In the present study, one of the targets present on the envelopes of coronaviruses, membrane glycoprotein (M) was chosen for the design of a multi-epitope vaccine by Immunoinformatics approach. The B-cell and T-cell epitopes used for the construction of vaccine were antigenic, nonallergic and nontoxic. An adjuvant, β-defensin and PADRE sequence were included at the N-terminal end of the vaccine. All the epitopes were joined by linkers for decreasing the junctional immunogenicity. Various physicochemical parameters of the vaccine were evaluated. Secondary and tertiary structures were predicted for the vaccine construct. The tertiary structure was further refined, and various parameters related to the refinement of the protein structure were validated by using different tools. Humoral immunity induced by B-cells relies upon the identification of antigenic determinants on the surface of the vaccine construct. In this regard, the vaccine construct was found to consist of several B-cell epitopes in its three-dimensional conformation. Molecular docking of the vaccine was carried out with TLR-3 receptor to study their binding and its strength. Further, protein–protein interactions in the docked complex were visualized using LigPlot+. Population coverage analysis had shown that the multi-epitope vaccine covers 94.06% of the global population. The vaccine construct was successfully cloned in silico into pET-28a (+). Immune simulation studies showed the induction of primary, secondary and tertiary immune responses marked by the increased levels of antibodies, INF-γ, IL-2, TGF-β, B- cells, CD4+ and CD8+ cells. Finally, the vaccine construct was able to elicit immune response as desired. Communicated by Ramaswamy H. Sarma
1 June 2020 in Journal of Biomolecular Structure and Dynamics
The best therapeutic strategy to find an effective vaccine against SARS-CoV-2 is to explore the target structural protein. In the present study, a novel multi-epitope vaccine is designed using in silica tools that potentially trigger both CD4 and CD8 T-cell immune responses against the novel Coronavirus. The vaccine candidate was designed using B and T-cell epitopes that can act as an immunogen and elicits immune response in the host system. NCBI was used for the retrieval of surface spike glycoprotein, of novel corona virus (SARS-CoV-2) strains. VaxiJen server screens the most important immunogen of all the proteins and IEDB server gives the prediction and analysis of B and T cell epitopes. Final vaccine construct was designed in silico composed of 425 amino acids including the 50S ribosomal protein adjuvant and the construct was computationally validated in terms of antigenicity, allergenicity and stability on considering all critical parameters into consideration. The results subjected to the modeling and docking studies of vaccine were validated. Molecular docking study revealed the protein-protein binding interactions between the vaccine construct and TLR-3 immune receptor. The MD simulations confirmed stability of the binding pose. The immune simulation results showed significant response for immune cells. The findings of the study confirmed that the final vaccine construct of chimeric peptide could able to enhance the immune response against nCoV-19.
Since the municipal waste management and community garbage-treating systems are in vogue, there is a growing need for the waste minimization to keep our vicinity clean and green. Therefore, a feasible indoor device is designed for recycling domestic vegetable scrap by adopting the principle of soil ecosystem. To arrive at the composting process control parameters in the proposed device, the soil from landfill and quarry along with supplements namely sawdust, cow dung/yeast and the resident thermophilic bacteria are analysed. The soil parameters namely pH, electrical conductivity, Organic carbon, P, K, Fe, moisture content and the presence of thermophilic bacteria varied significantly between negative control sample (NCS) and positive control sample (PCS) and post-treatment positive control group with dried cow dung (PPC-C)-derived compost is soft-textured and homogenous. Furthermore, the double-compartment-based device would be more feasible and appealing as a recycling bin rather than as a refuse storage bin primarily due to the inclusion of dish-plantation. The standardization of composting control parameters is discussed in this article.
7 September 2017 in Systems Research and Behavioral Science
Background: In the present study, phylogenetic relationships within Heterobranchia in particular to Pulmonata were evaluated by means of Histone-3 (H3) gene sequence information. H3 gene is a slow evolving marker and is useful in resolving the deep level relationships. This is the first study to report the phylogeny of Pulmonata with more number of representatives from the group on the basis of H3 gene. Results: The major groups within Heterobranchia viz. Lower Heterobranchia, Opisthobranchia, and Pulmonata were non-monophyletic. A few of the pulmonate groups’ viz. Planorbidae, Lymnaeidae, Siphonariidae, Veronicellidae, and Stylommatophora were recovered as monophyletic. The concepts of Eupulmonata and Geophila were not observed in the present study. Conclusions: The present study was undertaken with an objective to study the phylogeny of Pulmonata reconstructed on the basis of H3 gene and its ability to resolve the deeper divergences in Pulmonata. However, the resolution at the deeper nodes is limited. There is a good resolution at the level of genera. In the future, inclusion of more number of taxa with increased sequence length of H3 marker may yield resolved topologies that may shed more insights into the phylogeny of Pulmonata.