Sequencing-based protein–protein interaction analysis provides an immune gene network for understanding white body immune response mechanisms against Poly I:C stimulation in Amphioctopus fangsiao

Chen, Xipan; Lü, Zheng; Sun, Guohua; Feng, Yanwei; Liu, Xiumei; Xu, Xiaohui; Li, Zan; Yang, Jianmin

doi:10.21203/rs.3.rs-3027574/v1

Cited by 1 publication

(1 citation statement)

References 71 publications

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“…The analysis of immunogenicity and immune-inducing potential of vaccine constructs can be accomplished through computational immune simulation. This approach utilizes the C-ImmSim server ( 33 ), which incorporates machine learning techniques to predict the interaction between immune epitopes ( 34 ).…”

Section: Methodsmentioning

confidence: 99%

A novel vaccine construct against Zika virus fever: insights from epitope-based vaccine discovery through molecular modeling and immunoinformatics approaches

Alharbi,

Alshammari,

Alsabhan

et al. 2024

Front. Immunol.

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The Zika virus (ZIKV) is an emerging virus associated with the Flaviviridae family that mainly causes infection in pregnant women and leads to several abnormalities during pregnancy. This virus has unique properties that may lead to pathological diseases. As the virus has the ability to evade immune response, a crucial effort is required to deal with ZIKV. Vaccines are a safe means to control different pathogenic infectious diseases. In the current research, a multi-epitope-based vaccination against ZIKV is being designed using in silico methods. For the epitope prediction and prioritization phase, ZIKV polyprotein (YP_002790881.1) and flavivirus polyprotein (>YP_009428568.1) were targeted. The predicted B-cell epitopes were used for MHC-I and MHC-II epitope prediction. Afterward, several immunoinformatics filters were applied and nine (REDLWCGSL, MQDLWLLRR, YKKSGITEV, TYTDRRWCF, RDAFPDSNS, KPSLGLINR, ELIGRARVS, AITQGKREE, and EARRSRRAV) epitopes were found to be probably antigenic in nature, non-allergenic, non-toxic, and water soluble without any toxins. Selected epitopes were joined using a particular GPGPG linker to create the base vaccination for epitopes, and an extra EAAAK linker was used to link the adjuvant. A total of 312 amino acids with a molecular weight (MW) of 31.62762 and an instability value of 34.06 were computed in the physicochemical characteristic analysis, indicating that the vaccine design is stable. The molecular docking analysis predicted a binding energy of −329.46 (kcal/mol) for TLR-3 and −358.54 (kcal/mol) for TLR-2. Moreover, the molecular dynamics simulation analysis predicted that the vaccine and receptor molecules have stable binding interactions in a dynamic environment. The C-immune simulation analysis predicted that the vaccine has the ability to generate both humoral and cellular immune responses. Based on the design, the vaccine construct has the best efficacy to evoke immune response in theory, but experimental analysis is required to validate the in silico base approach and ensure its safety.

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Section: Methodsmentioning

confidence: 99%