{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,13]],"date-time":"2026-10-13T18:45:13Z","timestamp":1791917113890,"version":"4.3.4"},"reference-count":33,"publisher":"Public Library of Science (PLoS)","issue":"10","license":[{"start":{"date-parts":[[2026,10,13]],"date-time":"2026-10-13T00:00:00Z","timestamp":1791849600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["www.plosone.org"],"crossmark-restriction":false},"short-container-title":["PLoS One"],"abstract":"<jats:p>\n                    La Crosse virus (LACV) is a mosquito-borne\n                    <jats:italic>Orthobunyavirus<\/jats:italic>\n                    responsible for pediatric encephalitis, with no currently approved vaccine or targeted antiviral therapy. This study aimed to design a multi-epitope subunit vaccine targeting the conserved nucleoprotein of LACV using an integrated immunoinformatics approach. The nucleoprotein exhibited strong antigenicity and favorable physicochemical properties, including stability and hydrophilicity. Highly conserved CTL, HTL, and B-cell epitopes were initially predicted, from which high-affinity, non-allergenic, and non-toxic epitopes were selected. Population coverage analysis revealed extensive global applicability, with MHC class I and II coverage of 98.55% and 81.81%, respectively. Three vaccine constructs (V1, V2 and V3) were developed, while construct V1 demonstrated superior performance, with the highest antigenicity (0.7846) and solubility (0.709). Structural validation confirmed stability, with over 93% of residues in favored regions of the Ramachandran plot. Molecular docking with the TLR8 receptor revealed strong interactions. This was further supported by MD simulations, DCCM analysis, binding free energy calculations, and PCA, all of which confirmed stable binding between the vaccine construct V1 and TLR8, exhibiting a docking score of \u22121212.6. Molecular dynamics simulations further confirmed stability, with consistent RMSD, stable radius of gyration, and persistent hydrogen bonding (40\u201360 bonds). Codon optimization demonstrated favorable translational efficiency and confirmed the suitability of the construct V1 for heterologous expression in\n                    <jats:italic>E. coli<\/jats:italic>\n                    . Immune simulation predicted robust humoral and cellular responses, including elevated IgM, IgG, and cytokines. Overall, the proposed vaccine candidate V1 demonstrates strong immunogenic potential and structural stability, warranting further experimental validation for potential clinical application.\n                  <\/jats:p>","DOI":"10.1371\/journal.pone.0359567","type":"journal-article","created":{"date-parts":[[2026,10,13]],"date-time":"2026-10-13T17:49:48Z","timestamp":1791913788000},"page":"e0359567","update-policy":"https:\/\/doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":0,"title":["Designing a multi-epitope vaccine against La Crosse virus using immunoinformatics approach"],"prefix":"10.1371","volume":"21","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-0045-9669","authenticated-orcid":true,"given":"Md. Shamiron","family":"Hasnat","sequence":"first","affiliation":[{"name":"Faculty of Veterinary, Animal and Biomedical Sciences, Sylhet Agricultural University","place":["Sylhet, Bangladesh"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ahsanul Siddique","family":"Saim","sequence":"additional","affiliation":[{"name":"Faculty of Veterinary, Animal and Biomedical Sciences, Sylhet Agricultural University","place":["Sylhet, Bangladesh"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mst. Farhana Akter","family":"Sarmin","sequence":"additional","affiliation":[{"name":"Faculty of Veterinary, Animal and Biomedical Sciences, Sylhet Agricultural University","place":["Sylhet, Bangladesh"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Probir","family":"Mitro","sequence":"additional","affiliation":[{"name":"Faculty of Veterinary, Animal and Biomedical Sciences, Sylhet Agricultural University","place":["Sylhet, Bangladesh"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sabrina","family":"Sarker","sequence":"additional","affiliation":[{"name":"Faculty of Veterinary, Animal and Biomedical Sciences, Sylhet Agricultural University","place":["Sylhet, Bangladesh"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Md. 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Li","year":"2026","journal-title":"Sci Rep"},{"key":"pone.0359567.ref016","doi-asserted-by":"crossref","first-page":"172","DOI":"10.1016\/0014-5793(90)80535-Q","article-title":"A semi-empirical method for prediction of antigenic determinants on protein antigens","volume":"276","author":"AS Kolaskar","year":"1990","journal-title":"FEBS Lett"},{"key":"pone.0359567.ref017","doi-asserted-by":"crossref","DOI":"10.1093\/nar\/gkx346","article-title":"BepiPred-2.0: Improving sequence-based B-cell epitope prediction using conformational epitopes","volume":"45","author":"MC Jespersen","year":"2017","journal-title":"Nucleic Acids Res"},{"issue":"6","key":"pone.0359567.ref018","doi-asserted-by":"crossref","first-page":"2278","DOI":"10.1007\/s00894-014-2278-5","article-title":"AllerTOP v.2--a server for in silico prediction of allergens","volume":"20","author":"I Dimitrov","year":"2014","journal-title":"J Mol 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Other validation tools. 2012."},{"issue":"2","key":"pone.0359567.ref025","doi-asserted-by":"crossref","first-page":"96","DOI":"10.1093\/nar\/gkh354","article-title":"ClusPro: A fully automated algorithm for protein--protein docking","volume":"32","author":"SR Comeau","year":"2004","journal-title":"Nucleic Acids Research"},{"issue":"9","key":"pone.0359567.ref026","doi-asserted-by":"crossref","first-page":"113378","DOI":"10.1016\/j.isci.2025.113378","article-title":"Immunodominant structural proteins Gc and N drive T cell-mediated protection against La Crosse virus","volume":"28","author":"R Alatrash","year":"2025","journal-title":"iScience"},{"issue":"1","key":"pone.0359567.ref027","doi-asserted-by":"crossref","first-page":"196","DOI":"10.1038\/s41541-025-01254-2","article-title":"Stabilization of norovirus GII.3 virus-like particles by rational disulfide engineering","volume":"10","author":"C Warren","year":"2025","journal-title":"NPJ Vaccines"},{"issue":"1","key":"pone.0359567.ref028","doi-asserted-by":"crossref","first-page":"377","DOI":"10.1186\/s12985-025-02982-6","article-title":"Immunoinformatics-based strategies for developing DNA and mRNA vaccines against monkeypox virus (MPXV)","volume":"22","author":"S Khan","year":"2025","journal-title":"Virol J"},{"issue":"7","key":"pone.0359567.ref029","doi-asserted-by":"crossref","first-page":"499","DOI":"10.1038\/nri1391","article-title":"Toll-like receptor signalling","volume":"4","author":"S Akira","year":"2004","journal-title":"Nat Rev Immunol"},{"issue":"1","key":"pone.0359567.ref030","doi-asserted-by":"crossref","first-page":"1674","DOI":"10.1186\/s12879-025-12105-9","article-title":"Computational development of multi-epitope vaccine to induce adaptive immunity against multi-drug resistant Prevotella intermedia","volume":"25","author":"A Kanwal","year":"2025","journal-title":"BMC Infect Dis"},{"issue":"1","key":"pone.0359567.ref031","doi-asserted-by":"crossref","first-page":"6984","DOI":"10.1038\/s41598-026-37178-7","article-title":"Immunoinformatics-guided design of a universal chimeric multi-epitope subunit vaccine against Marburg virus disease and Ravn virus co-infection","volume":"16","author":"S Ali","year":"2026","journal-title":"Sci Rep"},{"issue":"1","key":"pone.0359567.ref032","doi-asserted-by":"crossref","first-page":"3440","DOI":"10.1038\/s41467-023-39096-y","article-title":"Vaccine-induced protection against SARS-CoV-2 requires IFN-\u03b3-driven cellular immune response","volume":"14","author":"X Wang","year":"2023","journal-title":"Nat Commun"},{"key":"pone.0359567.ref033","doi-asserted-by":"crossref","first-page":"1535014","DOI":"10.3389\/fimmu.2025.1535014","article-title":"T and B cell responses in different immunization scenarios for COVID-19: a narrative review","volume":"16","author":"E Piano Mortari","year":"2025","journal-title":"Front Immunol"}],"container-title":["PLOS One"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pone.0359567","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,10,13]],"date-time":"2026-10-13T17:49:56Z","timestamp":1791913796000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pone.0359567"}},"subtitle":[],"editor":[{"given":"Maemu Petronella","family":"Gededzha","sequence":"first","affiliation":[{"name":"Sefako Makgatho Health Sciences University","place":["SOUTH AFRICA"]}],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2026,10,13]]},"references-count":33,"journal-issue":{"issue":"10","published-online":{"date-parts":[[2026,10,13]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pone.0359567","relation":{},"ISSN":["1932-6203"],"issn-type":[{"value":"1932-6203","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,10,13]]}}}