{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,11,5]],"date-time":"2026-11-05T03:07:40Z","timestamp":1793848060583,"version":"4.6.1"},"reference-count":81,"publisher":"Elsevier BV","issue":"3","license":[{"start":{"date-parts":[[2026,9,1]],"date-time":"2026-09-01T00:00:00Z","timestamp":1788220800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2026,9,1]],"date-time":"2026-09-01T00:00:00Z","timestamp":1788220800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2026,7,15]],"date-time":"2026-07-15T00:00:00Z","timestamp":1784073600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100010679","name":"Pasteur Institute of Iran","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100010679","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Journal of Genetic Engineering and Biotechnology"],"published-print":{"date-parts":[[2026,9]]},"DOI":"10.1016\/j.jgeb.2026.100772","type":"journal-article","created":{"date-parts":[[2026,7,28]],"date-time":"2026-07-28T21:20:18Z","timestamp":1785273618000},"page":"100772","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":1,"title":["Integrated immunoinformatics for the design of novel multi-epitope vaccine and identification of new drug targets against Stenotrophomonas maltophilia, a multidrug-resistant superbug"],"prefix":"10.1016","volume":"24","author":[{"given":"Safoura","family":"Moradkasani","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Narjes","family":"Noori Goodarzi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Masoumeh","family":"Beig","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mohammad","family":"Sholeh","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sepideh","family":"Fereshteh","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mahshid","family":"Khazani Asforooshani","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Behzad","family":"Shahbazi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shahla","family":"Shahbazi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Farzad","family":"Badmasti","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"issue":"3","key":"10.1016\/j.jgeb.2026.100772_bib411","doi-asserted-by":"crossref","first-page":"dlac040","DOI":"10.1093\/jacamr\/dlac040","article-title":"Clinical challenges treating Stenotrophomonas maltophilia infections: an update","volume":"4","author":"Mojica","year":"2022","journal-title":"JAC-antimicrobial Resistance"},{"issue":"2","key":"10.1016\/j.jgeb.2026.100772_bb0005","doi-asserted-by":"crossref","first-page":"101","DOI":"10.1016\/j.jhin.2008.05.020","article-title":"Risk factors associated with mortality of infections caused by Stenotrophomonas maltophilia: a systematic review","volume":"70","author":"Paez","year":"2008","journal-title":"J Hosp Infect"},{"key":"10.1016\/j.jgeb.2026.100772_bb0010","doi-asserted-by":"crossref","DOI":"10.1016\/j.molliq.2021.116899","article-title":"Immunoinformatics based designing and simulation of multi-epitope vaccine against multi-drug resistant Stenotrophomonas maltophilia","volume":"340","author":"Tabassum","year":"2021","journal-title":"J. Mol. Liq."},{"issue":"1","key":"10.1016\/j.jgeb.2026.100772_bb0015","doi-asserted-by":"crossref","first-page":"2","DOI":"10.1128\/CMR.00019-11","article-title":"Stenotrophomonas maltophilia: an emerging global opportunistic pathogen","volume":"25","author":"Brooke","year":"2012","journal-title":"Clin. Microbiol. Rev."},{"issue":"9","key":"10.1016\/j.jgeb.2026.100772_bb0020","doi-asserted-by":"crossref","DOI":"10.1128\/AAC.00559-20","article-title":"Activity of Cefiderocol alone and in combination with levofloxacin, minocycline, polymyxin B, or trimethoprim-sulfamethoxazole against multidrug-resistant Stenotrophomonas maltophilia","volume":"64","author":"Biagi","year":"2020","journal-title":"Antimicrob. Agents Chemother."},{"key":"10.1016\/j.jgeb.2026.100772_bb0025","doi-asserted-by":"crossref","first-page":"658","DOI":"10.3389\/fmicb.2015.00658","article-title":"Antibiotic resistance in the opportunistic pathogen Stenotrophomonas maltophilia","volume":"6","author":"S\u00e1nchez","year":"2015","journal-title":"Front. Microbiol."},{"issue":"14","key":"10.1016\/j.jgeb.2026.100772_bb0030","doi-asserted-by":"crossref","first-page":"4055","DOI":"10.1039\/c0cc05111j","article-title":"Molecular mechanisms of antibiotic resistance","volume":"47","author":"Wright","year":"2011","journal-title":"Chem. Commun. (Camb.)"},{"issue":"9","key":"10.1016\/j.jgeb.2026.100772_bb0035","doi-asserted-by":"crossref","DOI":"10.1128\/IAI.00457-19","article-title":"Stenotrophomonas maltophilia encodes a VirB\/VirD4 type IV secretion system that modulates apoptosis in human cells and promotes competition against heterologous Bacteria, including Pseudomonas aeruginosa","volume":"87","author":"Nas","year":"2019","journal-title":"Infect. Immun."},{"issue":"1","key":"10.1016\/j.jgeb.2026.100772_bb0040","doi-asserted-by":"crossref","first-page":"347","DOI":"10.1186\/s12879-018-3258-7","article-title":"Identification of immunogenic outer membrane proteins and evaluation of their protective efficacy against Stenotrophomonas maltophilia","volume":"18","author":"Xu","year":"2018","journal-title":"BMC Infect. Dis."},{"key":"10.1016\/j.jgeb.2026.100772_bb0045","article-title":"Emerging vaccine informatics","volume":"2010","author":"He","year":"2010","journal-title":"J. Biomed. Biotechnol."},{"key":"10.1016\/j.jgeb.2026.100772_bb0050","doi-asserted-by":"crossref","first-page":"1377","DOI":"10.1007\/s12010-012-9620-0","article-title":"Subtractive genomics approach to identify putative drug targets and identification of drug-like molecules for beta subunit of DNA polymerase III in Streptococcus species","volume":"167","author":"Georrge","year":"2012","journal-title":"Appl. Biochem. Biotechnol."},{"key":"10.1016\/j.jgeb.2026.100772_bb0055","doi-asserted-by":"crossref","DOI":"10.1016\/j.micpath.2022.105425","article-title":"Identification of novel putative immunogenic targets and construction of a multi-epitope vaccine against multidrug-resistant corynebacterium jeikeium using reverse vaccinology approach","volume":"164","author":"Shahbazi","year":"2022","journal-title":"Microb. Pathog."},{"key":"10.1016\/j.jgeb.2026.100772_bb0060","doi-asserted-by":"crossref","first-page":"751","DOI":"10.3389\/fimmu.2019.00751","article-title":"The development of a vaccine against meningococcus B using reverse vaccinology","volume":"10","author":"Masignani","year":"2019","journal-title":"Front. Immunol."},{"issue":"2","key":"10.1016\/j.jgeb.2026.100772_bb0065","doi-asserted-by":"crossref","first-page":"93","DOI":"10.1007\/s40203-024-00271-8","article-title":"A pan-genomic analysis based multi-epitope vaccine development by targeting Stenotrophomonas maltophilia using reverse vaccinology method: an in-silico approach","volume":"12","author":"Shovon","year":"2024","journal-title":"In Silico Pharmacol."},{"key":"10.1016\/j.jgeb.2026.100772_bb0070","doi-asserted-by":"crossref","DOI":"10.3389\/fimmu.2025.1479862","article-title":"Development of a multi-epitope vaccine from outer membrane proteins and identification of novel drug targets against Francisella tularensis: an in silico approach","volume":"16","author":"Moradkasani","year":"2025","journal-title":"Front. Immunol."},{"issue":"1","key":"10.1016\/j.jgeb.2026.100772_bb0075","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1586\/14787210.2014.864553","article-title":"New strategies against Stenotrophomonas maltophilia: a serious worldwide intrinsically drug-resistant opportunistic pathogen","volume":"12","author":"Brooke","year":"2014","journal-title":"Expert Rev. Anti-Infect. Ther."},{"key":"10.1016\/j.jgeb.2026.100772_bb0080","doi-asserted-by":"crossref","DOI":"10.3389\/fmicb.2015.00893","article-title":"Update on infections caused by Stenotrophomonas maltophilia with particular attention to resistance mechanisms and therapeutic options","volume":"6","author":"Chang","year":"2015","journal-title":"Front. Microbiol."},{"issue":"32","key":"10.1016\/j.jgeb.2026.100772_bb0090","doi-asserted-by":"crossref","first-page":"e00628","DOI":"10.1128\/MRA.00628-20","article-title":"Complete genome sequence of Stenotrophomonas maltophilia strain CF13, recovered from sputum from an Australian cystic fibrosis patient","volume":"9","author":"Hamidian","year":"2020","journal-title":"Microbiol Resour Announc"},{"issue":"1","key":"10.1016\/j.jgeb.2026.100772_bb0095","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/1471-2105-8-4","article-title":"VaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines","volume":"8","author":"Doytchinova","year":"2007","journal-title":"BMC bioinformatics"},{"issue":"4","key":"10.1016\/j.jgeb.2026.100772_bb0100","doi-asserted-by":"crossref","DOI":"10.1093\/bib\/bbaa294","article-title":"AlgPred 2.0: an improved method for predicting allergenic proteins and mapping of IgE epitopes","volume":"22","author":"Sharma","year":"2021","journal-title":"Brief. Bioinform."},{"issue":"6","key":"10.1016\/j.jgeb.2026.100772_bb0105","doi-asserted-by":"crossref","first-page":"1547","DOI":"10.1093\/molbev\/msy096","article-title":"MEGA X: molecular evolutionary genetics analysis across computing platforms","volume":"35","author":"Kumar","year":"2018","journal-title":"Mol. Biol. Evol."},{"issue":"3","key":"10.1016\/j.jgeb.2026.100772_bb0110","doi-asserted-by":"crossref","DOI":"10.1002\/pro.4582","article-title":"Using evolutionary data to make sense of macromolecules with a \"face-lifted\" ConSurf","volume":"32","author":"Yariv","year":"2023","journal-title":"Protein Sci."},{"issue":"12","key":"10.1016\/j.jgeb.2026.100772_bb0115","doi-asserted-by":"crossref","DOI":"10.1002\/pro.4497","article-title":"BepiPred-3.0: improved B-cell epitope prediction using protein language models","volume":"31","author":"Clifford","year":"2022","journal-title":"Protein Sci."},{"issue":"1","key":"10.1016\/j.jgeb.2026.100772_bb0120","doi-asserted-by":"crossref","first-page":"18.19. 1","DOI":"10.1002\/cpim.12","article-title":"TepiTool: a pipeline for computational prediction of T cell epitope candidates","volume":"114","author":"Paul","year":"2016","journal-title":"Curr. Protoc. Immunol."},{"issue":"W1","key":"10.1016\/j.jgeb.2026.100772_bb0125","doi-asserted-by":"crossref","first-page":"W502","DOI":"10.1093\/nar\/gkz452","article-title":"IEDB-AR: immune epitope database\u2014analysis resource in 2019","volume":"47","author":"Dhanda","year":"2019","journal-title":"Nucleic Acids Res."},{"issue":"13","key":"10.1016\/j.jgeb.2026.100772_bb0130","doi-asserted-by":"crossref","first-page":"3381","DOI":"10.1093\/nar\/gkg520","article-title":"SWISS-MODEL: an automated protein homology-modeling server","volume":"31","author":"Schwede","year":"2003","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.jgeb.2026.100772_bb0135","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1155\/2014\/752656","article-title":"Recognition of errors in the refinement and validation of three-dimensional structures of AC1 proteins of begomovirus strains by using ProSA-web","volume":"2014","author":"Prajapat","year":"2014","journal-title":"Journal of Viruses"},{"key":"10.1016\/j.jgeb.2026.100772_bb0140","unstructured":"Dym, O., D. Eisenberg, And T. Yeates, ERRAT. 2012."},{"key":"10.1016\/j.jgeb.2026.100772_bb0145","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/1471-2105-9-514","article-title":"ElliPro: a new structure-based tool for the prediction of antibody epitopes","volume":"9","author":"Ponomarenko","year":"2008","journal-title":"BMC Bioinformatics"},{"issue":"1","key":"10.1016\/j.jgeb.2026.100772_bb0150","doi-asserted-by":"crossref","first-page":"42","DOI":"10.1016\/S1672-0229(06)60015-6","article-title":"VICMpred: an SVM-based method for the prediction of functional proteins of gram-negative bacteria using amino acid patterns and composition","volume":"4","author":"Saha","year":"2006","journal-title":"Genomics Proteomics Bioinformatics"},{"issue":"Database issue","key":"10.1016\/j.jgeb.2026.100772_bb0155","doi-asserted-by":"crossref","first-page":"D222","DOI":"10.1093\/nar\/gku1221","article-title":"CDD: NCBI\u2019s conserved domain database","volume":"43","author":"Marchler-Bauer","year":"2015","journal-title":"Nucleic Acids Res."},{"issue":"D1","key":"10.1016\/j.jgeb.2026.100772_bb0160","doi-asserted-by":"crossref","first-page":"D309","DOI":"10.1093\/nar\/gky1085","article-title":"eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses","volume":"47","author":"Huerta-Cepas","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.jgeb.2026.100772_bb0165","first-page":"18","article-title":"Allele frequencies of HLA class-I loci in the normal Iranian population","author":"Ghashghaie","year":"2009","journal-title":"Int J Hematol Oncol Stem Cell Res"},{"key":"10.1016\/j.jgeb.2026.100772_bb0170","article-title":"Designing multi-epitope vaccine against Staphylococcus aureus by employing subtractive proteomics, reverse vaccinology and immuno-informatics approaches","volume":"132","author":"ul Qamar","year":"2021","journal-title":"Comput. Biol. Med."},{"key":"10.1016\/j.jgeb.2026.100772_bb0175","article-title":"In silico design of a multi-epitope vaccine against Mycobacterium avium subspecies paratuberculosis","volume":"16","author":"Guo","year":"2025","journal-title":"Front. Immunol."},{"issue":"W1","key":"10.1016\/j.jgeb.2026.100772_bb0180","doi-asserted-by":"crossref","first-page":"W402","DOI":"10.1093\/nar\/gkz297","article-title":"The PSIPRED protein analysis workbench: 20 years on","volume":"47","author":"Buchan","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.jgeb.2026.100772_bb0190","series-title":"AllerTOP-a server for in silico prediction of allergens. In BMC bioinformatics","author":"Dimitrov","year":"2013"},{"issue":"19","key":"10.1016\/j.jgeb.2026.100772_bb0195","doi-asserted-by":"crossref","first-page":"3098","DOI":"10.1093\/bioinformatics\/btx345","article-title":"Protein-sol: a web tool for predicting protein solubility from sequence","volume":"33","author":"Hebditch","year":"2017","journal-title":"Bioinformatics"},{"key":"10.1016\/j.jgeb.2026.100772_bb0200","first-page":"531","article-title":"Protein identification and analysis tools in the ExPASy server","volume":"112","author":"Wilkins","year":"1999","journal-title":"Methods Mol. Biol."},{"issue":"8","key":"10.1016\/j.jgeb.2026.100772_bb0205","doi-asserted-by":"crossref","first-page":"1182","DOI":"10.1136\/gut.2004.062794","article-title":"Bacterial interactions with cells of the intestinal mucosa: toll-like receptors and NOD2","volume":"54","author":"Cario","year":"2005","journal-title":"Gut"},{"issue":"4","key":"10.1016\/j.jgeb.2026.100772_bb0210","doi-asserted-by":"crossref","first-page":"625","DOI":"10.1016\/S1567-5769(01)00010-8","article-title":"Toll-like receptors; their physiological role and signal transduction system","volume":"1","author":"Takeuchi","year":"2001","journal-title":"Int. Immunopharmacol."},{"issue":"5","key":"10.1016\/j.jgeb.2026.100772_bb0215","doi-asserted-by":"crossref","first-page":"1829","DOI":"10.1038\/s41596-020-0312-x","article-title":"The HDOCK server for integrated protein\u2013protein docking","volume":"15","author":"Yan","year":"2020","journal-title":"Nat. Protoc."},{"issue":"1","key":"10.1016\/j.jgeb.2026.100772_bb0220","doi-asserted-by":"crossref","first-page":"221","DOI":"10.1093\/nar\/29.1.221","article-title":"PDBsum: summaries and analyses of PDB structures","volume":"29","author":"Laskowski","year":"2001","journal-title":"Nucleic Acids Res."},{"issue":"4","key":"10.1016\/j.jgeb.2026.100772_bb0225","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0009862","article-title":"Computational immunology meets bioinformatics: the use of prediction tools for molecular binding in the simulation of the immune system","volume":"5","author":"Rapin","year":"2010","journal-title":"PLoS One"},{"key":"10.1016\/j.jgeb.2026.100772_bb0230","doi-asserted-by":"crossref","first-page":"41","DOI":"10.3389\/fbioe.2014.00041","article-title":"Computational tools and algorithms for designing customized synthetic genes","volume":"2","author":"Gould","year":"2014","journal-title":"Frontiers in bioengineering and biotechnology"},{"issue":"6","key":"10.1016\/j.jgeb.2026.100772_bb0235","doi-asserted-by":"crossref","first-page":"2550","DOI":"10.1021\/ct501090y","article-title":"Targeting electrostatic interactions in accelerated molecular dynamics with application to protein partial unfolding","volume":"11","author":"Flores-Canales","year":"2015","journal-title":"J. Chem. Theory Comput."},{"issue":"10","key":"10.1016\/j.jgeb.2026.100772_bb0240","doi-asserted-by":"crossref","first-page":"6281","DOI":"10.1021\/acs.jctc.1c00645","article-title":"gmx_MMPBSA: a new tool to perform end-state free energy calculations with GROMACS","volume":"17","author":"Vald\u00e9s-Tresanco","year":"2021","journal-title":"J. Chem. Theory Comput."},{"issue":"1","key":"10.1016\/j.jgeb.2026.100772_bb0245","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1002\/humu.20801","article-title":"MITOMASTER: a bioinformatics tool for the analysis of mitochondrial DNA sequences","volume":"30","author":"Brandon","year":"2009","journal-title":"Hum. Mutat."},{"issue":"D1","key":"10.1016\/j.jgeb.2026.100772_bb0250","doi-asserted-by":"crossref","first-page":"D574","DOI":"10.1093\/nar\/gkt1131","article-title":"DEG 10, an update of the database of essential genes that includes both protein-coding genes and noncoding genomic elements","volume":"42","author":"Luo","year":"2014","journal-title":"Nucleic Acids Res."},{"issue":"1","key":"10.1016\/j.jgeb.2026.100772_bb0255","doi-asserted-by":"crossref","first-page":"27","DOI":"10.1093\/nar\/28.1.27","article-title":"KEGG: Kyoto encyclopedia of genes and genomes","volume":"28","author":"Kanehisa","year":"2000","journal-title":"Nucleic Acids Res."},{"issue":"1","key":"10.1016\/j.jgeb.2026.100772_bb0260","doi-asserted-by":"crossref","first-page":"47","DOI":"10.1016\/j.ygeno.2013.04.011","article-title":"Putative drug and vaccine target protein identification using comparative genomic analysis of KEGG annotated metabolic pathways of mycoplasma hyopneumoniae","volume":"102","author":"Damte","year":"2013","journal-title":"Genomics"},{"issue":"D1","key":"10.1016\/j.jgeb.2026.100772_bb0265","doi-asserted-by":"crossref","first-page":"D1074","DOI":"10.1093\/nar\/gkx1037","article-title":"DrugBank 5.0: a major update to the DrugBank database for 2018","volume":"46","author":"Wishart","year":"2018","journal-title":"Nucleic Acids Res."},{"issue":"7164","key":"10.1016\/j.jgeb.2026.100772_bb0270","doi-asserted-by":"crossref","first-page":"804","DOI":"10.1038\/nature06244","article-title":"The human microbiome project","volume":"449","author":"Turnbaugh","year":"2007","journal-title":"Nature"},{"issue":"D1","key":"10.1016\/j.jgeb.2026.100772_bb0275","doi-asserted-by":"crossref","first-page":"D607","DOI":"10.1093\/nar\/gky1131","article-title":"STRING v11: protein\u2013protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets","volume":"47","author":"Szklarczyk","year":"2019","journal-title":"Nucleic Acids Res."},{"issue":"2","key":"10.1016\/j.jgeb.2026.100772_bb0280","doi-asserted-by":"crossref","first-page":"284","DOI":"10.1016\/j.jtbi.2009.09.029","article-title":"Protein interaction network analysis\u2014approach for potential drug target identification in mycobacterium tuberculosis","volume":"262","author":"Kushwaha","year":"2010","journal-title":"J. Theor. Biol."},{"issue":"9","key":"10.1016\/j.jgeb.2026.100772_bb0285","doi-asserted-by":"crossref","first-page":"557","DOI":"10.1016\/S0923-2508(02)01368-2","article-title":"Role of the RNA polymerase sigma subunit in transcription initiation","volume":"153","author":"Borukhov","year":"2002","journal-title":"Res. Microbiol."},{"issue":"suppl_1","key":"10.1016\/j.jgeb.2026.100772_bb0290","doi-asserted-by":"crossref","first-page":"D271","DOI":"10.1093\/nar\/gkh024","article-title":"DEG: a database of essential genes","volume":"32","author":"Zhang","year":"2004","journal-title":"Nucleic Acids Res."},{"issue":"7","key":"10.1016\/j.jgeb.2026.100772_bb0295","doi-asserted-by":"crossref","first-page":"740","DOI":"10.1038\/77305","article-title":"TnAraOut, a transposon-based approach to identify and characterize essential bacterial genes","volume":"18","author":"Judson","year":"2000","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.jgeb.2026.100772_bb0300","doi-asserted-by":"crossref","first-page":"719","DOI":"10.1007\/s10096-009-0709-5","article-title":"Community-acquired Stenotrophomonas maltophilia infections: a systematic review","volume":"28","author":"Falagas","year":"2009","journal-title":"Eur. J. Clin. Microbiol. Infect. Dis."},{"key":"10.1016\/j.jgeb.2026.100772_bb0305","doi-asserted-by":"crossref","DOI":"10.1016\/j.compbiomed.2021.104412","article-title":"Genome-wide screening of vaccine targets prioritization and reverse vaccinology aided design of peptides vaccine to enforce humoral immune response against campylobacter jejuni","volume":"133","author":"Zeb","year":"2021","journal-title":"Comput. Biol. Med."},{"issue":"4","key":"10.1016\/j.jgeb.2026.100772_bb0310","doi-asserted-by":"crossref","first-page":"661","DOI":"10.1128\/CMR.00043-12","article-title":"Adaptive and mutational resistance: role of porins and efflux pumps in drug resistance","volume":"25","author":"Fern\u00e1ndez","year":"2012","journal-title":"Clin. Microbiol. Rev."},{"issue":"9","key":"10.1016\/j.jgeb.2026.100772_bb0315","doi-asserted-by":"crossref","first-page":"1987","DOI":"10.1093\/jac\/dkt148","article-title":"Role of the pcm-tolCsm operon in the multidrug resistance of Stenotrophomonas maltophilia","volume":"68","author":"Huang","year":"2013","journal-title":"J. Antimicrob. Chemother."},{"key":"10.1016\/j.jgeb.2026.100772_bb0320","doi-asserted-by":"crossref","first-page":"87","DOI":"10.1016\/j.biologicals.2017.08.004","article-title":"Towards a peptide-based vaccine against shigella sonnei: a subtractive reverse vaccinology based approach","volume":"50","author":"Baseer","year":"2017","journal-title":"Biologicals"},{"key":"10.1016\/j.jgeb.2026.100772_bb0325","doi-asserted-by":"crossref","DOI":"10.3389\/fmicb.2020.625315","article-title":"Identification of Vibrio parahaemolyticus and Vibrio Spp. specific outer membrane proteins by reverse vaccinology and surface proteome","volume":"11","author":"Wang","year":"2021","journal-title":"Front. Microbiol."},{"issue":"1","key":"10.1016\/j.jgeb.2026.100772_bb0330","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/s12879-018-3258-7","article-title":"Identification of immunogenic outer membrane proteins and evaluation of their protective efficacy against Stenotrophomonas maltophilia","volume":"18","author":"Xu","year":"2018","journal-title":"BMC Infect. Dis."},{"issue":"4","key":"10.1016\/j.jgeb.2026.100772_bb0335","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0214596","article-title":"Intranasal immunization with recombinant outer membrane protein a induces protective immune response against Stenotrophomonas maltophilia infection","volume":"14","author":"Li","year":"2019","journal-title":"PLoS One"},{"issue":"2","key":"10.1016\/j.jgeb.2026.100772_bb0340","doi-asserted-by":"crossref","first-page":"177","DOI":"10.1038\/nsmb.3350","article-title":"Structural insights into the secretin translocation channel in the type II secretion system","volume":"24","author":"Yan","year":"2017","journal-title":"Nat. Struct. Mol. Biol."},{"issue":"9","key":"10.1016\/j.jgeb.2026.100772_bb0345","doi-asserted-by":"crossref","first-page":"625","DOI":"10.1046\/j.1462-5822.2003.00306.x","article-title":"Fimbriae and adherence of Stenotrophomonas maltophilia to epithelial cells and to abiotic surfaces","volume":"5","author":"de Oliveira-Garcia","year":"2003","journal-title":"Cell. Microbiol."},{"issue":"5","key":"10.1016\/j.jgeb.2026.100772_bb0350","doi-asserted-by":"crossref","first-page":"2044","DOI":"10.1128\/jb.169.5.2044-2049.1987","article-title":"Ferric-coprogen receptor FhuE of Escherichia coli: processing and sequence common to all TonB-dependent outer membrane receptor proteins","volume":"169","author":"Sauer","year":"1987","journal-title":"J. Bacteriol."},{"key":"10.1016\/j.jgeb.2026.100772_bb0355","doi-asserted-by":"crossref","first-page":"432","DOI":"10.1038\/s42003-019-0676-z","article-title":"A TonB-dependent receptor constitutes the outer membrane transport system for a lignin-derived aromatic compound","volume":"2","author":"Fujita","year":"2019","journal-title":"Commun Biol"},{"issue":"4","key":"10.1016\/j.jgeb.2026.100772_bb0360","doi-asserted-by":"crossref","first-page":"426","DOI":"10.1134\/S0006297919040102","article-title":"The \u03c3(24) subunit of Escherichia coli RNA polymerase can induce transcriptional pausing in vitro","volume":"84","author":"Shikalov","year":"2019","journal-title":"Biochemistry (Mosc)"},{"issue":"8","key":"10.1016\/j.jgeb.2026.100772_bb0365","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0104351","article-title":"A potential protein adjuvant derived from mycobacterium tuberculosis Rv0652 enhances dendritic cells-based tumor immunotherapy","volume":"9","author":"Lee","year":"2014","journal-title":"PLoS One"},{"issue":"3","key":"10.1016\/j.jgeb.2026.100772_bb0370","doi-asserted-by":"crossref","DOI":"10.5808\/gi.23021","article-title":"Multi-epitope vaccine against drug-resistant strains of mycobacterium tuberculosis: a proteome-wide subtraction and immunoinformatics approach","volume":"21","author":"Khan","year":"2023","journal-title":"Genomics Inform"},{"issue":"5","key":"10.1016\/j.jgeb.2026.100772_bb0375","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0252295","article-title":"Comparative proteomic analysis to annotate the structural and functional association of the hypothetical proteins of S. Maltophilia k279a and predict potential T and B cell targets for vaccination","volume":"16","author":"Ezaj","year":"2021","journal-title":"PLoS One"},{"issue":"2","key":"10.1016\/j.jgeb.2026.100772_bb0380","doi-asserted-by":"crossref","first-page":"275","DOI":"10.1189\/jlb.0909619","article-title":"Phagosomal retention of Francisella tularensis results in TIRAP\/mal-independent TLR2 signaling","volume":"87","author":"Cole","year":"2010","journal-title":"J. Leukoc. Biol."},{"issue":"6","key":"10.1016\/j.jgeb.2026.100772_bb0385","doi-asserted-by":"crossref","first-page":"2466","DOI":"10.1128\/IAI.01391-09","article-title":"Role of excessive inflammatory response to Stenotrophomonas maltophilia lung infection in DBA\/2 mice and implications for cystic fibrosis","volume":"78","author":"Di Bonaventura","year":"2010","journal-title":"Infect. Immun."},{"issue":"5","key":"10.1016\/j.jgeb.2026.100772_bb0390","doi-asserted-by":"crossref","first-page":"635","DOI":"10.1164\/rccm.201009-1392OC","article-title":"Stenotrophomonas maltophilia in cystic fibrosis: serologic response and effect on lung disease","volume":"183","author":"Waters","year":"2011","journal-title":"Am. J. Respir. Crit. Care Med."},{"issue":"6","key":"10.1016\/j.jgeb.2026.100772_bb0395","doi-asserted-by":"crossref","first-page":"628","DOI":"10.1097\/MCP.0b013e328358d4f8","article-title":"Stenotrophomonas maltophilia: to be or not to be a cystic fibrosis pathogen","volume":"18","author":"Hansen","year":"2012","journal-title":"Curr. Opin. Pulm. Med."},{"key":"10.1016\/j.jgeb.2026.100772_bb0400","doi-asserted-by":"crossref","DOI":"10.3389\/fmicb.2017.01511","article-title":"Editorial: a multidisciplinary look at Stenotrophomonas maltophilia: an emerging multi-drug-resistant global opportunistic pathogen","volume":"8","author":"Brooke","year":"2017","journal-title":"Front. Microbiol."},{"issue":"2","key":"10.1016\/j.jgeb.2026.100772_bb0405","doi-asserted-by":"crossref","first-page":"191","DOI":"10.1111\/j.1574-695X.2012.00999.x","article-title":"Stenotrophomonas maltophilia flagellin restricts bacterial colonization in BALB\/c mouse lung in vivo","volume":"66","author":"Zgair","year":"2012","journal-title":"FEMS Immunol. Med. Microbiol."},{"issue":"12","key":"10.1016\/j.jgeb.2026.100772_bb0410","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0261111","article-title":"Subtractive genomics and molecular docking approach to identify drug targets against Stenotrophomonas maltophilia","volume":"16","author":"Saleem","year":"2021","journal-title":"PLoS One"}],"container-title":["Journal of Genetic Engineering and Biotechnology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1687157X26001162?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1687157X26001162?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2026,9,16]],"date-time":"2026-09-16T11:49:10Z","timestamp":1789559350000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S1687157X26001162"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,9]]},"references-count":81,"journal-issue":{"issue":"3","published-print":{"date-parts":[[2026,9]]}},"alternative-id":["S1687157X26001162"],"URL":"https:\/\/doi.org\/10.1016\/j.jgeb.2026.100772","relation":{},"ISSN":["1687-157X"],"issn-type":[{"value":"1687-157X","type":"print"}],"subject":[],"published":{"date-parts":[[2026,9]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Integrated immunoinformatics for the design of novel multi-epitope vaccine and identification of new drug targets against Stenotrophomonas maltophilia, a multidrug-resistant superbug","name":"articletitle","label":"Article Title"},{"value":"Journal of Genetic Engineering and Biotechnology","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.jgeb.2026.100772","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2026 The Authors. Published by Elsevier Inc. on behalf of Academy of Scientific Research and Technology.","name":"copyright","label":"Copyright"}],"article-number":"100772"}}