{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,20]],"date-time":"2026-09-20T05:31:41Z","timestamp":1789882301515,"version":"4.0.1"},"reference-count":85,"publisher":"MDPI AG","issue":"12","license":[{"start":{"date-parts":[[2025,11,26]],"date-time":"2025-11-26T00:00:00Z","timestamp":1764115200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Russian state-funded project","award":["125012300671-8"],"award-info":[{"award-number":["125012300671-8"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Viruses"],"abstract":"<jats:p>Monkeypox virus (MPXV), which previously caused mainly zoonotic infections, is currently the causative agent of the mpox outbreak that began in 2022. Since the mpox outbreak is characterized by sustained human-to-human transmission, the evolutionary trajectory of MPXV is an important scientific issue. The prevailing hypothesis suggests that the modern orthopoxviruses originated from cowpox-like ancestors with larger genomes that infected a wide range of hosts. Subsequent evolution included the reduction of the genome and the accumulation of substitutions in key proteins. Molecular dating of MPXV evolution revealed 5\u20136-fold acceleration in the evolutionary rate that was observed in subclade IIb after 2018, reaching 1.8 \u00d7 10\u22125 substitutions\/site\/year, likely due to virus\u2019 adaptation to humans. The origin of MPXV from its precursor was primarily driven by the accumulation of non-synonymous substitutions in the key host range genes, including those associated with the protein inhibiting host protein synthesis (OPG173) and host immune evasion (OPG027). The subsequent divergence of MPXV into clades I and II largely depended on mutations in the gene encoding the Bcl-2-like protein. Finally, the division of clade II into subclades IIa and IIb was facilitated by further non-synonymous substitutions in the soluble interferon alpha\/beta receptor and hemagglutinin genes.<\/jats:p>","DOI":"10.3390\/v17121549","type":"journal-article","created":{"date-parts":[[2025,11,27]],"date-time":"2025-11-27T10:25:16Z","timestamp":1764239116000},"page":"1549","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":4,"title":["Molecular Aspects of the Emergence of Monkeypox Virus Clades"],"prefix":"10.3390","volume":"17","author":[{"given":"Igor V.","family":"Babkin","sequence":"first","affiliation":[{"name":"Laboratory of Molecular Microbiology, Institute of Chemical Biology and Fundamental Medicine Siberian Branch of the Russian Academy of Sciences, Novosibirsk 630090, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Irina N.","family":"Babkina","sequence":"additional","affiliation":[{"name":"AO Vector-Best, Novosibirsk 630117, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nina V.","family":"Tikunova","sequence":"additional","affiliation":[{"name":"Laboratory of Molecular Microbiology, Institute of Chemical Biology and Fundamental Medicine Siberian Branch of the Russian Academy of Sciences, Novosibirsk 630090, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2025,11,26]]},"reference":[{"key":"ref_1","unstructured":"Knipe, D.M., and Howley, P.M. (2013). Poxviridae. Fields Virology, Lippincott Williams & Wilkins."},{"key":"ref_2","first-page":"1603","article-title":"Monkeypox","volume":"400","author":"Ogoina","year":"2022","journal-title":"Lancet"},{"key":"ref_3","doi-asserted-by":"crossref","unstructured":"Happi, C., Adetifa, I., Mbala, P., Njouom, R., Nakoune, E., Happi, A., Ndodo, N., Ayansola, O., Mboowa, G., and Bedford, T. (2022). Urgent Need for a Non-Discriminatory and Non-Stigmatizing Nomenclature for Monkeypox Virus. PLoS Biol., 20.","DOI":"10.1371\/journal.pbio.3001769"},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1128\/br.37.1.1-18.1973","article-title":"Monkeypox Virus","volume":"37","author":"Cho","year":"1973","journal-title":"Bacteriol. Rev."},{"key":"ref_5","unstructured":"Shchelkunov, S.N., Marennikova, S.S., and Moyer, R.W. (2005). Orthopoxviruses Pathogenic for Humans, Springer."},{"key":"ref_6","doi-asserted-by":"crossref","first-page":"156","DOI":"10.1111\/j.1699-0463.1959.tb00328.x","article-title":"A Pox-like Disease in Cynomolgus Monkeys","volume":"46","author":"Andersen","year":"1959","journal-title":"Acta Pathol. Microbiol. Scand."},{"key":"ref_7","first-page":"599","article-title":"Isolation and Properties of the Causal Agent of a New Variola-like Disease (Monkeypox) in Man","volume":"46","author":"Marennikova","year":"1972","journal-title":"Bull. World Health Organ."},{"key":"ref_8","first-page":"593","article-title":"A Human Infection Caused by Monkeypox Virus in Basankusu Territory, Democratic Republic of the Congo","volume":"46","author":"Ladnyj","year":"1972","journal-title":"Bull. World Health Organ."},{"key":"ref_9","doi-asserted-by":"crossref","first-page":"7565","DOI":"10.1128\/jvi.66.12.7565-7567.1992","article-title":"Independent Evolution of Monkeypox and Variola Viruses","volume":"66","author":"Douglass","year":"1992","journal-title":"J. Virol."},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"230","DOI":"10.1016\/0042-6822(85)90111-4","article-title":"Orthopoxvirus DNA: A Comparison of Restriction Profiles and Maps","volume":"143","author":"Esposito","year":"1985","journal-title":"Virology"},{"key":"ref_11","doi-asserted-by":"crossref","first-page":"172","DOI":"10.1006\/viro.2002.1446","article-title":"Analysis of the Monkeypox Virus Genome","volume":"297","author":"Shchelkunov","year":"2002","journal-title":"Virology"},{"key":"ref_12","doi-asserted-by":"crossref","first-page":"66","DOI":"10.1016\/S0014-5793(01)03144-1","article-title":"Human Monkeypox and Smallpox Viruses: Genomic Comparison","volume":"509","author":"Shchelkunov","year":"2001","journal-title":"FEBS Lett."},{"key":"ref_13","doi-asserted-by":"crossref","unstructured":"Esteban, D.J., and Hutchinson, A.P. (2011). Genes in the Terminal Regions of Orthopoxvirus Genomes Experience Adaptive Molecular Evolution. BMC Genomics., 12.","DOI":"10.1186\/1471-2164-12-261"},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"105","DOI":"10.1016\/j.virusres.2006.01.016","article-title":"Poxviruses: Past, Present and Future","volume":"117","author":"Lefkowitz","year":"2006","journal-title":"Virus Res."},{"key":"ref_15","doi-asserted-by":"crossref","first-page":"1303","DOI":"10.1099\/0022-1317-75-6-1303","article-title":"Evidence for Recent Genetic Variation in Monkeypox Viruses","volume":"75","author":"Douglass","year":"1994","journal-title":"J. Gen. Virol."},{"key":"ref_16","doi-asserted-by":"crossref","first-page":"2661","DOI":"10.1099\/vir.0.81215-0","article-title":"A Tale of Two Clades: Monkeypox Viruses","volume":"86","author":"Likos","year":"2005","journal-title":"J. Gen. Virol."},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"2791","DOI":"10.1038\/s41591-024-03130-3","article-title":"Sustained Human Outbreak of a New MPXV Clade I Lineage in Eastern Democratic Republic of the Congo","volume":"30","author":"Vakaniaki","year":"2024","journal-title":"Nat. Med."},{"key":"ref_18","first-page":"2400592","article-title":"Co-circulation of Monkeypox Virus Subclades Ia and Ib in Kinshasa Province, Democratic Republic of the Congo, July to August 2024","volume":"29","author":"Lokilo","year":"2024","journal-title":"Euro Surveill."},{"key":"ref_19","doi-asserted-by":"crossref","unstructured":"Bunge, E.M., Hoet, B., Chen, L., Lienert, F., Weidenthaler, H., Baer, L.R., and Steffen, R. (2022). The Changing Epidemiology of Human Monkeypox\u2014A Potential Threat? A Systematic Review. PLoS Neglected Trop. Dis., 16.","DOI":"10.1371\/journal.pntd.0010141"},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"e2220415120","DOI":"10.1073\/pnas.2220415120","article-title":"Virulence Differences of Mpox (Monkeypox) Virus Clades I, IIa, and IIb.1 in a Small Animal Model","volume":"120","author":"Americo","year":"2023","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_21","doi-asserted-by":"crossref","unstructured":"Alakunle, E., Kolawole, D., Diaz-Canova, D., Alele, F., Adegboye, O., Moens, U., and Okeke, M.I. (2024). A Comprehensive Review of Monkeypox Virus and Mpox Characteristics. Front. Cell. Infect. Microbiol., 14.","DOI":"10.3389\/fcimb.2024.1360586"},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"476","DOI":"10.1007\/s10393-019-01435-1","article-title":"Temporal and Spatial Dynamics of Monkeypox in Democratic Republic of Congo, 2000\u20132015","volume":"16","author":"Mandja","year":"2019","journal-title":"EcoHealth"},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"293","DOI":"10.1093\/infdis\/156.2.293","article-title":"Human Monkeypox: Clinical Features of 282 Patients","volume":"156","author":"Jezek","year":"1987","journal-title":"J. Infect. Dis."},{"key":"ref_24","doi-asserted-by":"crossref","first-page":"872","DOI":"10.1016\/S1473-3099(19)30294-4","article-title":"Outbreak of Human Monkeypox in Nigeria in 2017\u201318: A Clinical and Epidemiological Report","volume":"19","author":"Aruna","year":"2019","journal-title":"Lancet Infect. Dis."},{"key":"ref_25","doi-asserted-by":"crossref","first-page":"342","DOI":"10.1056\/NEJMoa032299","article-title":"The Detection of Monkeypox in Humans in the Western Hemisphere","volume":"350","author":"Reed","year":"2004","journal-title":"N. Engl. J. Med."},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"1742","DOI":"10.1086\/498115","article-title":"Clinical Characteristics of Human Monkeypox, and Risk Factors for Severe Disease","volume":"41","author":"Huhn","year":"2005","journal-title":"Clin. Infect. Dis."},{"key":"ref_27","doi-asserted-by":"crossref","first-page":"980","DOI":"10.3201\/eid2505.190076","article-title":"Diagnosis of Imported Monkeypox, Israel, 2018","volume":"25","author":"Erez","year":"2019","journal-title":"Emerg. Infect. Dis."},{"key":"ref_28","doi-asserted-by":"crossref","first-page":"1639","DOI":"10.1126\/science.300.5626.1639a","article-title":"Infectious diseases. U.S. monkeypox outbreak traced to Wisconsin pet dealer","volume":"300","author":"Enserink","year":"2003","journal-title":"Science"},{"key":"ref_29","doi-asserted-by":"crossref","unstructured":"Song, Y., Yan, Y., Xu, J., Lv, S., Ren, G., Zhou, Y., Song, W., Ge, R., Xu, P., and Zhu, G. (2025). Complete Genome Sequence Analysis of the First Imported Mpox Virus Clade Ib Variant in China. Pathogens, 14.","DOI":"10.3390\/pathogens14010102"},{"key":"ref_30","first-page":"13","article-title":"Susceptibility of Some Rodent Species to Monkeypox Virus, and Course of the Infection","volume":"53","author":"Marennikova","year":"1976","journal-title":"Bull. World Health Organ."},{"key":"ref_31","doi-asserted-by":"crossref","unstructured":"Doty, J.B., Malekani, J.M., Kalemba, L.N., Stanley, W.T., Monroe, B.P., Nakazawa, Y.U., Mauldin, M.R., Bakambana, T.L., Liyandja Dja Liyandja, T., and Braden, Z.H. (2017). Assessing Monkeypox Virus Prevalence in Small Mammals at the Human\u2013Animal Interface in the Democratic Republic of the Congo. Viruses, 9.","DOI":"10.3390\/v9100283"},{"key":"ref_32","doi-asserted-by":"crossref","first-page":"17","DOI":"10.2217\/17460913.2.1.17","article-title":"Human Monkeypox: An Emerging Zoonotic Disease","volume":"2","author":"Parker","year":"2007","journal-title":"Future Microbiol."},{"key":"ref_33","doi-asserted-by":"crossref","first-page":"638","DOI":"10.2471\/BLT.19.242347","article-title":"Modelling Human-to-Human Transmission of Monkeypox","volume":"98","author":"Grant","year":"2020","journal-title":"Bull. World Health Organ."},{"key":"ref_34","doi-asserted-by":"crossref","unstructured":"Zahmatyar, M., Fazlollahi, A., Motamedi, A., Zolfi, M., Seyedi, F., Nejadghaderi, S.A., Sullman, M.J.M., Mohammadinasab, R., Kolahi, A.A., and Arshi, S. (2023). Human Monkeypox: History, Presentations, Transmission, Epidemiology, Diagnosis, Treatment, and Prevention. Front. Med., 10.","DOI":"10.3389\/fmed.2023.1157670"},{"key":"ref_35","first-page":"13","article-title":"Human Monkeypox","volume":"27","author":"Jezek","year":"1983","journal-title":"J. Hyg. Epidemiol. Microbiol. Immunol."},{"key":"ref_36","doi-asserted-by":"crossref","first-page":"e28270","DOI":"10.1002\/jmv.28270","article-title":"Monkeypox: Early Estimation of Basic Reproduction Number R0 in Europe","volume":"95","author":"Branda","year":"2023","journal-title":"J. Med. Virol."},{"key":"ref_37","doi-asserted-by":"crossref","first-page":"658","DOI":"10.1016\/S0140-6736(22)01487-8","article-title":"Evidence of Human-to-Dog Transmission of Monkeypox Virus","volume":"400","author":"Seang","year":"2022","journal-title":"Lancet"},{"key":"ref_38","doi-asserted-by":"crossref","first-page":"3059","DOI":"10.1093\/nar\/gkf436","article-title":"MAFFT: A Novel Method for Rapid Multiple Sequence Alignment Based on Fast Fourier Transform","volume":"30","author":"Katoh","year":"2002","journal-title":"Nucleic Acids Res."},{"key":"ref_39","doi-asserted-by":"crossref","first-page":"307","DOI":"10.1093\/sysbio\/syq010","article-title":"New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0","volume":"59","author":"Guindon","year":"2010","journal-title":"Syst. Biol."},{"key":"ref_40","doi-asserted-by":"crossref","first-page":"vew007","DOI":"10.1093\/ve\/vew007","article-title":"Exploring the Temporal Structure of Heterochronous Sequences Using TempEst (Formerly Path-O-Gen)","volume":"2","author":"Rambaut","year":"2016","journal-title":"Virus Evol."},{"key":"ref_41","doi-asserted-by":"crossref","unstructured":"Bouckaert, R., Heled, J., K\u00fchnert, D., Vaughan, T., Wu, C.H., Xie, D., Suchard, M.A., Rambaut, A., and Drummond, A.J. (2014). BEAST 2: A Software Platform for Bayesian Evolutionary Analysis. PLoS Comput. Biol., 10.","DOI":"10.1371\/journal.pcbi.1003537"},{"key":"ref_42","doi-asserted-by":"crossref","first-page":"7","DOI":"10.1093\/molbev\/msj021","article-title":"Choosing Appropriate Substitution Models for the Phylogenetic Analysis of Protein-Coding Sequences","volume":"23","author":"Shapiro","year":"2006","journal-title":"Mol. Biol. Evol."},{"key":"ref_43","doi-asserted-by":"crossref","first-page":"268","DOI":"10.1093\/molbev\/msu300","article-title":"IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies","volume":"32","author":"Nguyen","year":"2015","journal-title":"Mol. Biol. Evol."},{"key":"ref_44","doi-asserted-by":"crossref","first-page":"587","DOI":"10.1038\/nmeth.4285","article-title":"ModelFinder: Fast Model Selection for Accurate Phylogenetic Estimates","volume":"14","author":"Kalyaanamoorthy","year":"2017","journal-title":"Nat. Methods"},{"key":"ref_45","first-page":"418","article-title":"Simple Methods for Estimating the Numbers of Synonymous and Nonsynonymous Nucleotide Substitutions","volume":"3","author":"Nei","year":"1986","journal-title":"Mol. Biol. Evol."},{"key":"ref_46","doi-asserted-by":"crossref","first-page":"1870","DOI":"10.1093\/molbev\/msw054","article-title":"MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets","volume":"33","author":"Kumar","year":"2016","journal-title":"Mol. Biol. Evol."},{"key":"ref_47","doi-asserted-by":"crossref","unstructured":"Senkevich, T.G., Yutin, N., Wolf, Y.I., Koonin, E.V., and Moss, B. (2021). Ancient Gene Capture and Recent Gene Loss Shape the Evolution of Orthopoxvirus-Host Interaction Genes. mBio, 12.","DOI":"10.1128\/mbio.01495-21"},{"key":"ref_48","doi-asserted-by":"crossref","first-page":"489","DOI":"10.1016\/S0169-5347(00)02027-9","article-title":"How does recombination affect phylogeny estimation?","volume":"15","author":"Posada","year":"2000","journal-title":"Trends Ecol. Evol."},{"key":"ref_49","doi-asserted-by":"crossref","first-page":"807","DOI":"10.1126\/science.1125134","article-title":"Genome Sequence Diversity and Clues to the Evolution of Variola (Smallpox) Virus","volume":"313","author":"Esposito","year":"2006","journal-title":"Science"},{"key":"ref_50","doi-asserted-by":"crossref","first-page":"105","DOI":"10.1099\/vir.0.19565-0","article-title":"Poxvirus Genomes: A Phylogenetic Analysis","volume":"85","author":"Gubser","year":"2004","journal-title":"J. Gen. Virol."},{"key":"ref_51","doi-asserted-by":"crossref","unstructured":"Franke, A., Pfaff, F., Jenckel, M., Hoffmann, B., H\u00f6per, D., Antwerpen, M., Meyer, H., Beer, M., and Hoffmann, D. (2017). Classification of Cowpox Viruses into Several Distinct Clades and Identification of a Novel Lineage. Viruses, 9.","DOI":"10.3390\/v9060142"},{"key":"ref_52","doi-asserted-by":"crossref","first-page":"110","DOI":"10.1186\/1743-422X-7-110","article-title":"Comparative Whole Genome Sequence Analysis of Wild-Type and Cidofovir-Resistant Monkeypoxvirus","volume":"7","author":"Farlow","year":"2010","journal-title":"Virol. J."},{"key":"ref_53","doi-asserted-by":"crossref","unstructured":"Babkin, I.V., Babkina, I.N., and Tikunova, N.V. (2022). An Update of Orthopoxvirus Molecular Evolution. Viruses, 14.","DOI":"10.3390\/v14020388"},{"key":"ref_54","doi-asserted-by":"crossref","first-page":"560","DOI":"10.1126\/science.add4153","article-title":"Multiple Lineages of Monkeypox Virus Detected in the United States, 2021\u20132022","volume":"378","author":"Gigante","year":"2022","journal-title":"Science"},{"key":"ref_55","doi-asserted-by":"crossref","first-page":"1367","DOI":"10.1093\/infdis\/jiaa559","article-title":"Exportation of Monkeypox Virus from the African Continent","volume":"225","author":"Mauldin","year":"2022","journal-title":"J. Infect. Dis."},{"key":"ref_56","doi-asserted-by":"crossref","first-page":"1002","DOI":"10.3201\/eid2805.220292","article-title":"Imported Monkeypox from International Traveler, Maryland, USA, 2021","volume":"28","author":"Costello","year":"2022","journal-title":"Emerg. Infect. Dis."},{"key":"ref_57","doi-asserted-by":"crossref","first-page":"15655","DOI":"10.1073\/pnas.2136653100","article-title":"Extensive Gene Gain Associated with Adaptive Evolution of Poxviruses","volume":"100","author":"McLysaght","year":"2003","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_58","doi-asserted-by":"crossref","first-page":"755","DOI":"10.1017\/S0950268816002922","article-title":"Cowpox in a Human, Russia, 2015","volume":"145","author":"Popova","year":"2017","journal-title":"Epidemiol. Infect."},{"key":"ref_59","doi-asserted-by":"crossref","first-page":"14858","DOI":"10.1073\/pnas.1515354112","article-title":"Structural basis for antagonizing a host restriction factor by C7 family of poxvirus host-range proteins","volume":"112","author":"Meng","year":"2015","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_60","doi-asserted-by":"crossref","unstructured":"Strnadova, P., Ren, H., Valentine, R., Mazzon, M., Sweeney, T.R., Brierley, I., and Smith, G.L. (2015). Inhibition of Translation Initiation by Protein 169: A Vaccinia Virus Strategy to Suppress Innate and Adaptive Immunity and Alter Virus Virulence. PLoS Pathog., 11.","DOI":"10.1371\/journal.ppat.1005151"},{"key":"ref_61","doi-asserted-by":"crossref","first-page":"709","DOI":"10.3390\/v7020709","article-title":"Poxviral Ankyrin Proteins","volume":"7","author":"Herbert","year":"2015","journal-title":"Viruses"},{"key":"ref_62","doi-asserted-by":"crossref","first-page":"2367","DOI":"10.1099\/vir.0.055921-0","article-title":"Vaccinia Virus Immune Evasion: Mechanisms, Virulence and Immunogenicity","volume":"94","author":"Smith","year":"2013","journal-title":"J. Gen. Virol."},{"key":"ref_63","doi-asserted-by":"crossref","first-page":"247","DOI":"10.1016\/0042-6822(90)90294-2","article-title":"The Complete DNA Sequence of Vaccinia Virus","volume":"179","author":"Goebel","year":"1990","journal-title":"Virology"},{"key":"ref_64","doi-asserted-by":"crossref","first-page":"2147","DOI":"10.1038\/emboj.2008.143","article-title":"Viral Targeting of DEAD Box Protein 3 Reveals Its Role in TBK1\/IKK\u03b5-Mediated IRF Activation","volume":"27","author":"Baran","year":"2008","journal-title":"EMBO J."},{"key":"ref_65","doi-asserted-by":"crossref","first-page":"5569","DOI":"10.1074\/jbc.M109.078113","article-title":"Vaccinia Virus Protein F1L Is a Caspase-9 Inhibitor","volume":"285","author":"Zhai","year":"2010","journal-title":"J. Biol. Chem."},{"key":"ref_66","doi-asserted-by":"crossref","first-page":"1917","DOI":"10.1099\/vir.0.82815-0","article-title":"Vaccinia Virus Gene F3L Encodes an Intracellular Protein That Affects the Innate Immune Response","volume":"88","author":"Froggatt","year":"2007","journal-title":"J. Gen. Virol."},{"key":"ref_67","doi-asserted-by":"crossref","first-page":"617","DOI":"10.1007\/s00705-010-0900-0","article-title":"A-Type Inclusion Bodies: A Factor Influencing Cowpox Virus Lesion Pathogenesis","volume":"156","author":"Leite","year":"2011","journal-title":"Arch. Virol."},{"key":"ref_68","doi-asserted-by":"crossref","first-page":"303","DOI":"10.1128\/JVI.75.1.303-310.2001","article-title":"The Vaccinia Virus A33R Protein Provides a Chaperone Function for Viral Membrane Localization and Tyrosine Phosphorylation of the A36R Protein","volume":"75","author":"Wolffe","year":"2001","journal-title":"J. Virol."},{"key":"ref_69","doi-asserted-by":"crossref","first-page":"176","DOI":"10.1016\/j.virol.2009.11.008","article-title":"Vaccinia Virus A35R Inhibits MHC Class II Antigen Presentation","volume":"397","author":"Rehm","year":"2010","journal-title":"Virology"},{"key":"ref_70","doi-asserted-by":"crossref","first-page":"26","DOI":"10.1006\/viro.2000.0260","article-title":"The Vaccinia Virus A36R Protein Is a Type Ib Membrane Protein Present on Intracellular but Not Extracellular Enveloped Virus Particles","volume":"271","author":"Hollinshead","year":"2000","journal-title":"Virology"},{"key":"ref_71","doi-asserted-by":"crossref","first-page":"160","DOI":"10.1016\/j.virol.2009.10.025","article-title":"Vaccinia Virus A43R Gene Encodes an Orthopoxvirus-Specific Late Non-Virion Type-1 Membrane Protein That Is Dispensable for Replication but Enhances Intradermal Lesion Formation","volume":"396","author":"Sood","year":"2010","journal-title":"Virology"},{"key":"ref_72","doi-asserted-by":"crossref","first-page":"1971","DOI":"10.1099\/vir.0.030460-0","article-title":"The Vaccinia Virus A56 Protein: A Multifunctional Transmembrane Glycoprotein That Anchors Two Secreted Viral Proteins","volume":"92","author":"DeHaven","year":"2011","journal-title":"J. Gen. Virol."},{"key":"ref_73","doi-asserted-by":"crossref","first-page":"e02114","DOI":"10.1128\/JVI.02114-20","article-title":"The Vaccinia Virus B12 Pseudokinase Represses Viral Replication via Interaction with the Cellular Kinase VRK1 and Activation of the Antiviral Effector BAF","volume":"95","author":"Rico","year":"2021","journal-title":"J. Virol."},{"key":"ref_74","doi-asserted-by":"crossref","first-page":"11230","DOI":"10.1128\/JVI.74.23.11230-11239.2000","article-title":"The Vaccinia Virus Solable Alpha\/Beta Interferon (IFN) Receptor Binds to the Cell Surface and Protects Cells from the Antiviral Effects of IFN","volume":"74","author":"Symons","year":"2000","journal-title":"J. Virol."},{"key":"ref_75","doi-asserted-by":"crossref","first-page":"3759","DOI":"10.1073\/pnas.1921098117","article-title":"Repair of a Previously Uncharacterized Second Host-Range Gene Contributes to Full Replication of Modified Vaccinia Virus Ankara (MVA) in Human Cells","volume":"117","author":"Peng","year":"2020","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_76","doi-asserted-by":"crossref","first-page":"1569","DOI":"10.1038\/s41591-022-01907-y","article-title":"Phylogenomic Characterization and Signs of Microevolution in the 2022 Multi-Country Outbreak of Monkeypox Virus","volume":"28","author":"Isidro","year":"2022","journal-title":"Nat. Med."},{"key":"ref_77","doi-asserted-by":"crossref","first-page":"1014","DOI":"10.3201\/eid2206.150579","article-title":"Extended Human-to-Human Transmission during a Monkeypox Outbreak in the Democratic Republic of the Congo","volume":"22","author":"Nolen","year":"2016","journal-title":"Emerg. Infect. Dis."},{"key":"ref_78","doi-asserted-by":"crossref","unstructured":"Sereewit, J., Lieberman, N.A.P., Xie, H., Bakhash, S.A.K.M., Nunley, B.E., Chung, B., Mills, M.G., Roychoudhury, P., and Greninger, A.L. (2022). ORF-Interrupting Mutations in Monkeypox Virus Genomes from Washington and Ohio, 2022. Viruses, 14.","DOI":"10.3390\/v14112393"},{"key":"ref_79","doi-asserted-by":"crossref","first-page":"198975","DOI":"10.1016\/j.virusres.2022.198975","article-title":"Evolution of the Orthopoxvirus Core Genome","volume":"323","author":"Molteni","year":"2022","journal-title":"Virus Res."},{"key":"ref_80","doi-asserted-by":"crossref","unstructured":"Kryazhimskiy, S., and Plotkin, J.B. (2008). The Population Genetics of dN\/dS. PLoS Genet., 4.","DOI":"10.1371\/journal.pgen.1000304"},{"key":"ref_81","doi-asserted-by":"crossref","first-page":"960","DOI":"10.1021\/pr070432+","article-title":"Comparative proteomics of human monkeypox and vaccinia intracellular mature and extracellular enveloped virions","volume":"7","author":"Manes","year":"2008","journal-title":"J. Proteome Res."},{"key":"ref_82","doi-asserted-by":"crossref","unstructured":"Sagdat, K., Batyrkhan, A., and Kanayeva, D. (2024). Exploring monkeypox virus proteins and rapid detection techniques. Front. Cell. Infect. Microbiol., 14.","DOI":"10.3389\/fcimb.2024.1414224"},{"key":"ref_83","doi-asserted-by":"crossref","first-page":"3598","DOI":"10.1128\/jvi.65.7.3598-3606.1991","article-title":"Molecular characterization of the vaccinia virus hemagglutinin gene","volume":"65","author":"Brown","year":"1991","journal-title":"J. Virol."},{"key":"ref_84","doi-asserted-by":"crossref","first-page":"372","DOI":"10.1016\/0042-6822(90)90422-N","article-title":"Hemadsorption and fusion inhibition activities of hemagglutinin analyzed by vaccinia virus mutants","volume":"175","author":"Seki","year":"1990","journal-title":"Virology"},{"key":"ref_85","doi-asserted-by":"crossref","unstructured":"Carroll, D.S., Emerson, G.L., Li, Y., Sammons, S., Olson, V., Frace, M., Nakazawa, Y., Czerny, C.P., Tryland, M., and Kolodziejek, J. (2011). Chasing Jenner\u2019s Vaccine: Revisiting Cowpox Virus Classification. PLoS ONE, 6.","DOI":"10.1371\/journal.pone.0023086"}],"container-title":["Viruses"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/1999-4915\/17\/12\/1549\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,11,27]],"date-time":"2025-11-27T10:32:57Z","timestamp":1764239577000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/1999-4915\/17\/12\/1549"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,11,26]]},"references-count":85,"journal-issue":{"issue":"12","published-online":{"date-parts":[[2025,12]]}},"alternative-id":["v17121549"],"URL":"https:\/\/doi.org\/10.3390\/v17121549","relation":{},"ISSN":["1999-4915"],"issn-type":[{"value":"1999-4915","type":"electronic"}],"subject":[],"published":{"date-parts":[[2025,11,26]]}}}