Amines pharmacology, Antimalarials pharmacology, Quinolines pharmacology
- Abstract
2,4-Disubstituted quinoline derivatives were designed based on a 3D-QSAR study, synthesized and evaluated for antimalarial activity. A large dataset of 178 quinoline derivatives was used to perform a 3D-QSAR study using CoMFA and CoMSIA models. PLS analysis provided statistically validated results for CoMFA ( r
2 ncv = 0.969, q2 = 0.677, r2 cv = 0.682) and CoMSIA ( r2 ncv = 0.962, q2 = 0.741, r2 cv = 0.683) models. Two series of a total of 40 2,4-disubstituted quinoline derivatives were designed with amide (quinoline-4-carboxamide) and secondary amine (4-aminoquinoline) linkers at the -C4 position of the quinoline ring. For the purpose of selecting better compounds for synthesis with good pEC50 values, activity prediction was carried out using CoMFA and CoMSIA models. Finally, a total of 10 2,4-disubstituted quinoline derivatives were synthesized, and screened for their antimalarial activity based on the reduction of parasitaemia. Compound #5 with amide linker and compound #19 with secondary amine linkers at the -C4 position of the quinoline ring showed maximum reductions of 64% and 57%, respectively, in the level of parasitaemia. In vivo screening assay confirmed and validated the findings of the 3D-QSAR study for the design of quinoline derivatives.- Published
- 2023
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14. Structure-guided discovery of adenosine triphosphate-competitive casein kinase 2 inhibitors.
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Patel S, Vyas VK, Sharma M, and Ghate M
- Subjects
- Protein Serine-Threonine Kinases, Structure-Activity Relationship, Protein Kinase Inhibitors pharmacology, Protein Kinase Inhibitors chemistry, Casein Kinase II chemistry, Casein Kinase II metabolism, Adenosine Triphosphate metabolism
- Abstract
Casein kinase 2 (CK2) is a ubiquitous, highly pleiotropic serine-threonine kinase. CK2 has been identified as a potential drug target for the treatment of cancer and related disorders. Several adenosine triphosphate-competitive CK2 inhibitors have been identified and have progressed at different levels of clinical trials. This review presents details of CK2 protein, structural insights into adenosine triphosphate binding pocket, current clinical trial candidates and their analogues. Further, it includes the emerging structure-based drug design approaches, chemistry, structure-activity relationship and biological screening of potent and selective CK2 inhibitors. The authors tabulated the details of CK2 co-crystal structures because these co-crystal structures facilitated the structure-guided discovery of CK2 inhibitors. The narrow hinge pocket compared with related kinases provides useful insights into the discovery of CK2 inhibitors.
- Published
- 2023
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15. Design of 2-amino-6-methyl-pyrimidine benzoic acids as ATP competitive casein kinase-2 (CK2) inhibitors using structure- and fragment-based design, docking and molecular dynamic simulation studies.
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Patel S, Patel S, Tulsian K, Kumar P, Vyas VK, and Ghate M
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- Molecular Docking Simulation, Amino Acids, Quantitative Structure-Activity Relationship, Protein Kinase Inhibitors pharmacology, Pyrimidines chemistry, Benzoates, Adenosine Triphosphate, Protein Binding, Molecular Dynamics Simulation, Casein Kinase II chemistry, Casein Kinase II metabolism
- Abstract
Overexpression of casein kinase-2 (CK2) has been implicated in several carcinomas, mainly lung, prostate and acute myeloid leukaemia. The smaller nucleotide pocket compared to related kinases provides a great opportunity to discover newer ATP-competitive CK2 inhibitors. In this study, we have employed an integrated structure- and fragment-based design strategy to design 2-amino-6-methyl-pyrimidine benzoic acids as ATP-competitive CK2 inhibitors. A statistically significant four features-based E-pharmacophore (ARRR) model was used to screen 780,092 molecules. Further, the retrieved hits were considered for molecular docking study to identify essential binding interactions. At the same time, fragment-based virtual screening was performed using a dataset of 1,542,397 fragments. The identified hits and fragments were used as structure templates to rationalize the design of 2-amino-6-methyl-pyrimidine benzoic acids as newer CK2 inhibitors. Finally, the binding interactions of the designed hits were identified using an induced fit docking (IFD) study, and their stability was estimated by a molecular dynamics (MD) simulation study of 100 ns.
- Published
- 2023
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16. Integrated structure-guided computational design of novel substituted quinolizin-4-ones as Plasmodium falciparum dihydroorotate dehydrogenase (PfDHODH) inhibitors.
- Author
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Vyas VK, Shukla T, Tulsian K, Sharma M, and Patel S
- Subjects
- Dihydroorotate Dehydrogenase, Enzyme Inhibitors pharmacology, Computer Simulation, Plasmodium falciparum, Antimalarials pharmacology
- Abstract
Plasmodium falciparum dihydroorotate dehydrogenase (PfDHODH) is a known drug target for the development of antimalarial agents. Herein, we presented integrated structure-guided computational strategies for the design of novel quinolizin-4-ones as PfDHODH inhibitors. PROCHECK and ERRAT analysis were performed for the validation of co-crystal structures of PfDHODH enzyme bound to the inhibitors available on PDB. Based on the results, PDB ID: 6i55 was selected for further structure-guided in silico studies. Five featured-based pharmacophore model (AADRR) was generated, and validated using GH scoring (0.74) and ROC analysis (0.94). Validated structure-based model was further used as a 3D search query to screen the ZINC database. Retrieved database compounds ZINC00386658, ZINC08439293, and ZINC09089086 were found in agreement with query features based on their highest fitness scores. HTVS, SP and XP docking studies with these retrieved hits demonstrated important interactions (His185. Arg265) with PfDHODH. Mapping of features of the pharmacophore model on these retrieved hits along with the role played by scaffolds and functional groups in docking study helped in the selection of quinolizin-4-one as a main scaffold and different functional groups for the design of novel compounds as PfDHODH inhibitors. In silico ADMET prediction study suggested that designed quinolizin-4-ones are "drug-like" candidates and can be synthesised without too many difficulties. In docking study of newly designed compounds, 8d exhibited the highest docking score of - 12.78 kcal/mol and formed important polar interactions (His185. Arg265) with the PfDHODH. PfDHODH-8d complex showed stable RMSD between 2.5 Å and 3 Å during 100 ns MD simulation study. The RMSD, RMSF and RoG analysis of the PfDHODH-8d complex indicated the absolute stability of the complex. Overall, combined in silico study identified quinolizin-4-ones as selective PfDHODH inhibitors., Competing Interests: Declaration of Competing Interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper., (Copyright © 2022 Elsevier Ltd. All rights reserved.)
- Published
- 2022
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17. Effects of eugenol on the behavioral and pathological progression in the MPTP-induced Parkinson's disease mouse model.
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Vora U, Vyas VK, Wal P, and Saxena B
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- 1-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine pharmacology, Animals, Anti-Inflammatory Agents, Antioxidants pharmacology, Disease Models, Animal, Glutathione metabolism, Humans, Mice, Mice, Inbred C57BL, Toll-Like Receptor 4, Eugenol pharmacology, Eugenol therapeutic use, Neuroprotective Agents pharmacology, Parkinson Disease, Secondary drug therapy
- Abstract
Parkinson's disease (PD) is the world's second most common neurological disorder. Oxidative stress and neuroinflammation play a crucial role in the pathogenesis of PD. Eugenol is a phytochemical with potent antioxidant and anti-inflammatory activity. The present investigation is aimed to study the effect of eugenol in a 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine (MPTP) induced mouse model of PD and its relationship to antioxidant effect. The effects of seven days of oral pre-treatment and post-treatment with three doses of eugenol (25, 50 and 100 mg/kg/day) were investigated against the MPTP-induced PD mouse model. In addition to the assessment of behavioural parameters using various tests (actophotometer, beam walking test, catalepsy, rearing, rotarod), biochemical parameters including lipid peroxidation and reduced glutathione levels in brain tissues, were also estimated in this study. The binding mode of eugenol in the human myeloid differentiation factor-2 (hMD-2) was also studied. Results showed that MPTP administration in mice resulted in the development of motor dysfunction (impaired motor coordination and hypo locomotion) similar to that of PD in different behavioural studies. Pre-treatment with eugenol reversed motor dysfunction caused by MPTP administration while post-treatment with eugenol at a high dose aggravated the symptoms of akinesia associated with MPTP administration. MPTP resulted in increased lipid peroxidation while decreased reduced glutathione levels in the brains of mice. MPTP-induced increased lipid peroxidation and attenuated levels of reduced glutathione were found to be alleviated with eugenol pre-treatment while augmented with eugenol post-treatment. Eugenol showed a binding affinity of -6.897 kcal/mol against the MD2 coreceptor of toll-like receptor-4 (TLR4). Biochemical, as well as neurobehavioral studies, showed that eugenol is having a protective effect, but does not have a curative effect on PD.
- Published
- 2022
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18. Capillary electrophoresis methods for impurity profiling of drugs: A review of the past decade.
- Author
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Shah M, Patel N, Tripathi N, and Vyas VK
- Abstract
Capillary electrophoresis (CE) is widely used for the impurity profiling of drugs that contain stereochemical centers in their structures, analysis of biomolecules, and characterization of biopharmaceuticals. Currently, CE is the method of choice for the analysis of foodstuffs and the determination of adulterants. This article discusses the general theory and instrumentation of CE as well as the classification of various CE techniques. It also presents an overview of research on the applications of different CE techniques in the impurity profiling of drugs in the past decade. The review briefly presents a comparison between CE and liquid chromatography methods and highlights the strengths of CE using drug compounds as examples. This review will help scientists, fellow researchers, and students to understand the applications of CE techniques in the impurity profiling of drugs., Competing Interests: The authors declare that there are no conflicts of interests., (© 2021 Xi'an Jiaotong University. Production and hosting by Elsevier B.V.)
- Published
- 2022
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19. Structure- and ligand-based drug design methods for the modeling of antimalarial agents: a review of updates from 2012 onwards.
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Vyas VK, Bhati S, Patel S, and Ghate M
- Subjects
- Ligands, Molecular Docking Simulation, Quantitative Structure-Activity Relationship, Drug Design, Molecular Dynamics Simulation, Antimalarials chemistry
- Abstract
Malaria still persists as one of the deadliest infectious disease having a huge morbidity and mortality affecting the higher population of the world. Structure and ligand-based drug design methods like molecular docking and MD simulations, pharmacophore modeling, QSAR and virtual screening are widely used to perceive the accordant correlation between the antimalarial activity and property of the compounds to design novel dominant and discriminant molecules. These modeling methods will speed-up antimalarial drug discovery, selection of better drug candidates for synthesis and to achieve potent and safer drugs. In this work, we have extensively reviewed the literature pertaining to the use and applications of various ligand and structure-based computational methods for the design of antimalarial agents. Different classes of molecules are discussed along with their target interactions pattern, which is responsible for antimalarial activity. Communicated by Ramaswamy H. Sarma.
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- 2022
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20. Hybrid Quantum Mechanics/Molecular Mechanics (QM/MM) Simulation: A Tool for Structure-Based Drug Design and Discovery.
- Author
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Kulkarni PU, Shah H, and Vyas VK
- Subjects
- Drug Design, Ligands, Proteins chemistry, Molecular Dynamics Simulation, Quantum Theory
- Abstract
Quantum Mechanics (QM) is the physics-based theory that explains the physical properties of nature at the level of atoms and sub-atoms. Molecular mechanics (MM) construct molecular systems through the use of classical mechanics. So, when combined, hybrid quantum mechanics and molecular mechanics (QM/MM) can act as computer-based methods that can be used to calculate the structure and property data of molecular structures. Hybrid QM/MM combines the strengths of QM with accuracy and MM with speed. QM/MM simulation can also be applied for the study of chemical processes in solutions, as well as in the proteins, and has a great scope in structure-based drug design (SBDD) and discovery. Hybrid QM/MM can also be applied to HTS to derive QSAR models. Due to the availability of many protein crystal structures, it has a great role in computational chemistry, especially in structure- and fragment-based drug design. Fused QM/MM simulations have been developed as a widespread method to explore chemical reactions in condensed phases. In QM/MM simulations, the quantum chemistry theory is used to treat the space in which the chemical reactions occur; however, the rest is defined through the molecular mechanics force field (MMFF). In this review, we have extensively reviewed recent literature pertaining to the use and applications of hybrid QM/MM simulations for ligand and structure-based computational methods for the design and discovery of therapeutic agents., (Copyright© Bentham Science Publishers; For any queries, please email at epub@benthamscience.net.)
- Published
- 2022
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21. Asymmetric Transfer Hydrogenation of α-Keto Amides; Highly Enantioselective Formation of Malic Acid Diamides and α-Hydroxyamides.
- Author
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Gediya SK, Vyas VK, Clarkson GJ, and Wills M
- Abstract
The asymmetric transfer hydrogenation (ATH) of α-keto-1,4-diamides using a tethered Ru/TsDPEN catalyst was achieved in high ee. Studies on derivatives identified the structural elements which lead to the highest enantioselectivities in the products. The α-keto-amide reduction products have been converted to a range of synthetically valuable derivatives.
- Published
- 2021
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22. Discovery of novel tetrahydrobenzo[b]thiophene-3-carbonitriles as histone deacetylase inhibitors.
- Author
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Gediya P, Vyas VK, Carafa V, Sitwala N, Della Torre L, Poziello A, Kurohara T, Suzuki T, Sanna V, Raguraman V, Suthindhiran K, Ghosh D, Bhatia D, Altucci L, and Ghate MD
- Subjects
- Antineoplastic Agents chemical synthesis, Antineoplastic Agents chemistry, Apoptosis drug effects, Cell Cycle Checkpoints drug effects, Cell Line, Tumor, Cell Proliferation drug effects, Dose-Response Relationship, Drug, Drug Screening Assays, Antitumor, Histone Deacetylase Inhibitors chemical synthesis, Histone Deacetylase Inhibitors chemistry, Histone Deacetylases, Humans, Molecular Structure, Structure-Activity Relationship, Thiophenes chemical synthesis, Thiophenes chemistry, Antineoplastic Agents pharmacology, Drug Discovery, Histone Deacetylase Inhibitors pharmacology, Thiophenes pharmacology
- Abstract
The discovery and development of isoform-selective histone deacetylase (HDAC) inhibitor is a challenging task because of the sequence homology among HDAC enzymes. In the present work, novel tetrahydro benzo[b]thiophene-3-carbonitrile based benzamides were designed, synthesized, and evaluated as HDAC inhibitors. Pharmacophore modeling was our main design strategy, and two novel series of tetrahydro benzo[b]thiophene-3-carbonitrile derivatives with piperidine linker (series 1) and piperazine linker (series 2) were identified as HDAC inhibitors. Among all the synthesised compounds, 9h with 4-(aminomethyl) piperidine linker and 14n with piperazine linker demonstrated good activity against human HDAC1 and HDAC6, respectively. Both the compounds also exhibited good antiproliferative activity against several human cancer cell lines. Both these compounds (9h and 14n) also induced cell cycle arrest and apoptosis in U937 and MDA-MB-231 cancer cells. Overall, for the first time, this research discovered potent isoform-selective HDAC inhibitors using cyclic linker instead of the aliphatic chain and aromatic ring system, which were reported in known HDAC inhibitors., (Copyright © 2021 Elsevier Inc. All rights reserved.)
- Published
- 2021
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23. Enantioselective Synthesis of Bicyclopentane-Containing Alcohols via Asymmetric Transfer Hydrogenation.
- Author
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Vyas VK, Clarkson GJ, and Wills M
- Abstract
Compounds a containing bicyclo[1.1.1]pentane (BCP) adjacent to a chiral center can be prepared with high enantiomeric excess through asymmetric transfer hydrogenation (ATH) of adjacent ketones. In the reduction step, the BCP occupies the position distant from the η
6 -arene of the catalyst. The reduction was applied to the synthesis of a BCP analogue of the antihistamine drug neobenodine.- Published
- 2021
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24. Histone deacetylase 2: A potential therapeutic target for cancer and neurodegenerative disorders.
- Author
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Gediya P, Parikh PK, Vyas VK, and Ghate MD
- Subjects
- Cell Cycle Checkpoints drug effects, Drug Design, Histone Deacetylase 2 metabolism, Histone Deacetylase Inhibitors chemistry, Histone Deacetylase Inhibitors metabolism, Histone Deacetylase Inhibitors pharmacology, Humans, Isoenzymes antagonists & inhibitors, Isoenzymes metabolism, Neoplasms metabolism, Neoplasms pathology, Neurodegenerative Diseases pathology, Signal Transduction drug effects, Structure-Activity Relationship, Histone Deacetylase 2 antagonists & inhibitors, Histone Deacetylase Inhibitors therapeutic use, Neoplasms drug therapy, Neurodegenerative Diseases drug therapy
- Abstract
Histone deacetylases (HDACs) have been implicated in a number of diseases including cancer, cardiovascular disorders, diabetes mellitus, neurodegenerative disorders and inflammation. For the treatment of epigenetically altered diseases such as cancer, HDAC inhibitors have made a significant progress in terms of development of isoform selective inhibitiors. Isoform specific HDAC inhibitors have less adverse events and better safety profile. A HDAC isoform i.e., HDAC2 demonstrated significant role in the development of variety of diseases, mainly involved in the cancer and neurodegenerative disorders. Discovery and development of selective HDAC2 inhibitors have a great potential for the treatment of target diseases. In the present compilation, we have reviewed the role of HDAC2 in progression of cancer and neurodegenerative disorders, and information on the drug development opportunities for selective HDAC2 inhibition., Competing Interests: Declaration of competing interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper., (Copyright © 2021 Elsevier Masson SAS. All rights reserved.)
- Published
- 2021
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25. Pharmacophore-based identification and in vitro validation of apoptosis inducers as anticancer agents.
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Vyas VK, Qureshi G, Dayani H, Jha A, and Ghate M
- Subjects
- Animals, Databases, Chemical, Humans, Ligands, Models, Molecular, Antineoplastic Agents chemistry, Apoptosis drug effects, Drug Design, Quantitative Structure-Activity Relationship
- Abstract
Ligand-based pharmacophore modelling and virtual screening along with in vitro screening were performed as a rational strategy for the identification of novel compounds as apoptosis inducers and anticancer agents from the chemical database. Known apoptosis inducers were selected from the literature for generation of pharmacophore models, which were subjected to validation using Receiver operating characteristic (ROC) and Günere-Henry (GH) scoring methods. Based on highest fitness score of 4680.61, ROC value of 0.872 and GH score of 0.758, pharmacophore model-2 was selected as the best model. Model-2 as 3D search query was searched against the IBS database to find novel compounds as hits. Three hits were selected with a Q
FIT value more than 82 for in vitro screening as apoptosis inducers and anticancer agents. In vitro anticancer activity was performed using resazurin cell variability assay, and apoptosis inducing activity was determined using caspase-3 activation and annexin-FITC assays. One of the retrieved hit, STOCK5S-44056 demonstrated IC50 value of 23.56 µM in cell variability assay, and had EC50 value of 26.95 µM in caspase-3 activation assay. STOCK5S-44056 also indicated late stage induction of apoptosis in annexin assay. The results of in vitro activity revealed that STOCK5S-44056 has a potential to become anticancer agents.- Published
- 2020
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26. Sulfone Group as a Versatile and Removable Directing Group for Asymmetric Transfer Hydrogenation of Ketones.
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Vyas VK, Clarkson GJ, and Wills M
- Abstract
The sulfone functional group has a strong capacity to direct the asymmetric transfer hydrogenation (ATH) of ketones in the presence of [(arene)Ru(TsDPEN)H] complexes by adopting a position distal to the η
6 -arene ring. This preference provides a means for the prediction of the sense of asymmetric reduction. The sulfone group also facilitates the formation of a range of reduction substrates, and its ready removal provides a route to enantiomerically enriched alcohols that would otherwise be extremely difficult to prepare by direct ATH of the corresponding ketones., (© 2020 The Authors. Published by Wiley-VCH Verlag GmbH & Co. KGaA.)- Published
- 2020
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27. Neuroprotective Effects of Ethyl Pyruvate against Aluminum Chloride-Induced Alzheimer's Disease in Rats via Inhibiting Toll-Like Receptor 4.
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Chavali VD, Agarwal M, Vyas VK, and Saxena B
- Subjects
- Administration, Oral, Aluminum Chloride toxicity, Alzheimer Disease etiology, Animals, Apoptosis, Brain drug effects, Brain metabolism, Cells, Cultured, Female, Male, Mice, Neuroglia drug effects, Neuroglia metabolism, Neurons drug effects, Neurons metabolism, Neuroprotective Agents administration & dosage, Neuroprotective Agents pharmacology, Oxidative Stress, Pyruvates administration & dosage, Pyruvates pharmacology, Rats, Rats, Sprague-Dawley, Alzheimer Disease drug therapy, Neuroprotective Agents therapeutic use, Pyruvates therapeutic use, Toll-Like Receptor 4 metabolism
- Abstract
Alzheimer's disease (AD) is a progressive neurodegenerative disease characterized by the formation of insoluble deposits of β-amyloid (Aβ) plaques within the parenchyma of the brain. The present study aimed to investigate the neuroprotective role of ethyl pyruvate against in vitro and in vivo model of aluminum chloride (AlCl
3 )-induced AD. Effect of ethyl pyruvate (5, 10, 20, 40 mM) against AlCl3 (1250 μM)-induced neurotoxicity in primary neuron-glial mixed cell culture was evaluated using cell viability assays (MTT assay as well as calcein-AM/propidium iodide fluorescent dyes). In vivo model, AlCl3 (50 mg/kg) were given through intraperitoneal route (i.p.) once daily for 4 weeks in rats and after 2 weeks, ethyl pyruvate (50, 100, 200 mg/kg/day) was co-administered with AlCl3 once daily via the oral route. The present study, in addition to perform histopathology of the brain, also estimated oxidant and antioxidant parameters as well as memory impairment using pole test, plus maze, and Morris water maze test. The binding mode of ethyl pyruvate in the hMD-2 was also studied. Results of in vitro studies showed that the AlCl3 administration resulted in neuronal cell death. AlCl3 administration in rats resulted in memory loss, oxidative stress (increased lipid peroxide and nitric oxide), impairment of antioxidant mechanisms (superoxide dismutase, catalase, and reduced glutathione), and deposition of amyloid plaques in cerebral cortex region of the brain. AlCl3 also resulted in the overexpression of the TLR4 receptors in the brain tissues. Administration of ethyl pyruvate ameliorated the AlCl3 -induced neurotoxicity in neuron-glial mixed cell culture as well as histopathological, neurochemical, and behavioral consequences of chronic administration of AlCl3 in the rat. Ethyl pyruvate showed a docking score of 4.048. Thus, ethyl pyruvate is effective against in vitro and in vivo models of AlCl3 -induced AD.- Published
- 2020
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28. CpALS4770 and CpALS4780 contribution to the virulence of Candida parapsilosis.
- Author
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Zoppo M, Di Luca M, Franco M, Rizzato C, Lupetti A, Stringaro A, De Bernardis F, Schaudinn C, Barrasa MI, Bottai D, Vyas VK, and Tavanti A
- Subjects
- Animals, Biofilms growth & development, CRISPR-Associated Protein 9, CRISPR-Cas Systems, Candidiasis, Cell Culture Techniques, Female, Fungal Proteins genetics, Gene Silencing, Genes, Fungal, Humans, Mice, Mucous Membrane microbiology, Candida parapsilosis genetics, Candida parapsilosis pathogenicity, Cell Adhesion genetics, Virulence genetics
- Abstract
The ability of yeast to adhere to biotic and abiotic surfaces represents an essential trait during the early stages of infection. Agglutinin-like sequence (Als) cell-wall proteins play a key role in adhesion of Candida species. Candida parapsilosis genome encompasses 5 ALS members, of which only the role of CPAR2_404800 has been elucidated. The present project was aimed at investigating the contribution of C. parapsilosis Als proteins by generating edited strains lacking functional Als proteins. CPAR2_404770 and CPAR2_404780, further indicated as CpALS4770 and CpALS4780, were selected for the generation of single and double edited strains using an episomal CRISPR/Cas9 technology. Phenotypic characterization of mutant strains revealed that editing of both genes had no impact on the in vitro growth of C. parapsilosis or on morphogenesis. Notably, CpALS4770-edited strain showed a reduction of biofilm formation and adhesive properties to human buccal cells (HBECs). Conversely, single CpALS4780-edited strain did not show any difference compared to the wild-type strain in all the assays performed, while the double CpALS4770-CpALS4780 mutant revealed an increased ability to produce biofilm, a hyper-adhesive phenotype to HBECs, and a marked tendency to form cellular aggregates. Murine vaginal infection experiments indicated a significant reduction in CFUs recovered from BALC/c mice infected with single and double edited strains, compared to those infected with the wild-type strain. These finding clearly indicate that CpAls4770 plays a role in adhesion to biotic and abiotic surfaces, while both CpALS4770 and CpALS4780 genes are required for C. parapsilosis ability to colonize and persist in the vaginal mucosa., (Copyright © 2019 Elsevier GmbH. All rights reserved.)
- Published
- 2020
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29. An Introduction to CRISPR-Mediated Genome Editing in Fungi.
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Vyas VK and Bernstein DA
- Abstract
Central dogma, transformation, and genome editing are key biological concepts for which junior scientists must gain experience during training. Here we present an exercise that introduces these concepts in a single practical laboratory exercise. Our exercise utilizes CRISPR/Cas9 genome editing to introduce a stop codon into Saccharomyces cerevisiae ADE2. This edit leads to the buildup of an adenine precursor that dyes the edited cells red. As the repair template, guide RNA, and Cas9 are all encoded in our vector, transformation can be performed in 2 hours. Furthermore, since all components of the Cas9/CRISPR system are encoded by the vector, specialized equipment and reagents, such as a PCR machine or oligonucleotides, are not required to perform the experiments as designed. As such, these exercises provide an efficient cost-effective introduction to a wide variety of key molecular biology concepts and lay the foundation for more rigorous investigations in upper-level classes and independent research projects., (©2019 Author(s). Published by the American Society for Microbiology.)
- Published
- 2019
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30. A CRISPR/Cas9-based strategy to simultaneously inactivate the entire ALS gene family in Candida orthopsilosis .
- Author
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Zoppo M, Luca MD, Villarreal SN, Poma N, Barrasa MI, Bottai D, Vyas VK, and Tavanti A
- Subjects
- Base Sequence, Candida parapsilosis growth & development, Candidiasis microbiology, Cell Adhesion, Cells, Cultured, Epithelial Cells microbiology, Humans, Hyphae growth & development, Mouth cytology, Multigene Family, RNA, Guide, CRISPR-Cas Systems genetics, CRISPR-Associated Protein 9 genetics, CRISPR-Cas Systems, Candida parapsilosis genetics, Gene Editing methods, Genes, Fungal
- Abstract
Aim: In this study, the CRISPR gene-editing approach was used to simultaneously inactivate all three members of the ALS gene family in the opportunistic pathogen Candida orthopsilosis . Materials & methods: Using a single gRNA and repair template, CRISPR-edited clones were successfully generated in a one-step process in both C. orthopsilosis reference and clinical strains. Results: The phenotypic characterization of the ALS triple-edited strains revealed no impact on growth in liquid or solid media. However, pseudohyphal formation and the ability to adhere to human buccal epithelial cells were significantly decreased in triple-edited clones. Conclusion: Our CRISPR/Cas9 system is a powerful tool for simultaneous editing of fungal gene families, which greatly accelerates the generation of multiple gene-edited Candida strains. Data deposition: Nucleotide sequence data are available in the GenBank databases under the accession numbers MK875971, MK875972, MK875973, MK875974, MK875975, MK875976, MK875977.
- Published
- 2019
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31. Correction: Reducing phenolic off-flavors through CRISPR-based gene editing of the FDC1 gene in Saccharomyces cerevisiae x Saccharomyces eubayanus hybrid lager beer yeasts.
- Author
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Mertens S, Gallone B, Steensels J, Herrera-Malaver B, Cortebeek J, Nolmans R, Saels V, Vyas VK, and Verstrepen KJ
- Abstract
[This corrects the article DOI: 10.1371/journal.pone.0209124.].
- Published
- 2019
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32. Design of 2-Nitroimidazooxazine Derivatives as Deazaflavin-Dependent Nitroreductase (Ddn) Activators as Anti-Mycobacterial Agents Based on 3D QSAR, HQSAR, and Docking Study with In Silico Prediction of Activity and Toxicity.
- Author
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Gupta N, Vyas VK, Patel BD, and Ghate M
- Subjects
- Anti-Bacterial Agents chemistry, Catalytic Domain, Enzyme Activators chemistry, Flavins chemistry, Hydrogen Bonding, Hydrophobic and Hydrophilic Interactions, Imidazoles pharmacology, Anti-Bacterial Agents pharmacology, Drug Design, Enzyme Activators pharmacology, Flavins metabolism, Imidazoles chemistry, Molecular Docking Simulation, Nitroreductases metabolism, Quantitative Structure-Activity Relationship
- Abstract
Deazaflavin-dependent nitroreductase (Ddn) is an emerging target in the field of anti-tuberculosis agents. In the present study, 2-nitroimidazooxazine derivatives as Ddn activators were aligned for CoMFA, CoMSIA and HQSAR analysis. The best CoMFA and CoMSIA model were generated with leave-one-out correlation coefficients (q
2 ) of 0.585 and 0.571, respectively. Both the CoMFA and CoMSIA models were also validated by a test set of 11 compounds with satisfactory [Formula: see text] value of 0.701 and 0.667, respectively. Results of 3D QSAR and HQSAR study were used for the designing of novel and potent nitroimidazooxazine derivatives as Ddn activators. 21 novel compounds were designed, and docked into the Ddn enzyme. In docking study compound ng11 showed interaction with key amino acid residues such as Tyr65 and Tyr133, and also showed better ADMET compatibility. The ADMET prediction, docking study and the predicted activity of novel designed compounds revealed that compound ng11 showed good potential as Ddn activators for the treatment of tuberculosis.- Published
- 2019
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33. CoMFA, CoMSIA, Topomer CoMFA, HQSAR, molecular docking and molecular dynamics simulations study of triazine morpholino derivatives as mTOR inhibitors for the treatment of breast cancer.
- Author
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Chhatbar DM, Chaube UJ, Vyas VK, and Bhatt HG
- Subjects
- Acridines chemistry, Acridines metabolism, Binding Sites, Breast Neoplasms drug therapy, Datasets as Topic, Drug Design, Humans, Hydrogen Bonding, Least-Squares Analysis, Molecular Docking Simulation, Molecular Dynamics Simulation, Molecular Structure, Morpholines chemistry, Protein Binding, Protein Kinase Inhibitors chemistry, Quantitative Structure-Activity Relationship, TOR Serine-Threonine Kinases chemistry, Triazines chemistry, Morpholines metabolism, Protein Kinase Inhibitors metabolism, TOR Serine-Threonine Kinases antagonists & inhibitors, TOR Serine-Threonine Kinases metabolism, Triazines metabolism
- Abstract
mTOR has become a promising target for many types of cancer like breast, lung and renal cell carcinoma. CoMFA, CoMSIA, Topomer CoMFA and HQSAR were performed on the series of 39 triazine morpholino derivatives. CoMFA analysis showed q
2 value of 0.735, r2 cv value of 0.722 and r2 pred value of 0.769. CoMSIA analysis (SEHD) showed q2 value of 0.761, r2 cv value of 0.775 and r2 pred value of 0.651. Topomer CoMFA analysis showed q2 value of 0.693, r2 (conventional correlation coefficient) value of 0.940 and r2 pred value of 0.720. HQSAR analysis showed q2 ,r2 and r2 pred values of 0.694, 0.920 and 0.750, respectively. HQSAR analysis with the combination of atomic number (A), bond type (B) and atomic connections showed q2 and r2 values of 0.655 and 0.891, respectively. Contour maps from all studies provided significant insights. Molecular docking studies with molecular dynamics simulations were carried out on the highly potent compound 36. Furthermore, four acridine derivatives were designed and docking results of these designed compounds showed the same interactions as that of the standard PI-103 which proved the efficiency of 3D-QSAR and MD/MS study. In future, this study might be useful prior to synthesis for the designing of novel mTOR inhibitors., (Copyright © 2019 Elsevier Ltd. All rights reserved.)- Published
- 2019
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34. Synthesis of 2-,4,-6-, and/or 7-substituted quinoline derivatives as human dihydroorotate dehydrogenase (hDHODH) inhibitors and anticancer agents: 3D QSAR-assisted design.
- Author
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Vyas VK, Qureshi G, Oza D, Patel H, Parmar K, Patel P, and Ghate MD
- Subjects
- Antineoplastic Agents chemistry, Dihydroorotate Dehydrogenase, Humans, Models, Molecular, Molecular Structure, Quantitative Structure-Activity Relationship, Antineoplastic Agents pharmacology, Drug Design, Oxidoreductases Acting on CH-CH Group Donors antagonists & inhibitors, Quinolines chemistry, Quinolines pharmacology
- Abstract
Following our research for human dihydroorotate dehydrogenase (hDHODH) inhibitors as anticancer agents, herein we describe 3D QSAR-based design, synthesis and in vitro screening of 2-,4,-6-, and/or 7-substituted quinoline derivatives as hDHODH inhibitors and anticancer agents. We have designed 2-,4,-6-, and/or 7-substituted quinoline derivatives and predicted their hDHODH inhibitory activity based on 3D QSAR study on 45 substituted quinoline derivatives as hDHODH inhibitors, and also predicted toxicity. Designed compounds were docked into the binding site of hDHODH. Designed compounds which showed good predictive activity, no toxicity, and good docking score were selected for the synthesis, and in vitro screening as hDHODH inhibitors in an enzyme inhibition assay, and anticancer agents in MTT assay against cancer cell lines (HT-29 and MDA-MB-231). Synthesized compounds 7 and 14 demonstrated IC
50 value of 1.56 µM and 1.22 µM, against hDHODH, respectively, and these are our lead compounds for the development of new hDHODH inhibitors and anticancer agents., (Copyright © 2019 Elsevier Ltd. All rights reserved.)- Published
- 2019
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35. 3D QSAR-based design and liquid phase combinatorial synthesis of 1,2-disubstituted benzimidazole-5-carboxylic acid and 3-substituted-5 H -benzimidazo[1,2- d ][1,4]benzodiazepin-6(7 H )-one derivatives as anti-mycobacterial agents.
- Author
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Sitwala ND, Vyas VK, Gedia P, Patel K, Bouzeyen R, Kidwai S, Singh R, and Ghate MD
- Abstract
Tuberculosis (TB) is one of the world's deadliest infectious diseases, caused by Mycobacterium tuberculosis ( Mtb ). In the present study, a 3D QSAR study was performed for the design of novel substituted benzimidazole derivatives as anti-mycobacterial agents. The anti-tubercular activity of the designed compounds was predicted using the generated 3D QSAR models. The designed compounds which showed better activity were synthesized as 1,2-disubstituted benzimidazole-5-carboxylic acid derivatives (series 1) and 3-substituted-5 H -benzimidazo[1,2- d ][1,4]benzodiazepin-6(7 H )-one derivatives (series 2) using the liquid phase combinatorial approach using a soluble polymer assisted support (PEG5000). The compounds were characterized by
1 H-NMR,13 C-NMR, FTIR and mass spectrometry. HPLC analysis was carried out to evaluate the purity of the compounds. We observed that the synthesised compounds inhibited the growth of intracellular M. tuberculosis H37 Rv in a bactericidal manner. The most active compound 16 displayed an MIC value of 0.0975 μM against the Mtb H37 Rv strain in liquid cultures. The lead compound was also able to inhibit the growth of intracellular mycobacteria in THP-1 macrophages.- Published
- 2019
- Full Text
- View/download PDF
36. Reducing phenolic off-flavors through CRISPR-based gene editing of the FDC1 gene in Saccharomyces cerevisiae x Saccharomyces eubayanus hybrid lager beer yeasts.
- Author
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Mertens S, Gallone B, Steensels J, Herrera-Malaver B, Cortebeek J, Nolmans R, Saels V, Vyas VK, and Verstrepen KJ
- Subjects
- Beer microbiology, Biodiversity, Gene Editing, Saccharomyces classification, Saccharomyces cerevisiae classification, Clustered Regularly Interspaced Short Palindromic Repeats genetics, Saccharomyces genetics, Saccharomyces cerevisiae genetics
- Abstract
Today's beer market is challenged by a decreasing consumption of traditional beer styles and an increasing consumption of specialty beers. In particular, lager-type beers (pilsner), characterized by their refreshing and unique aroma and taste, yet very uniform, struggle with their sales. The development of novel variants of the common lager yeast, the interspecific hybrid Saccharomyces pastorianus, has been proposed as a possible solution to address the need of product diversification in lager beers. Previous efforts to generate new lager yeasts through hybridization of the ancestral parental species (S. cerevisiae and S. eubayanus) yielded strains with an aromatic profile distinct from the natural biodiversity. Unfortunately, next to the desired properties, these novel yeasts also inherited unwanted characteristics. Most notably is their phenolic off-flavor (POF) production, which hampers their direct application in the industrial production processes. Here, we describe a CRISPR-based gene editing strategy that allows the systematic and meticulous introduction of a natural occurring mutation in the FDC1 gene of genetically complex industrial S. cerevisiae strains, S. eubayanus yeasts and interspecific hybrids. The resulting cisgenic POF- variants show great potential for industrial application and diversifying the current lager beer portfolio., Competing Interests: The authors have declared that no competing interests exist.
- Published
- 2019
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37. Medicinal Chemistry of Potassium Channel Modulators: An Update of Recent Progress (2011-2017).
- Author
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Vyas VK, Parikh P, Ramani J, and Ghate M
- Subjects
- Benzopyrans chemistry, Benzopyrans metabolism, Benzothiazoles chemistry, Benzothiazoles metabolism, Humans, Patents as Topic, Potassium Channel Blockers metabolism, Potassium Channels chemistry, Pyrazoles chemistry, Pyrazoles metabolism, Pyrimidines chemistry, Pyrimidines metabolism, Small Molecule Libraries chemistry, Small Molecule Libraries metabolism, Chemistry, Pharmaceutical, Potassium Channel Blockers chemistry, Potassium Channels metabolism
- Abstract
Background: Potassium (K+) channels participate in many physiological processes, cardiac function, cell proliferation, neuronal signaling, muscle contractility, immune function, hormone secretion, osmotic pressure, changes in gene expression, and are involved in critical biological functions, and in a variety of diseases. Potassium channels represent a large family of tetrameric membrane proteins. Potassium channels activation reduces excitability, whereas channel inhibition increases excitability., Objective: Small molecule K+ channel activators and inhibitors interact with voltage-gated, inward rectifying, and two-pore tandem potassium channels. Due to their involvement in biological functions, and in a variety of diseases, small molecules as potassium channel modulators have received great scientific attention., Methods: In this review, we have compiled the literature, patents and patent applications (2011 to 2017) related to different chemical classes of potassium channel openers and blockers as therapeutic agents for the treatment of various diseases. Many different chemical classes of selective small molecule have emerged as potassium channel modulators over the past years., Conclusion: This review discussed the current understanding of medicinal chemistry research in the field of potassium channel modulators to update the key advances in this field., (Copyright© Bentham Science Publishers; For any queries, please email at epub@benthamscience.net.)
- Published
- 2019
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38. Studies on effect of CuO addition on mechanical properties and in vitro cytocompatibility in 1393 bioactive glass scaffold.
- Author
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Ali A, Ershad M, Vyas VK, Hira SK, Manna PP, Singh BN, Yadav S, Srivastava P, Singh SP, and Pyare R
- Subjects
- Cell Line, Tumor, Cell Survival, Humans, Cell Proliferation, Copper chemistry, Glass chemistry, Materials Testing, Tissue Engineering, Tissue Scaffolds chemistry
- Abstract
Copper doped bioactive glasses have been reported as the potential biomaterial for diseased or damaged bone repair and act as stimulants to new bones formation. In the present manuscript, we have synthesized 1393 derived glass based scaffold with the general formula of (54.6 - X)SiO
2 ·6Na2 O·7.9 K2 O·7.7 MgO·22 CaO·1.74 P2 O5 ·XCuO (all are in mole%; where X = 0,1,2,3) through traditional melt-quench route and the samples were designated as 1393, 1393-1Cu, 1393-2Cu and 1393-3Cu respectively. Polymer foam with interconnected pores has been used on later stage to prepare porous (porosity > 50%) bioactive scaffolds. The addition of CuO in glass scaffolds was to ensure its cytocompatibility, ability to enhance cell proliferation and improvements in mechanical properties. Increasing trend of CuO in the 1393 glass scaffold has resulted in increasing compressive and flexural strength and elastic modulus of the scaffolds. In-vitro cellular growth inhibition and cell viability assay of CuO incorporated 1393 glass scaffolds demonstrated that it did not inhibit proliferation and viability of human squamous carcinoma cell (SCC-25) at low materials concentration. The materials caused moderate level of apoptosis at higher concentrations and were also tolerated by human RBC as studied by hemolytic assay. The results indicated that CuO incorporated 1393 scaffolds could be a potential biomaterial for neobone tissue engineering application., (Copyright © 2018 Elsevier B.V. All rights reserved.)- Published
- 2018
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39. CRISPR-mediated Genome Editing of the Human Fungal Pathogen Candida albicans.
- Author
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Evans BA, Pickerill ES, Vyas VK, and Bernstein DA
- Subjects
- CRISPR-Associated Protein 9 genetics, Humans, Plasmids, RNA, Guide, CRISPR-Cas Systems genetics, CRISPR-Cas Systems, Candida albicans genetics, Gene Editing methods
- Abstract
This method describes the efficient CRISPR mediated genome editing of the diploid human fungal pathogen Candida albicans. CRISPR-mediated genome editing in C. albicans requires Cas9, guide RNA, and repair template. A plasmid expressing a yeast codon optimized Cas9 (CaCas9) has been generated. Guide sequences directly upstream from a PAM site (NGG) are cloned into the Cas9 expression vector. A repair template is then made by primer extension in vitro. Cotransformation of the repair template and vector into C. albicans leads to genome editing. Depending on the repair template used, the investigator can introduce nucleotide changes, insertions, or deletions. As C. albicans is a diploid, mutations are made in both alleles of a gene, provided that the A and B alleles do not harbor SNPs that interfere with guide targeting or repair template incorporation. Multimember gene families can be edited in parallel if suitable conserved sequences exist in all family members. The C. albicans CRISPR system described is flanked by FRT sites and encodes flippase. Upon induction of flippase, the antibiotic marker (CaCas9) and guide RNA are removed from the genome. This allows the investigator to perform subsequent edits to the genome. C. albicans CRISPR is a powerful fungal genetic engineering tool, and minor alterations to the described protocols permit the modification of other fungal species including C. glabrata, N. castellii, and S. cerevisiae.
- Published
- 2018
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40. Highly Enantioselective One-Pot Synthesis of Chiral β-Heterosubstituted Alcohols via Ruthenium-Prolinamide-Catalyzed Asymmetric Transfer Hydrogenation.
- Author
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Vyas VK, Srivastava P, Bhatt P, Shende V, Ghosh P, and Bhanage BM
- Abstract
The utility of a chiral Ru-prolinamide catalytic system has been demonstrated in one-pot synthesis of optically active β-triazolylethanol and β-hydroxy sulfone derivatives. The said methodology proceeds through asymmetric transfer hydrogenation of in situ formed ketones of the corresponding chiral products. Various chiral prolinamide ligands were screened, and ligand L6 with isopropyl groups substituted at the ortho position has shown excellent activity at 60 °C in aqueous medium producing up to 95% yield and 99.9% enantioselectivity., Competing Interests: The authors declare no competing financial interest.
- Published
- 2018
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41. New CRISPR Mutagenesis Strategies Reveal Variation in Repair Mechanisms among Fungi.
- Author
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Vyas VK, Bushkin GG, Bernstein DA, Getz MA, Sewastianik M, Barrasa MI, Bartel DP, and Fink GR
- Subjects
- Candida albicans genetics, Candida glabrata genetics, DNA Breaks, Double-Stranded, Genetic Vectors, RNA, Guide, CRISPR-Cas Systems genetics, Saccharomyces cerevisiae genetics, CRISPR-Cas Systems, DNA End-Joining Repair, Fungi genetics, Gene Editing methods, Mutagenesis
- Abstract
We have created new vectors for clustered regularly interspaced short palindromic repeat (CRISPR) mutagenesis in Candida albicans , Saccharomyces cerevisiae , Candida glabrata , and Naumovozyma castellii These new vectors permit a comparison of the requirements for CRISPR mutagenesis in each of these species and reveal different dependencies for repair of the Cas9 double-stranded break. Both C. albicans and S. cerevisiae rely heavily on homology-directed repair, whereas C. glabrata and N. castellii use both homology-directed and nonhomologous end-joining pathways. The high efficiency of these vectors permits the creation of unmarked deletions in each of these species and the recycling of the dominant selection marker for serial mutagenesis in prototrophs. A further refinement, represented by the "Unified" Solo vectors, incorporates Cas9, guide RNA, and repair template into a single vector, thus enabling the creation of vector libraries for pooled screens. To facilitate the design of such libraries, we have identified guide sequences for each of these species with updated guide selection algorithms. IMPORTANCE CRISPR-mediated genome engineering technologies have revolutionized genetic studies in a wide range of organisms. Here we describe new vectors and guide sequences for CRISPR mutagenesis in the important human fungal pathogens C. albicans and C. glabrata , as well as in the related yeasts S. cerevisiae and N. castellii The design of these vectors enables efficient serial mutagenesis in each of these species by leaving few, if any, exogenous sequences in the genome. In addition, we describe strategies for the creation of unmarked deletions in each of these species and vector designs that permit the creation of vector libraries for pooled screens. These tools and strategies promise to advance genetic engineering of these medically and industrially important species., (Copyright © 2018 Vyas et al.)
- Published
- 2018
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42. Tuning Hsf1 levels drives distinct fungal morphogenetic programs with depletion impairing Hsp90 function and overexpression expanding the target space.
- Author
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Veri AO, Miao Z, Shapiro RS, Tebbji F, O'Meara TR, Kim SH, Colazo J, Tan K, Vyas VK, Whiteway M, Robbins N, Wong KH, and Cowen LE
- Subjects
- Blotting, Western, Candida albicans genetics, Chromatin Immunoprecipitation, Heat Shock Transcription Factors genetics, Morphogenesis, Oligonucleotide Array Sequence Analysis, Reverse Transcriptase Polymerase Chain Reaction, Sequence Analysis, RNA, Temperature, Virulence, Candida albicans growth & development, Candida albicans pathogenicity, Genes, Fungal, HSP90 Heat-Shock Proteins physiology, Heat Shock Transcription Factors metabolism
- Abstract
The capacity to respond to temperature fluctuations is critical for microorganisms to survive within mammalian hosts, and temperature modulates virulence traits of diverse pathogens. One key temperature-dependent virulence trait of the fungal pathogen Candida albicans is its ability to transition from yeast to filamentous growth, which is induced by environmental cues at host physiological temperature. A key regulator of temperature-dependent morphogenesis is the molecular chaperone Hsp90, which has complex functional relationships with the transcription factor Hsf1. Although Hsf1 controls global transcriptional remodeling in response to heat shock, its impact on morphogenesis remains unknown. Here, we establish an intriguing paradigm whereby overexpression or depletion of C. albicans HSF1 induces morphogenesis in the absence of external cues. HSF1 depletion compromises Hsp90 function, thereby driving filamentation. HSF1 overexpression does not impact Hsp90 function, but rather induces a dose-dependent expansion of Hsf1 direct targets that drives overexpression of positive regulators of filamentation, including Brg1 and Ume6, thereby bypassing the requirement for elevated temperature during morphogenesis. This work provides new insight into Hsf1-mediated environmentally contingent transcriptional control, implicates Hsf1 in regulation of a key virulence trait, and highlights fascinating biology whereby either overexpression or depletion of a single cellular regulator induces a profound developmental transition.
- Published
- 2018
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43. Combining Electronic and Steric Effects To Generate Hindered Propargylic Alcohols in High Enantiomeric Excess.
- Author
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Vyas VK, Knighton RC, Bhanage BM, and Wills M
- Abstract
Tethered ruthenium-TsDPEN complexes have been applied to the catalysis of the asymmetric transfer hydrogenation of a range of aryl/acetylenic ketones. The introduction of an ortho- substituent to the aryl ring of the substrate results in a reversal of the enantioselectivity, while the introduction of two o-fluoro substituents results in an improvement to the reduction enantioselectivity, as does the replacement of a phenyl ring on the alkyne with a trimethylsilyl group. These effects are rationalized as resulting from a change in the steric properties of the aryl ring and the electronic properties of the alkyne which, when matched in the reduction transition state, combine within a "window" of substrate/catalyst matching to generate products of high ee.
- Published
- 2018
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44. Liquid phase combinatorial synthesis of 1,2,5-trisubstituted benzimidazole derivatives as human DHODH inhibitors.
- Author
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Sitwala ND, Vyas VK, Variya BC, Patel SS, Mehta CC, Rana DN, and Ghate MD
- Subjects
- Benzimidazoles chemical synthesis, Benzimidazoles metabolism, Binding Sites, Catalytic Domain, Dihydroorotate Dehydrogenase, Enzyme Inhibitors chemistry, Enzyme Inhibitors metabolism, Humans, Inhibitory Concentration 50, Kinetics, Molecular Docking Simulation, Oxidoreductases Acting on CH-CH Group Donors metabolism, Benzimidazoles chemistry, Enzyme Inhibitors chemical synthesis, Oxidoreductases Acting on CH-CH Group Donors antagonists & inhibitors
- Abstract
The synthesis of 1,2,5-trisubstituted benzimidazole derivatives was carried out using liquid phase combinatorial approach using soluble polymer assisted support (PEG5000). Synthesised compounds were characterised by FTIR, ESI-MS,
1 H NMR and13 C NMR. The purity of compounds was confirmed with HPLC analysis. Compounds were also docked into the binding site of human dihydroorotate dehydrogenase (hDHODH). The synthesised compounds were screened for hDHODH enzyme inhibition assay using brequinar as standard compound. The synthesised compounds demonstrated comparative biological activity. Synthesised compounds 8d and 8e demonstrated IC50 value of 81±2nM and 97±2nM, respectively., (Copyright © 2017 Elsevier Inc. All rights reserved.)- Published
- 2017
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45. Kinetic resolution of 1,2-diols using immobilized Burkholderia cepacia lipase: A combined experimental and molecular dynamics investigation.
- Author
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Mathpati AC, Vyas VK, and Bhanage BM
- Subjects
- Bacterial Proteins metabolism, Biocatalysis, Enzymes, Immobilized chemistry, Hypromellose Derivatives chemistry, Kinetics, Lipase chemistry, Models, Biological, Molecular Docking Simulation, Polymers, Polyvinyl Alcohol chemistry, Solvents chemistry, Stereoisomerism, Burkholderia cepacia enzymology, Enzymes, Immobilized metabolism, Lipase metabolism, Molecular Dynamics Simulation
- Abstract
Kinetic resolution of rac-1,2-diols using the biocatalyst Burkholderia cepacia lipase (BCL) immobilized on a biodegradable binary blend support of hydroxypropyl methyl cellulose(HPMC)/polyvinyl alcohol (PVA) has been investigated. The immobilization technique improved enzyme activity significantly and it has excellent recyclability with good yield and enantiomeric excess values up to the studied range of nine cycles. At optimum reaction conditions, conversion of 45-50% with excellent enantiomeric excess (up to 99% ee) were obtained. It was observed that BCL shows enantio-preference to R form of primary hydroxyl group for acylation, whereas S form is preferred for diacetate formation. The resultant products were characterized with the help of different analytical techniques such as
1 H and13 C NMR, chiral HPLC, IR and GC-MS. In order to understand the effect of solvent as well as various derivatives of substrates, combined molecular dynamics and docking simulations were carried out. Explanation related to experimentally observed enantio-selectivities have been provided based on transition state structures of acylated complexes., (Copyright © 2017 Elsevier B.V. All rights reserved.)- Published
- 2017
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46. Combined in silico approaches for the identification of novel inhibitors of human islet amyloid polypeptide (hIAPP) fibrillation.
- Author
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Patel P, Parmar K, Vyas VK, Patel D, and Das M
- Subjects
- Amino Acid Sequence, Amyloid antagonists & inhibitors, Diabetes Mellitus, Type 2 metabolism, Glucose chemistry, Glucose metabolism, Humans, Insulin chemistry, Islet Amyloid Polypeptide antagonists & inhibitors, Molecular Dynamics Simulation, Protein Conformation, Amyloid chemistry, Diabetes Mellitus, Type 2 drug therapy, Islet Amyloid Polypeptide chemistry, Protein Aggregation, Pathological metabolism
- Abstract
Human islet amyloid polypeptide (hIAPP) is a natively unfolded polypeptide hormone of glucose metabolism, which is co-secreted with insulin by the β-cells of the pancreas. In patients with type 2 diabetes, IAPP forms amyloid fibrils because of diabetes-associated β-cells dysfunction and increasing fibrillation, in turn, lead to failure of secretory function of β-cells. This provides a target for the discovery of small organic molecules against protein aggregation diseases. However, the binding mechanism of these molecules with monomers, oligomers and fibrils to inhibit fibrillation is still an open question. In this work, ligand and structure-based in silico approaches were used to identify novel fibrillation inhibitors and/or fibril binding compounds. The best pharmacophore model was used as a 3D search query for virtual screening of a compound database to identify novel molecules having the potential to be therapeutic agents against protein aggregation diseases. Docking and molecular dynamics simulation studies were used to explore the interaction pattern and mechanism of the identified novel small molecules with predicted hIAPP structure, its aggregation prone conformation and fibril forming segments. We show that catechins with galloyl group and molecules having two to three planar apolar rings bind to hIAPP structures and fibril forming segments with greater affinity. The differences in binding affinities of different compounds against several fibril forming segments of the peptide suggest that a mixture of active compounds may be required for treatment of aggregation diseases., (Copyright © 2017 Elsevier Inc. All rights reserved.)
- Published
- 2017
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47. Molecular modeling study for the design of novel acetyl-CoA carboxylase inhibitors using 3D QSAR, molecular docking and dynamic simulations.
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Vyas VK, Dabasia M, Qureshi G, Patel P, and Ghate M
- Subjects
- Acetyl-CoA Carboxylase antagonists & inhibitors, Binding Sites drug effects, Enzyme Inhibitors pharmacology, Models, Molecular, Molecular Docking Simulation, Molecular Dynamics Simulation, Protein Binding drug effects, Quantitative Structure-Activity Relationship, Acetyl-CoA Carboxylase chemistry, Drug Discovery, Enzyme Inhibitors chemistry
- Abstract
Acetyl-CoA carboxylase (ACC) enzyme plays an important role in the regulation of biosynthesis and oxidation of fatty acids. ACC is a recognized drug target for the treatment of obesity and diabetes. Combination of ligand and structure-based in silico methods along with activity and toxicity prediction provides best lead compounds in the drug discovery process. In this study, a data-set of 100 ACC inhibitors were used for the development of comparative molecular field analysis (CoMFA) and comparative molecular similarity index matrix analysis (CoMSIA) models. The generated contour maps were used for the design of novel ACC inhibitors. CoMFA and CoMSIA models were used for the predication of activity of designed compounds. In silico toxicity risk prediction study was carried out for the designed compounds. Molecular docking and dynamic simulations studies were performed to know the binding mode of designed compounds with the ACC enzyme. The designed compounds showed interactions with key amino acid residues important for catalysis, and good correlation was observed between binding free energy and inhibition of ACC.
- Published
- 2017
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48. Kinetic Resolution Driven Diastereo- and Enantioselective Synthesis of cis-β-Heteroaryl Amino Cycloalkanols by Ruthenium-Catalyzed Asymmetric Transfer Hydrogenation.
- Author
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Vyas VK and Bhanage BM
- Abstract
The utility of tethered Ru-TsDPEN catalyst has been demonstrated for the asymmetric transfer hydrogenation of rac-α-heteroaryl amino cycloalkanones to construct biologically important cis-β-heteroaryl amino cycloalkanols with two contiguous chiral centers via dynamic kinetic resolution. The stated (R,R)-Teth-TsDPEN-Ru-catalyzed transformation is carried out under mild conditions using formic acid/triethylamine as a hydrogen source with excellent diastereo- and enantioselectivities. Further, this methodology has been applied for the synthesis of an antileishmanial agent and chiral ionic liquid.
- Published
- 2016
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49. Protective effect of Tephrosia purpurea in diabetic cataract through aldose reductase inhibitory activity.
- Author
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Bhadada SV, Vyas VK, and Goyal RK
- Subjects
- Aldehyde Reductase metabolism, Animals, Antioxidants metabolism, Binding Sites, Biphenyl Compounds chemistry, Blood Glucose metabolism, Cataract blood, Diabetes Complications blood, Diabetes Complications enzymology, Enzyme Inhibitors pharmacology, Female, Free Radical Scavengers pharmacology, Insulin blood, Lens, Crystalline drug effects, Lens, Crystalline metabolism, Lens, Crystalline pathology, Male, Molecular Docking Simulation, Phytochemicals analysis, Picrates chemistry, Plant Extracts pharmacology, Protective Agents pharmacology, Rats, Sprague-Dawley, Solubility, Aldehyde Reductase antagonists & inhibitors, Cataract drug therapy, Cataract enzymology, Diabetes Complications drug therapy, Enzyme Inhibitors therapeutic use, Plant Extracts therapeutic use, Protective Agents therapeutic use, Tephrosia chemistry
- Abstract
Purpose: Tephrosia purpurea (T. purpurea) has been reported to prevent cataract formation in senile cataract model as well as proven effective in STZ induced type 1 diabetes. Aldose reductase (AR) is a key enzyme in the intracellular polyol pathway responsible for the development of diabetic cataract., Objective: To investigate the effects of T. purpurea in the light of inhibition of aldose reductase enzyme in polyol pathway., Methods: We studied the effects of alcoholic extract and flavonoid fraction of T. purpurea in streptozotocin (STZ, 45mg/kg, i.v.)-induced type I diabetic cataract in rats. The animals were divided into five groups as control, control treated with alcoholic and flavonoid fraction, diabetic control and diabetic treated with alcoholic and flavonoid fraction. In-vitro aldose reductase inhibitory activity was also evaluated. Further, molecular docking study was performed with crystal structure of aldose reductase and its known chemical constituents of the plant., Results: The IC
50 value of alcoholic extract for aldose reductase inhibition was found to be 209.13μg/ml, and that of flavonoid fraction was found to be 46.73μg/ml. Administration of STZ produced significantly abnormal levels of serum glucose, serum insulin, soluble protein and antioxidants in the lens homogenate. Treatment with alcoholic extract and flavonoid fraction of T. purpurea were able to normalize these levels. Some of the active constituents of T. purpurea showed significant interactions with aldose reductase enzyme in molecular docking studies., Conclusions: Our data suggested that both the extracts might be helpful in delaying the development of diabetic cataract due to the presence of rutin and quercetin. This beneficial effect may be due to its significant inhibition of aldose reductase enzyme and anti-oxidant activity., (Copyright © 2016 Elsevier Masson SAS. All rights reserved.)- Published
- 2016
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50. Synthesis, anti-inflammatory, analgesic, 5-lipoxygenase (5-LOX) inhibition activities, and molecular docking study of 7-substituted coumarin derivatives.
- Author
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Srivastava P, Vyas VK, Variya B, Patel P, Qureshi G, and Ghate M
- Subjects
- Analgesics chemical synthesis, Analgesics chemistry, Animals, Anti-Inflammatory Agents, Non-Steroidal chemical synthesis, Anti-Inflammatory Agents, Non-Steroidal chemistry, Carrageenan, Coumarins chemical synthesis, Coumarins chemistry, Dose-Response Relationship, Drug, Edema chemically induced, Edema drug therapy, Lipoxygenase Inhibitors chemical synthesis, Lipoxygenase Inhibitors chemistry, Molecular Structure, Rats, Stomach Ulcer drug therapy, Structure-Activity Relationship, Analgesics pharmacology, Anti-Inflammatory Agents, Non-Steroidal pharmacology, Arachidonate 5-Lipoxygenase metabolism, Coumarins pharmacology, Lipoxygenase Inhibitors pharmacology, Molecular Docking Simulation
- Abstract
In the present study, 7-subsituted coumarin derivatives were synthesized using various aromatic and heterocyclic amines, and evaluated in vivo for anti-inflammatory and analgesic activity, and for ulcerogenic risk. The most active compounds were evaluated in vitro for 5-lipoxygenase (5-LOX) inhibition. Docking study was performed to predict the binding affinity, and orientation at the active site of the enzyme. In vivo anti-inflammatory and analgesic activity, and in vitro 5-LOX enzyme inhibition study revealed that compound 33 and 35 are the most potent compounds in all the screening methods. In vitro kinetic study of 35 showed mixed or non-competitive type of inhibition with 5-LOX enzyme. Presence of OCH3 group in 35 and Cl in 33 at C6-position of benzothiazole ring were found very important substitutions for potent activity., (Copyright © 2016. Published by Elsevier Inc.)
- Published
- 2016
- Full Text
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