Immunoinformatics Prediction of Peptide-Based Vaccine Against African Horse Sickness Virus

Abdelbagi, M.; Hassan, Tarteel; Shihabeldin, Mohammed; Bashir, Sanaa; Ahmed, E. S.; Mohamed, E.-S.; Hafiz, Shawgi; Abdelmonim, Abdah; Hamid, Tassneem; Awad, Shimaa; Hamdi, Ahmed; Ali, Khoubieb; Hassan, Mohammed A.

doi:10.4172/1745-7580.1000135

Cited by 9 publications

(9 citation statements)

References 50 publications

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“…Analysis was achieved using human HLA alleles, due to the lack of chicken alleles in IEDB data set. Artificial neural network (ANN) was used to predict the binding affinity [26, 27]. Peptide length for all selected epitopes was set to 9 amino acids (mers).…”

Section: Methodsmentioning

confidence: 99%

Immunoinformatics Approach for Multiepitopes Vaccine Prediction against Glycoprotein B of Avian Infectious Laryngotracheitis Virus

Ali

Almofti

Abd-elrahman

2019

Advances in Bioinformatics

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Infectious laryngotracheitis virus (ILTV) is a gallid herpesvirus type 1, a member of the genus Iltovirus. It causes an infection in the upper respiratory tract mainly trachea which results in significant economic losses in the poultry industry worldwide. Vaccination against ILTV produced latent infected carriers’ birds, which become a source of virus transmission to nonvaccinated flocks. Thus this study aimed to design safe multiepitopes vaccine against glycoprotein B of ILT virus using immunoinformatic tools. Forty-four sequences of complete envelope glycoprotein B were retrieved from GenBank of National Center for Biotechnology Information (NCBI) and aligned for conservancy by multiple sequence alignment (MSA). Immune Epitope Database (IEDB) analysis resources were used to predict and analyze candidate epitopes that could act as a promising peptide vaccine. For B cell epitopes, thirty-one linear epitopes were predicted using Bepipred. However eight epitopes were found to be on both surface and antigenic epitopes using Emini surface accessibility and antigenicity, respectively. Three epitopes (190KKLP193, 386YSSTHVRS393, and 317KESV320) were proposed as B cell epitopes. For T cells several epitopes were interacted with MHC class I with high affinity and specificity, but the best recognized epitopes were 118YVFNVTLYY126, 335VSYKNSYHF343, and 622YLLYEDYTF630. MHC-II binding epitopes, 301FLTDEQFTI309,277FLEIANYQV285, and 743IASFLSNPF751, were proposed as promising epitopes due to their high affinity for MHC-II molecules. Moreover the docked ligand epitopes from MHC-1 molecule exhibited high binding affinity with the receptors; BF chicken alleles (BF2 2101 and 0401) expressed by the lower global energy of the molecules. In this study nine epitopes were predicted as promising vaccine candidate against ILTV. In vivo and in vitro studies are required to support the effectiveness of these predicted epitopes as a multipeptide vaccine through clinical trials.

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Section: Methodsmentioning

confidence: 99%

Immunoinformatics Approach for Multiepitopes Vaccine Prediction against Glycoprotein B of Avian Infectious Laryngotracheitis Virus

Ali

Almofti

Abd-elrahman

2019

Advances in Bioinformatics

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“…The half-maximal inhibitory concentration (IC50) value required for all conserved epitopes to bind at score less than 500 were selected. [29][30][31][32][33][34][35]…”

Section: Sequenced-based Methodsmentioning

confidence: 99%

Design of Epitope Based Peptide Vaccine Against Pseudomonas Aeruginosa Fructose Bisphosphate Aldolase Protein using Immunoinformatics

Elhag

Alaagib²,

Ahmed

et al. 2019

Preprint

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Pseudomonas aeruginosa is common pathogen that is responsible of serious illnesses hospital acquired infection as ventilator associated pneumonia and various sepsis syndrome. Also it is a multidrug resistant pathogen recognized for its ubiquity, its intrinsically advanced antibiotic resistant mechanisms. generally affects the immuonocompromised but can also infect the immunocompetent as in hot tub folliculitis. There is no vaccine against it available till now. This study predicts an effective epitope-based vaccine against Fructose bisphosphate aladolase (FBA) of Pseudomonas aeruginosa using immunoinformatics tools. The sequences were obtained from NCBI and prediction tests took place to analyze possible epitopes for B and T cells. Three B cell epitopes passed the antigenicity, accessibility and hydrophilicity tests. Six MHC I epitopes were the most promising, while four from MHC II. Nineteen epitopes were shared between MHC I and II. For the population coverage, the epitopes covered 95.62% of the alleles worldwide excluding certain MHC II alleles. We recommend invivo and invitro studies to prove it's effectiveness.

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“…MHC-I binding epitopes were predicted by the IEDB MHC I prediction tool at http://tools.iedb.org/mhci. The binding affinity of peptides to MHC I molecules was measured using artificial neural networks (ANN) method [32,33]. Prior to prediction, peptide lengths were set as 9 mers.…”

Section: T-cell Epitope Predictionmentioning

confidence: 99%

Vaccine design of coronavirus spike (S) glycoprotein in chicken: immunoinformatics and computational approaches

Awadelkareem

Ali

2020

transl med commun

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Background: Infectious bronchitis (IB) is a highly contagious respiratory disease in chickens and produces economic loss within the poultry industry. This disease is caused by a single stranded RNA virus belonging to Cronaviridae family. This study aimed to design a potential multi-epitopes vaccine against infectious bronchitis virus spike protein (S). Protein characterization was also performed for IBV spike protein. Methods: The present study used various tools in Immune Epitope Database (IEDB) to predict conserved B and T cell epitopes against IBV spike (S) protein that may perform a significant role in provoking the resistance response to IBV infection. Results: In B cell prediction methods, three epitopes (1139 KKSSYY 1144 , 1140 KSSYYT 1145 , 1141 SSYYT 1145) were selected as surface, linear and antigenic epitopes. Many MHCI and MHCII epitopes were predicted for IBV S protein. Among them 982 YYITARDMY 990 and 983 YITARDMYM 991 epitopes displayed high antigenicity, no allergenicity and no toxicity as well as great linkage with MHCI and MHCII alleles. Moreover, docking analysis of MHCI epitopes produced strong binding affinity with BF 2 alleles. Conclusion: Five conserved epitopes were expected from spike glycoprotein of IBV as the best B and T cell epitopes due to high antigenicity, no allergenicity and no toxicity. In addition, MHC epitopes showed great linkage with MHC alleles as well as strong interaction with BF2 alleles. These epitopes should be designed and incorporated and then tested as multi-epitope vaccine against IBV.

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Immunoinformatics Prediction of Peptide-Based Vaccine Against African Horse Sickness Virus

Cited by 9 publications

References 50 publications

Immunoinformatics Approach for Multiepitopes Vaccine Prediction against Glycoprotein B of Avian Infectious Laryngotracheitis Virus

Immunoinformatics Approach for Multiepitopes Vaccine Prediction against Glycoprotein B of Avian Infectious Laryngotracheitis Virus

Design of Epitope Based Peptide Vaccine Against Pseudomonas Aeruginosa Fructose Bisphosphate Aldolase Protein using Immunoinformatics

Vaccine design of coronavirus spike (S) glycoprotein in chicken: immunoinformatics and computational approaches

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