{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,16]],"date-time":"2026-07-16T23:45:37Z","timestamp":1784245537738,"version":"3.55.0"},"reference-count":52,"publisher":"IMR Press","issue":"5","license":[{"start":{"date-parts":[[2024,5,9]],"date-time":"2024-05-09T00:00:00Z","timestamp":1715212800000},"content-version":"unspecified","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Front. Biosci. (Landmark Ed)"],"abstract":"<jats:p>Background: Listeria monocytogenes, a Gram-positive bacterium, is a prominent foodborne pathogen that causes listeriosis and poses substantial health hazards worldwide. The continuing risk of listeriosis outbreaks underlies the importance of designing an effective prevention strategy and developing a robust immune response by reverse vaccinology approaches. This study aimed to provide a critical approach for developing a potent multiepitope vaccine against this foodborne disease. Methods: A chimeric peptide construct containing 5 B-cell epitopes, 16 major histocompatibility complex I (MHC-I) epitopes, and 18 MHC-II epitopes were used to create a subunit vaccination against L. monocytogenes. The vaccine safety was evaluated by several online methods, and molecular docking was performed using ClusPro to determine the binding affinity. Immune simulation was performed using the C-ImmSimm server to demonstrate the immune response. Results: The results validated the antigenicity, non-allergenicity, and nontoxicity of the chimeric peptide construct, confirming its suitability as a subunit vaccine. Molecular docking showed a good score of 1276.5 and molecular dynamics simulations confirmed the construct\u2019s efficacy, demonstrating its promise as a good candidate for listeriosis prophylaxis. The population coverage was as high as 91.04% with a good immune response, indicating good antigen presentation with dendritic cells and production of memory cells. Conclusions: The findings of this study highlight the potential of the designed chimeric peptide construct as an effective subunit vaccine against Listeria, paving the way for future advances in preventive methods and vaccine design.<\/jats:p>","DOI":"10.31083\/j.fbl2905176","type":"journal-article","created":{"date-parts":[[2024,5,10]],"date-time":"2024-05-10T08:36:29Z","timestamp":1715330189000},"source":"Crossref","is-referenced-by-count":11,"title":["Designing a Multiepitope Vaccine against the Foodborne Pathogenic Bacteria Listeria monocytogenes Using Subtractive Immunoinformatics Approaches"],"prefix":"10.31083","volume":"29","author":[{"given":"Tariq","family":"Aziz","sequence":"first","affiliation":[{"name":"Key Laboratory of Geriatric Nutrition and Health Ministry of Education, Beijing Advanced Innovation Center for Food Nutrition and Human Health, Beijing Engineering and Technology Research Center for Food Additives, Beijing Technology and Business University, 100048 Beijing, China"},{"name":"Laboratory of Animal Health, Food Hygiene and Quality, Department of Agriculture, University of Ioannina, 47100 Arta, Greece"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Muhammad","family":"Naveed","sequence":"first","affiliation":[{"name":"Department of Biotechnology, Faculty of Science and Technology, University of Central Punjab, 54590 Lahore, Pakistan"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Muhammad Aqib","family":"Shabbir","sequence":"first","affiliation":[{"name":"Department of Biotechnology, Faculty of Science and Technology, University of Central Punjab, 54590 Lahore, Pakistan"},{"name":"Department of Biotechnology, Faculty of Biological Sciences, Lahore University of Biological & Applied Sciences, 53400 Lahore, Pakistan"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Khizra","family":"Jabeen","sequence":"first","affiliation":[{"name":"Department of Biotechnology, Faculty of Science and Technology, University of Central Punjab, 54590 Lahore, Pakistan"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ayaz Ali","family":"Khan","sequence":"first","affiliation":[{"name":"Department of Biotechnology, University of Malakand, 18800 Chakdara, Pakistan"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ammarah","family":"Hasnain","sequence":"first","affiliation":[{"name":"Department of Biotechnology, Faculty of Biological Sciences, Lahore University of Biological & Applied Sciences, 53400 Lahore, Pakistan"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhennai","family":"Yang","sequence":"first","affiliation":[{"name":"Key Laboratory of Geriatric Nutrition and Health Ministry of Education, Beijing Advanced Innovation Center for Food Nutrition and Human Health, Beijing Engineering and Technology Research Center for Food Additives, Beijing Technology and Business University, 100048 Beijing, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Abdellah","family":"Zinedine","sequence":"first","affiliation":[{"name":"BIOMARE Laboratory, Faculty of Sciences, Chouaib Doukkali University, 24000 EL Jadida, Morocco"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jo\u00e3o Miguel","family":"Rocha","sequence":"first","affiliation":[{"name":"Universidade Cat\u00f3lica Portuguesa, CBQF \u2013 Centro de Biotecnologia e Qu\u00edmica Fina \u2013 Laborat\u00f3rio Associado, Escola Superior de Biotecnologia, 4169-005 Porto, Portugal"},{"name":"LEPABE \u2013 Laboratory for Process Engineering, Environment, Biotechnology and Energy, Faculty of Engineering, University of Porto, 4200-465 Porto, Portugal"},{"name":"ALiCE \u2013 Associate Laboratory in Chemical Engineering, Faculty of Engineering, University of Porto, 4200-465 Porto, Portugal"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thamer H","family":"Albekairi","sequence":"first","affiliation":[{"name":"Department of Pharmacology and Toxicology, College of Pharmacy, King Saud University, 12572 Riyadh, Saudi Arabia"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"16242","published-online":{"date-parts":[[2024,5,9]]},"reference":[{"key":"ref1","doi-asserted-by":"crossref","unstructured":"Murray EGD, Webb RA, Swann MBR. A disease of rabbits characterised by a large mononuclear leucocytosis, caused by a hitherto undescribed bacillus Bacterium monocytogenes (n.sp.). The Journal of Pathology and Bacteriology. 1926; 29: 407\u2013439.","DOI":"10.1002\/path.1700290409"},{"key":"ref2","doi-asserted-by":"crossref","unstructured":"Osek J, Wieczorek K. Listeria monocytogenes-How This Pathogen Uses Its Virulence Mechanisms to Infect the Hosts. Pathogens. 2022; 11: 1491.","DOI":"10.3390\/pathogens11121491"},{"key":"ref3","unstructured":"Nyfeldt A. Etiologie de la mononucl\u00e9ose infectieuse. Comptes Rendus de la Soci\u00e9t\u00e9 de Biologie. 1937; 101: 590\u2013591."},{"key":"ref4","doi-asserted-by":"crossref","unstructured":"Dhama K, Karthik K, Tiwari R, Shabbir MZ, Barbuddhe S, Malik SVS, et al. Listeriosis in animals, its public health significance (food-borne zoonosis) and advances in diagnosis and control: a comprehensive review. The Veterinary Quarterly. 2015; 35: 211\u2013235.","DOI":"10.1080\/01652176.2015.1063023"},{"key":"ref5","doi-asserted-by":"crossref","unstructured":"European Food Safety Authority, European Centre for Disease Prevention and Control. The European Union One Health 2019 Zoonoses Report. EFSA Journal. 2021; 19: e06406.","DOI":"10.2903\/j.efsa.2021.6406"},{"key":"ref6","doi-asserted-by":"crossref","unstructured":"Chen M, Cheng J, Wu Q, Zhang J, Chen Y, Xue L, et al. Occurrence, Antibiotic Resistance, and Population Diversity of Listeria monocytogenes Isolated From Fresh Aquatic Products in China. Frontiers in Microbiology. 2018; 9: 2215.","DOI":"10.3389\/fmicb.2018.02215"},{"key":"ref7","doi-asserted-by":"crossref","unstructured":"Elhag M, Abdelazez A, Abdelrazik S, Abdelgadir W, Hassan R, Saad A. Immunoinformatics prediction of epitope based peptide vaccine against listeria monocytogenes fructose bisphosphate aldolase protein. BioRxiv. 2019; 649111.","DOI":"10.1101\/649111"},{"key":"ref8","doi-asserted-by":"crossref","unstructured":"Aziz T, Naveed M, Shabbir MA, Jabeen K, Tzora AS, Bonos E, et al. Revolutionizing the virulent protein Internalin a in Listeria monocytogenes and designing multi epitope-based vaccine via immunoinformatic approaches. CyTA - Journal of Food. 2024; 22: 1\u201311.","DOI":"10.1080\/19476337.2023.2296006"},{"key":"ref9","doi-asserted-by":"crossref","unstructured":"Perrin M, Bemer M, Delamare C. Fatal case of Listeria innocua bacteremia. Journal of Clinical Microbiology. 2003; 41: 5308\u20135309.","DOI":"10.1128\/JCM.41.11.5308-5309.2003"},{"key":"ref10","doi-asserted-by":"crossref","unstructured":"de Noordhout CM, Devleesschauwer B, Angulo FJ, Verbeke G, Haagsma J, Kirk M, et al. The global burden of listeriosis: a systematic review and meta-analysis. The Lancet. Infectious Diseases. 2014; 14: 1073\u20131082.","DOI":"10.1016\/S1473-3099(14)70870-9"},{"key":"ref11","doi-asserted-by":"crossref","unstructured":"Jurado RL, Farley MM, Pereira E, Harvey RC, Schuchat A, Wenger JD, et al. Increased risk of meningitis and bacteremia due to Listeria monocytogenes in patients with human immunodeficiency virus infection. Clinical Infectious Diseases. 1993; 17: 224\u2013227.","DOI":"10.1093\/clinids\/17.2.224"},{"key":"ref12","doi-asserted-by":"crossref","unstructured":"V\u00e1zquez-Boland JA, Kuhn M, Berche P, Chakraborty T, Dom\u00ednguez-Bernal G, Goebel W, et al. Listeria pathogenesis and molecular virulence determinants. Clinical Microbiology Reviews. 2001; 14: 584\u2013640.","DOI":"10.1128\/CMR.14.3.584-640.2001"},{"key":"ref13","doi-asserted-by":"crossref","unstructured":"Hilliard A, Leong D, O\u2019Callaghan A, Culligan EP, Morgan CA, DeLappe N, et al. Genomic Characterization of Listeria monocytogenes Isolates Associated with Clinical Listeriosis and the Food Production Environment in Ireland. Genes. 2018; 9: 171.","DOI":"10.3390\/genes9030171"},{"key":"ref14","doi-asserted-by":"crossref","unstructured":"Schlech WF, 3rd. Foodborne listeriosis. Clinical Infectious Diseases. 2000; 31: 770\u2013775.","DOI":"10.1086\/314008"},{"key":"ref15","doi-asserted-by":"crossref","unstructured":"Leong D, Alvarez-Ord\u00f3\u00f1ez A, Jordan K. Monitoring occurrence and persistence of Listeria monocytogenes in foods and food processing environments in the Republic of Ireland. Frontiers in Microbiology. 2014; 5: 436.","DOI":"10.3389\/fmicb.2014.00436"},{"key":"ref16","doi-asserted-by":"crossref","unstructured":"Disson O, Lecuit M. Targeting of the central nervous system by Listeria monocytogenes. Virulence. 2012; 3: 213\u2013221.","DOI":"10.4161\/viru.19586"},{"key":"ref17","doi-asserted-by":"crossref","unstructured":"Naveed M, Waseem M, Aziz T, Hassan JU, Makhdoom SI, Ali U, et al. Identification of Bacterial Strains and Development of anmRNA-Based Vaccine to Combat Antibiotic Resistance in Staphylococcus aureus via In Vitro and In Silico Approaches. Biomedicines. 2023; 11: 1039.","DOI":"10.3390\/biomedicines11041039"},{"key":"ref18","doi-asserted-by":"crossref","unstructured":"Naveed M, Ali U, Aziz T, Rasool MJ, Ijaz A, Alharbi M, et al. A reverse vaccinology approach to design an mRNA-based vaccine to provoke a robust immune response against HIV-1. Acta Biochimica Polonica. 2023; 70: 407\u2013418.","DOI":"10.18388\/abp.2020_6696"},{"key":"ref19","unstructured":"Naveed M, Hassan J, Aziz T, Ali U, Rana IK, Ali Khan A, et al. A one-health approach to design an mRNA-based vaccine candidate against the lumpy skin disease virus as an alternative to live-attenuated vaccines. European Review for Medical and Pharmacological Sciences. 2023; 27: 6401\u20136413."},{"key":"ref20","doi-asserted-by":"crossref","unstructured":"Naveed M, Mahmood S, Aziz T, Azeem A, Hussain I, Waseem M, et al. Designing a novel chimeric multi-epitope vaccine subunit against Staphylococcus argenteus through artificial intelligence approach integrating pan-genome analysis, in vitro identification, and immunogenicity profiling. Journal of Biomolecular Structure & Dynamics. 2023. (online ahead of print)","DOI":"10.1080\/07391102.2023.2256881"},{"key":"ref21","doi-asserted-by":"crossref","unstructured":"Naveed M, Ali U, Aziz T, Naveed R, Mahmood S, Khan MM, et al. An Aedes-Anopheles Vaccine Candidate Supplemented with BCG Epitopes Against the Aedes and Anopheles Genera to Overcome Hypersensitivity to Mosquito Bites. Acta Parasitologica. 2024. (online ahead of print)","DOI":"10.1007\/s11686-023-00771-1"},{"key":"ref22","doi-asserted-by":"crossref","unstructured":"Naveed M, Jabeen K, Aziz T, Mughual MS, Ul-Hassan J, Sheraz M, et al. Whole proteome analysis of MDR Klebsiella pneumoniae to identify mRNA and multiple epitope based vaccine targets against emerging nosocomial and lungs associated infections. Journal of Biomolecular Structure & Dynamics. 2023; 1\u201314.","DOI":"10.1080\/07391102.2023.2293266"},{"key":"ref23","doi-asserted-by":"crossref","unstructured":"Naveed M, Ali U, Aziz T, Jabeen K, Arif MH, Alharbi M, et al. Development and immunological evaluation of an mRNA-based vaccine targeting Naegleria fowleri for the treatment of primary amoebic meningoencephalitis. Scientific Reports. 2024; 14: 767.","DOI":"10.1038\/s41598-023-51127-8"},{"key":"ref24","doi-asserted-by":"crossref","unstructured":"Farber JM, Peterkin PI. Listeria monocytogenes, a food-borne pathogen. Microbiological Reviews. 1991; 55: 476\u2013511.","DOI":"10.1128\/MMBR.55.3.476-511.1991"},{"key":"ref25","unstructured":"Kaur N, Singh A. Multi-epitope vaccine design: A review. Biotechnology Advances. 2016; 34: 334\u2013351."},{"key":"ref26","unstructured":"Tian J, Schief WR. In-silico design of multi-epitope vaccines. Vaccine. 2008; 26: 1581\u20131588."},{"key":"ref27","unstructured":"Rizvi AH, Khan AU, Shafi A, Rizvi SA. In silico design of a novel multi-epitope vaccine against leishmaniasis. Protein & Peptide Letters. 2013; 20: 335\u2013341."},{"key":"ref28","unstructured":"Kotzamanis G, Tsirigos A, Sakellaris H, Ioannidis Y, Rizos N. In silico design of multiepitope vaccines. Expert Review of Vaccines. 2015; 14: 315\u2013328."},{"key":"ref29","unstructured":"Xu J, Chen X, Liu Y, Zhang Y, Wang X. In-silico design of a Listeria monocytogenes subunit vaccine candidate based on the conserved antigenic epitopes of the virulence-associated protein lmo0743. International Journal of Molecular Sciences. 2018; 19: 556."},{"key":"ref30","unstructured":"Sette A, Sidney J. Design of multicomponent vaccines for optimal epitope coverage. Immunity. 2014; 41: 16\u201327."},{"key":"ref31","unstructured":"Vandendriessche T, De Smet K, De Baets B. MHCnuggets 2.0: Improved In-silico prediction of MHC class I binding peptides. PLoS ONE. 2017; 12: e0171467."},{"key":"ref32","unstructured":"Bazan JF, Correia BE, Carneiro J, Carvalho PF, Freitas AA, Xavier AV, et al. In silico design of a multiepitope vaccine for Trypanosoma cruzi. PLoS Neglected Tropical Diseases. 2016; 10: e0004826."},{"key":"ref33","unstructured":"Hussain S, Rehman A, Subhani A. In-silico screening of potential vaccine candidates against Listeria monocytogenes. Scientific Reports. 2020; 10: 1\u201310."},{"key":"ref34","unstructured":"Peters B, Sette A, Lund O. NetMHCpan, a method for MHC class I binding prediction beyond HLAs. Bioinformatics. 2004; 20: 3545\u20133551."},{"key":"ref35","unstructured":"Kumar D, Vyas SP. Gaxaly Refine: A fast protein structure optimization tool. PLoS ONE. 2018; 13: e0192304."},{"key":"ref36","unstructured":"Fernandez-Recio J, Valencia A. Molecular dynamics simulations: A tool for vaccine design. Trends in Biotechnology. 2006; 24: 411\u2013418."},{"key":"ref37","unstructured":"Mak TW, Desiderio DM. Sybyl molecular modeling suite for drug design and vaccine development. Current Opinion in Biotechnology. 2018; 48: 83\u201390."},{"key":"ref38","unstructured":"Kumar R, Singh V, Kumar M. In-silico vaccine design: Current status and future perspectives. Vaccines. 2020; 8: 301."},{"key":"ref39","doi-asserted-by":"crossref","unstructured":"Naveed M, Makhdoom SI, Ali U, Jabeen K, Aziz T, Khan AA, et al. Immunoinformatics Approach to Design Multi-Epitope-Based Vaccine against Machupo Virus Taking Viral Nucleocapsid as a Potential Candidate. Vaccines. 2022; 10: 1732.","DOI":"10.3390\/vaccines10101732"},{"key":"ref40","unstructured":"Vergara-Alert J, Villanueva R. In-silico vaccine design against bacterial pathogens. Frontiers in Immunology. 2018; 9."},{"key":"ref41","unstructured":"Gomes E, Gomes A, Cardoso A. Systems vaccinology: New insights for vaccine design. Trends in Immunology. 2017; 38: 88\u201398."},{"key":"ref42","unstructured":"Higgins DG, Ragan MA, Lund O. Computational approaches to vaccine design. Vaccine. 2017; 35: 4639\u20134647."},{"key":"ref43","unstructured":"Geyer M, Kastenm\u00fcller G. Computational approaches to vaccine design. Current Opinion in Biotechnology. 2015; 32: 16\u201324."},{"key":"ref44","unstructured":"Cordero R, Cordeiro MF, Gomes P, Gomes J. Identification of vaccine targets for Listeria monocytogenes using bioinformatics approaches. Frontiers in Cellular and Infection Microbiology. 2020; 10: 554."},{"key":"ref45","unstructured":"Pe\u00f1a-Gonz\u00e1lez A, Correa-Londo\u00f1o J, Echeverry D, Osorio JE. In-silico prediction of antigenic potential of Listeria monocytogenes proteins. PLoS ONE. 2020; 15: e0229484."},{"key":"ref46","unstructured":"Dutta S, Chaudhuri B, Chatterjee R. Computational design of effective multi-antigenic vaccine formulation against Listeria monocytogenes. Vaccines. 2020; 8: 51."},{"key":"ref47","doi-asserted-by":"crossref","unstructured":"Geier DA, King PG, Hooker BS, D\u00f3rea JG, Kern JK, Sykes LK, et al. Thimerosal: clinical, epidemiologic and biochemical studies. Clinica Chimica Acta. 2015; 444: 212\u2013220.","DOI":"10.1016\/j.cca.2015.02.030"},{"key":"ref48","doi-asserted-by":"crossref","unstructured":"Naveed M, Sheraz M, Amin A, Waseem M, Aziz T, Khan AA, et al. Designing a Novel Peptide-Based Multi-Epitope Vaccine to Evoke a Robust Immune Response against Pathogenic Multidrug-Resistant Providencia heimbachae. Vaccines. 2022; 10: 1300.","DOI":"10.3390\/vaccines10081300"},{"key":"ref49","unstructured":"Liang H, Zhang Y, Jia Y, Chen Y, Li L. Computational evaluation of a novel Listeria monocytogenes vaccine candidate in mice. Computational and Structural Biotechnology Journal. 2020; 18: 663\u2013673."},{"key":"ref50","doi-asserted-by":"crossref","unstructured":"Narang P K, Dey J, Mahapatra SR, Ghosh M, Misra N, Suar M, et al. Functional annotation and sequence-structure characterization of a hypothetical protein putatively involved in carotenoid biosynthesis in microalgae. South African Journal of Botany. 2021; 141: 219\u2013226.","DOI":"10.1016\/j.sajb.2021.04.014"},{"key":"ref51","unstructured":"Tano K, Mhlanga J, Mashele SS. An In-silico approach to designing vaccines against Listeria monocytogenes. Vaccines. 2020; 8: 224."},{"key":"ref52","doi-asserted-by":"crossref","unstructured":"Sudeshna Panda S, Dey J, Mahapatra SR, Kushwaha GS, Misra N, Suar M, et al. Investigation on structural prediction of pectate lyase enzymes from different microbes and comparative docking studies with pectin: the economical waste from food industry. Geomicrobiology Journal. 2022; 39: 294\u2013305.","DOI":"10.1080\/01490451.2021.1992042"}],"container-title":["Frontiers in Bioscience-Landmark"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.imrpress.com\/journal\/FBL\/29\/5\/10.31083\/j.fbl2905176","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,11,27]],"date-time":"2024-11-27T13:54:49Z","timestamp":1732715689000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.imrpress.com\/journal\/FBL\/29\/5\/10.31083\/j.fbl2905176"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,5,9]]},"references-count":52,"journal-issue":{"issue":"5","published-print":{"date-parts":[[2024]]}},"alternative-id":["S2768-6701(24)01244-9"],"URL":"https:\/\/doi.org\/10.31083\/j.fbl2905176","relation":{},"ISSN":["2768-6701","2768-6698"],"issn-type":[{"value":"2768-6701","type":"print"},{"value":"2768-6698","type":"electronic"}],"subject":[],"published":{"date-parts":[[2024,5,9]]},"article-number":"176"}}