Bhattacharyya P.,North - Eastern Hill University |
Bhattacharyya P.,University of KwaZulu - Natal |
Kumaria S.,North - Eastern Hill University |
Bose B.,North - Eastern Hill University |
And 2 more authors.
Journal of Applied Research on Medicinal and Aromatic Plants | Year: 2017
Rumex nepalensis is an important medicinal herb found in high altitude regions of India. It is a rich source of various secondary metabolites and has a widespread use in various herbal preparations. The regeneration efficacy of both direct shoot organogenesis (DSO) and indirect shoot organogenesis (ISO) was experimentally tested and the highest regeneration frequency for DSO and ISO pathways were 87.2% and 91.2% respectively. The best rooting frequency was recorded in half-strength MS medium supplemented with 2. mg/l NAA. The plantlets after acclimatization were phenotypically similar to that of the mother plant. The clonal stability of the regenerated plants from both DSO and ISO pathways were determined using Start Codon Targeted Polymorphism (SCoT) and Random amplified polymorphic DNA (RAPD) marker techniques. Although RAPD technique detected lesser degree of variability within the cloned plants (both DSO and ISO), SCoT marker could detect comparatively higher degree of genetic variability thereby proving its efficacy over the conventional molecular markers. Regeneration methodology, plant part and solvent system significantly influenced the levels of various secondary metabolites like phenols, flavonoids, alkaloids and tannins. Simultaneously, the antioxidant assays (DPPH and FRAP) detected the antioxidant activity varied tissue specifically and a significant higher value of antioxidant activity was observed within the ISO-derived plants. Higher multiplication rate coupled with enhanced clonal stability and secondary metabolite production recorded in the present report ensure the efficacy of the protocol designed for the micropropagation of this important medicinal herb species. © 2017 Elsevier GmbH.
Targeting the epidermal growth factor receptor: Exploring the potential of novel inhibitor N-(3-Ethynylphenyl)-6, 7-bis (2-methoxyethoxy) quinolin-4-amine using docking and molecular dynamics simulation
Gupta S.,Biotech Park |
Misra G.,Hygia Institute of Pharmaceutical Education and Research |
Pant M.C.,University of Lucknow |
Seth P.K.,Biotech Park
Protein and Peptide Letters | Year: 2012
Head and neck squamous cell carcinoma (HNSCC) is a major cause of cancer related death. The epidermal growth factor receptor (EGFR) pathway is over expressed in HNSCC. EGFR regulates the HNSCC by inducing signalling events responsible for regulating key tumorigenic processes such as proliferation, inhibition of apoptosis, cell adhesion/motility, growth and survival. Present study evaluates the potential of N-(3-Ethynylphenyl)-6, 7-bis (2-methoxyethoxy) quinolin-4-amine as a new inhibitor for EGFR. We have explored the binding and inhibitory potential of the compound using molecular docking, structural interactions fingerprinting and molecular dynamics studies. The inhibitor exhibits extensive interactions with the EGFR catalytic site in the form of hydrogen bonds, pi-pi bond and salt bridges. It shows high specificity and binding affinity towards the protein. The compound can further be explored for its potential to serve in the diagnosis and treatment of HNSCC. The quantitative prediction provides a scope for future experimental testing, facilitating the understanding of the crosstalks between signalling pathways. © 2012 Bentham Science Publishers.
Devi S.P.,Central Agricultural University |
Kumaria S.,North - Eastern Hill University |
Rao S.R.,North - Eastern Hill University |
Tandon P.,Biotech Park
Tropical Plant Biology | Year: 2016
Carnivorous plants are among the curiosities of nature being different from the normal plants in their mode of nutrition. These plants have fascinated several researchers for centuries. They are also characterized by synthesis of bioactive compounds which are used as a mechanism for self defense. These compounds possess a broad spectrum of biological activities such as antiparasitic, antibacterial, insecticidal, fungicidal, anti-inflammatory, antipyretic, antiproliferative activities. Although, several antimicrobial drugs have been introduced during the recent decades, the problems of microbial infections resistant to synthetic pesticides still exist which necessitate the introduction of novel antimicrobial agents with additional modes of actions than the currently available therapeutic agents. Naphthoquinones are one of the most studied bioactive compounds which have been reported to inhibit the growth of proliferative cells and microbes. Efforts have been made to induce the biosynthesis of naphthoquinone in different species of carnivorous plants. It has been demonstrated that the accumulation of naphthoquinones in carnivorous plants was increased by injecting chitin into the plant tissues. Also, their biosynthesis could be enhanced by the incorporation of elicitors in in vitro cultures of plants. In the present review, we discuss the applications of naphthoquinones and its biosynthesis in carnivorous plants. © 2016 Springer Science+Business Media New York
Age estimation for the genus Cymbidium (Orchidaceae: Epidendroideae) with implementation of fossil data calibration using molecular markers (ITS2 & matK) and phylogeographic inference from ancestral area reconstruction
PubMed | North - Eastern Hill University and Biotech Park
Type: | Journal: Journal of bioinformatics and computational biology | Year: 2016
Intercontinental dislocations between tropical regions harboring two-thirds of the flowering plants have always drawn attention from taxonomists and biogeographers. One such family belonging to angiosperms is Orchidaceae with an herbaceous habit and high species diversity in the tropics. Here, we investigate the evolutionary and biogeographical history of the genus Cymbidium, which represents a monophyletic subfamily (Epidendroideae) of the orchids and comprises 50 odd species that are distinctly distributed in tropical to temperate regions. Much is not known about correlations among the level of CAM activity (one of the photosynthetic pathways often regarded as an adaptation to water stress in land plants), habitat, life forms, and phylogenetic relationships of orchids from an evolutionary perspective. A relatively well-resolved and highly supported phylogeny for Cymbidium orchids is reconstructed based on sequence analysis of ITS2 and matK regions from the chloroplast DNA available in public repositories viz. GenBank at NCBI.This study examines a genus level analysis by integrating different molecular matrices to existing fossil data on orchids in a molecular Bayesian relaxed clock employed in BEAST and assessed divergence times for the genus Cymbidium with a focus on evolutionary history of photosynthetic characters. Our study has enabled age estimations (45Ma) as well as ancestral area reconstruction for the genus Cymbidium using BEAST by addition of previously analyzed two internal calibration points.
Singh S.,Sunder Deep Pharmacy College |
Khan Md.K.,Biotech Park |
Sharma S.K.,Sunder Deep Pharmacy College |
Singh L.,Sunder Deep Pharmacy College
Journal of Chemical and Pharmaceutical Sciences | Year: 2014
An alarming increase in bacterial strains resistant to existing antimicrobial agents demands a renewed effort to seek agents effective against pathogenic bacteria resistant to current antimicrobials. Hamelia patens extracts was studied for antibacterial and antifungal activity against various clinical isolates of the bacteria and fungi, in varying concentration by Agar well diffusion method and serial dilutions. The extracts showed pronounced concentration dependent antibacterial activity against Gram positive and Gram negative bacteria and also antifungal activity. Various extracts of Hamelia patens inhibited the growth of Staphylococcus aureus, Bacillus subtilis, Pseudomonas flurescens, Escherichia coliand Aspergillus niger, Penicillium chrysogenum, Alternaria alternata. Six extracts of Hamelia patenswere analyzed for their antioxidant activity by Hydrogen peroxide scavenging activity. The six extract along with the reference sample, Gallic acid were further analysed to determine toal phenolic content by Folin - Ciocalteau method. The data obtained in the in vitro models clearly establish the antioxidant potency of all extracts. © 2014, SPB Pharma Society. All rights reserved.
Gupta S.,Biotech Park |
Misra G.,Biotech Park |
Pant M.C.,University of Lucknow |
Seth P.K.,Biotech Park
Journal of Molecular Modeling | Year: 2011
Protein-protein interactions play an important role in regulating the expression of huntingtin protein (htt). Expansion of polyglutamine tracts in htt results in neurodegenerative Huntington disease. Huntingtin interacting protein (HIP14) is an important interacting partner of htt and the altered interactions have been proposed to play an important role in disease progression. In the present study, an attempt has been made to explore the potential of several known Huntington inhibitors to inhibit HIP14. The docking studies have resulted in the identification of a novel binding site for these inhibitors distinct from the previously known ankyrin repeat domain. The results have been validated using geometry based docking transformations against the other binding pocket. The specificity of binding has been determined with high values of both accuracy and precision. Nine potential inhibitors obtained after screening belong to three distinct classes of compounds viz, carbohydrates (deoxy-glucose), alcohols (including phenolic scaffold) and tetracycline. The compounds form stable complex with protein exhibiting optimal intermolecular and Gibbs free energy. The hydrogen bonding and hydrophobic interactions predominantly contribute to the stability of these complexes. The present study identifies metoprolol, minocyclines and 18 F fluorodeoxyglucose as the best inhibitors that bind specifically to the new site. Therefore, these compounds can further be exploited for their potential to serve in the diagnosis and treatment of Huntington disease. The quantitative predictions provide a scope for experimental testing in future. © Springer-Verlag 2011.
Saxena S.,Babasaheb Bhimrao Ambedkar University |
Kesharwani R.K.,Babasaheb Bhimrao Ambedkar University |
Singh V.,Babasaheb Bhimrao Ambedkar University |
Singh S.,Biotech Park
International Journal of Bioinformatics Research and Applications | Year: 2013
Geminiviruses are single-stranded circular DNA viruses causing leaf curl disease in papaya crop. Post-Transcriptional Gene Silencing (PTGS), also known as RNAi, acts as a natural antiviral defence mechanism and plays a role in genome maintenance and development in plants. PTGS suppression by viruses makes the plant RNA silencing machinery inefficient. Three geminiviral genes namely AV2, AC2 and AC4 are found to play the role in suppression of RNA silencing. siRNA degrades the target mRNA in a homology-dependent manner. In-silico designing of siRNA against these three genes of geminiviruses infecting Carica papaya was done using bioinformatics tools. This strategy may provide PTGS by specifically targeting the viral genes involved in suppression of plant RNA silencing machinery. Copyright © 2013 Inderscience Enterprises Ltd.
PubMed | Biotech Park and University of Lucknow
Type: Journal Article | Journal: Bioinformation | Year: 2014
In this work, 3D model of D2 dopamine receptor was determined by comparative homology modeling program MODELLER. The computed models energy was minimized and validated using PROCHECK and Errat tool to obtain a stable model structure and was submitted in Protein Model Database (PMDB-ID: PM0079251). Stable model was used for molecular docking against Risperidone and their 15 derivatives using AutoDock 4.2, which resulted in energy-based descriptors such as Binding Energy, Ligand Efficiency, Inhib Constant, Intermol energy, vdW + Hbond + desolv Energy, Electrostatic Energy, Total Internal Energy and Torsional Energy. After that, we have built quantitative structure activity relationship (QSAR) model, which was trained and tested on Risperidone and their 15 derivatives having activity value pKi in M. For QSAR modeling, Multiple Linear Regression model was engendered using energy-based descriptors yielding correlation coefficient r2 of 0.513. To assess the predictive performance of QSAR models, different cross-validation procedures were adopted. Our results suggests that ligand-receptor binding interactions for D2 employing QSAR modeling seems to be a promising approach for prediction of pKi value of novel antagonists against D2 receptor.