Exploiting the reverse vaccinology approach to design novel subunit vaccines against Ebola virus

Ullah, Asad; Islam, Syed Sajidul

doi:10.1016/j.imbio.2020.151949

Cited by 60 publications

(65 citation statements)

References 98 publications

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“…Their Van Der Waals interactions, partial electrostatics and hydrophobic-favour was also considered ( Table 2 ). Dynamics result showed a positive eigenvalue (2.27e-05; 2.06e-06; 2.03e-05; 1.53e-05) which is significant in the vaccine and rotation of the constructed vaccine which has been reported from several studies [ 51 , 52 , 53 ].…”

Section: Discussionmentioning

confidence: 60%

Exploration of surface glycoprotein to design multi-epitope vaccine for the prevention of Covid-19

Oladipo

Ajayi

Ariyo

et al. 2020

Informatics in Medicine Unlocked

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Stimulation and generation of T and B cell mediated long-term immune response is essential for the curbing of a deadly virus such as SAR-CoV-2. Immunoinformatics approach in vaccine design takes advantage of antigenic and non-allergenic epitopes present on the spike glycoprotein of SARS-CoV-2 to elicit immune responses. T cells and B cells epitopes were predicted, and the selected residues were subjected to allergenicity, antigenicity and toxicity screening which were linked by appropriate linkers to form a multi-epitope subunit vaccine. The physiochemical properties of the vaccine construct was analyzed and the molecular weight, molecular formula, theoretical isoelectric point value, half-life, solubility score, instability index, aliphatic index and GRAVY were predicted. The vaccine structure was constructed, refined, validated, and disulfide engineered to get the best model. Molecular binding simulation and molecular dynamics simulation were carried out to predict the stability and binding affinity of the vaccine construct with TLRs. Codon acclimatization and in silico cloning were performed to confirm the vaccine expression and potency. Results obtained indicated that this novel vaccine candidate is non-toxic, capable of initiating the immunogenic response and will not induce an allergic reaction. The highest binding energy was observed in TLR 4 (-1398.1) and the least is TLR 2 (-1479. 6). The steady rise in Th (helper) cell population with memory development was noticed and IFN-g was provoked after simulation. At this point, the vaccine candidate awaits animal trial to validate its efficacy and safety for use in the prevention of the novel COVID-19 infections.

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Section: Discussionmentioning

confidence: 60%

Exploration of surface glycoprotein to design multi-epitope vaccine for the prevention of Covid-19

Oladipo

Ajayi

Ariyo

et al. 2020

Informatics in Medicine Unlocked

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“…The aliphatic index of a protein corresponds to the relative volume occupied by the aliphatic amino acids in the side chains of the protein, for example: alanine, valine etc. (Pace et al, 1995;Gill and Von Hippel, 1989;Ikai, 1980;Ullah et al, 2020b). Surface glycoprotein also had the highest predicted aliphatic index among the two proteins (84.67).…”

Section: Discussionmentioning

confidence: 96%

Immunoinformatics-guided designing of epitope-based subunit vaccines against the SARS Coronavirus-2 (SARS-CoV-2)

et al. 2020

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SARS Coronavirus-2 (SARS-CoV-2) pandemic has become a global issue which has raised the concern of scientific community to design and discover a countermeasure against this deadly virus. So far, the pandemic has caused the death of hundreds of thousands of people upon infection and spreading. To date, no effective vaccine is available which can combat the infection caused by this virus. Therefore, this study was conducted to design possible epitope-based subunit vaccines against the SARS-CoV-2 virus using the approaches of reverse vaccinology and immunoinformatics. Upon continual computational experimentation, three possible vaccine constructs were designed and one vaccine construct was selected as the best vaccine based on molecular docking study which is supposed to effectively act against the SARS-CoV-2. Thereafter, the molecular dynamics simulation and in silico codon adaptation experiments were carried out in order to check biological stability and find effective mass production strategy of the selected vaccine. This study should contribute to uphold the present efforts of the researches to secure a definitive preventative measure against this lethal disease.

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“…Promiscuous MHC-I, MHC-II and B cell epitopes of 6 potential vaccine candidates were clustered using “Epitope Cluster Analysis Tool” (http://tools.iedb.org/cluster/) (Ullah et.al. 2020) Epitopes were clustered on sequence identity threshold of 70%.…”

Section: Methodsmentioning

confidence: 99%

Designing of multiepitope-based vaccine against Leptospirosis using Immuno-Informatics approaches

Abdullah

Kadivella

Sharma

et al. 2021

Preprint

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Leptospira is a zoonotic pathogen causing significant morbidity and mortality both in animals and humans. Although several surface proteins have been identified as vaccine candidate, they failed to induce sterilizing immunity and cross protection against different serovars. Thus, identification of highly immunogenic antigens that are conserved among pathogenic serovars would be first step towards development of universal vaccine for Leptospirosis. Here we used reverse vaccinology pipeline to screen core genome of pathogenic Leptospira spp.in order to identify suitable vaccine candidates. Based on properties like sub cellular localization, adhesin, homology to human proteins, antigenicity and allergenicity, 18 antigenic proteins were identified through this pipeline and were further investigated for immunological properties. Based on immunogenicity, Protegenicity, Antigenicity, B-cell and promiscuous T-cell epitopes, 6 Potential Vaccine Candidates (PVCs) were finally selected which covered most of the affected world population. For designing a Multi-Epitope Vaccine (MEV), 6 B-cell and 6 promiscuous MHC-I and MHC-II epitopes from each candidate were clustered with linkers in between and stitched along with a TLR4 adjuvant (APPHALS) at the N-terminal forming a construct of 361 amino acids. The physiochemical properties, secondary and tertiary structure analysis revealed that MEV was highly stable. Molecular docking analysis revealed the deep binding interactions of the MEV construct within the grooves of human TLR4 (4G8A). In-silico codon optimization and cloning of the vaccine construct assured good expression. Further, immune simulations have shown that MEV could induce strong and diverse B-cell and T-cell responses. Taken together our results indicate that the designed MEV could be a promising subunit vaccine candidate against Leptospirosis, however it requires experimental validation.

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Exploiting the reverse vaccinology approach to design novel subunit vaccines against Ebola virus

Cited by 60 publications

References 98 publications

Exploration of surface glycoprotein to design multi-epitope vaccine for the prevention of Covid-19

Exploration of surface glycoprotein to design multi-epitope vaccine for the prevention of Covid-19

Immunoinformatics-guided designing of epitope-based subunit vaccines against the SARS Coronavirus-2 (SARS-CoV-2)

Designing of multiepitope-based vaccine against Leptospirosis using Immuno-Informatics approaches

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