title: Computational prediction and analysis of potential antigenic CTL epitopes in Zika virus: A first step towards vaccine development.
abstract: The Zika virus disease is an Aedes mosquito-borne disease caused by the ZIKA virus. The unavailability of vaccines or proper chemotherapeutic treatment emphasizes the need for the development of preventive and therapeutic vaccines. T cell specific epitopes have been used as vaccine candidates to generate desired immune responses against a variety of viral pathogens. Herein, the immune-informatics approach was used for the screening of potential major histocompatibility complex class I restricted epitopes, which may be competent to generate a cell-mediated immune response in humans. A total of 63 epitopes were identified, which revealed a comprehensive binding affinity to the 42 different human leukocyte antigen class I supertypes: A01, A02, A08, A23, A24, A25, A26, A29, A30, A32, A66, A68, A69, A80, B07, B08, B14, B15, B27, B35, B39, B40, B42, B45, B46, B48, B51, B53, B54, B57, B58, B83, C12, C03, C04, C05, C06, C07, C08, C12, C14, and C15, and which had no homologs in humans. By combining the human leukocyte antigen binding specificity and population coverage, nine promiscuous epitopes located in Capsid 1 Protein (MVLAILAFL(P1)), Envelop Protein (RLKGVSYSL (P2) and RLITANPVI (P3)), NS2A (AILAALTPL (P4)), NS4B (LLVAHYMYL (P5) and LVAHYMYLI (P6)) and NS5 (SLINGVVRL (P7), ALNTFTNLV (P8) and YLSTQVRYL (P9)) were shortlisted. Most of these consensus epitopes revealed 100% conservancy in all Zika virus strains and were very less conserved against the human proteome. The combination of the selected epitopes accounted for an optimal coverage in the world wide population (>99%) independent of ethnicity. Structural analysis of these selected epitopes by the PatchDock web server showed their preferential mode of presentation to the T cell receptor. All these results recommended the possibility of a combined epitope vaccine strategy and can therefore be further investigated for their immunological relevance and usefulness as vaccine candidates.
authors: Department of Bioinformatics, Rajendra Memorial Research Institute of Medical Sciences, Patna 800007, India.
authors: Manas R
authors: MR
authors: Dikhit
authors: Department of Bioinformatics, Rajendra Memorial Research Institute of Medical Sciences, Patna 800007, India; Department of Pharmacoinformatics and Biotechnology, National Institute of Pharmaceutical Education and Research, Hajipur 844102, India.
authors: Md Yousuf
authors: MY
authors: Ansari
authors: Department of Immunology, Rajendra Memorial Research Institute of Medical Sciences, Patna 800007, India; Department of Pharmacoinformatics and Biotechnology, National Institute of Pharmaceutical Education and Research, Hajipur 844102, India.
authors: Vijaymahantesh
authors: Virology Division, Rajendra Memorial Research Institute of Medical Sciences, Patna 800007, India.
authors: Kalyani
authors: Department of Bioinformatics, Rajendra Memorial Research Institute of Medical Sciences, Patna 800007, India; Department of Pharmacoinformatics and Biotechnology, National Institute of Pharmaceutical Education and Research, Hajipur 844102, India.
authors: Rani
authors: R
authors: Mansuri
authors: Institute for Protein Research, Osaka University, Suita 5650871, Japan.
authors: Bikash R
authors: BR
authors: Sahoo
authors: Department of Bioinformatics, Rajendra Memorial Research Institute of Medical Sciences, Patna 800007, India.
authors: Budheswar
authors: B
authors: Dehury
authors: Department of Immunology, Rajendra Memorial Research Institute of Medical Sciences, Patna 800007, India.
authors: Ajay
authors: A
authors: Amit
authors: Department of Epidemiology, Rajendra Memorial Research Institute of Medical Sciences, Patna 800007, India.
authors: Roshan K
authors: RK
authors: Topno
authors: Department of Bioinformatics, Rajendra Memorial Research Institute of Medical Sciences, Patna 800007, India.
authors: Ganesh C
authors: GC
authors: Sahoo
authors: Department of Clinical Biochemistry, Rajendra Memorial Research Institute of Medical Sciences, Patna 800007, India.
authors: Vahab
authors: V
authors: Ali
authors: Department of Immunology, Rajendra Memorial Research Institute of Medical Sciences, Patna 800007, India.
authors: Sanjiva
authors: S
authors: Bimal
authors: Department of Molecular Biology, Rajendra Memorial Research Institute of Medical Sciences, Patna 800007, India. Electronic address: drpradeep.das@gmail.com.
authors: Pradeep
authors: P
authors: Das
mesh_terms: D000956:Antigens, Viral / Q000737:chemistry / Q000235:genetics / Q000276:immunology; D019295:Computational Biology / Q000379:methods*; D018984:Epitopes, T-Lymphocyte / Q000235:genetics / Q000276:immunology; D006801:Humans; D008958:Models, Molecular; D015233:Models, Statistical; D013602:T-Lymphocytes, Cytotoxic / Q000276:immunology; D014765:Viral Vaccines / Q000235:genetics; D000071244:Zika Virus / Q000235:genetics / Q000276:immunology; D000071243:Zika Virus Infection / Q000276:immunology / Q000517:prevention & control / Q000821:virology
chemical_list: D000956:Antigens, Viral; D018984:Epitopes, T-Lymphocyte; D014765:Viral Vaccines
keywords: CD8+ T cell; Epitope; Epitope mapping; Immunoinformatics; MHC class I; ZIKV; Zika virus