{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,19]],"date-time":"2026-06-19T17:19:58Z","timestamp":1781889598419,"version":"3.54.5"},"reference-count":76,"publisher":"The Microbiological Society of Korea","issue":"5","license":[{"start":{"date-parts":[[2024,3,7]],"date-time":"2024-03-07T00:00:00Z","timestamp":1709769600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"},{"start":{"date-parts":[[2024,3,7]],"date-time":"2024-03-07T00:00:00Z","timestamp":1709769600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"}],"funder":[{"DOI":"10.13039\/501100003725","name":"National Research Foundation of Korea","doi-asserted-by":"crossref","award":["2021R1F1A1063240"],"award-info":[{"award-number":["2021R1F1A1063240"]}],"id":[{"id":"10.13039\/501100003725","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["J Microbiol."],"published-print":{"date-parts":[[2024,5]]},"DOI":"10.1007\/s12275-024-00112-5","type":"journal-article","created":{"date-parts":[[2024,3,7]],"date-time":"2024-03-07T09:47:16Z","timestamp":1709804836000},"page":"393-407","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":8,"title":["Genomic Evolution and Recombination Dynamics of Human Adenovirus D Species: Insights from Comprehensive Bioinformatic Analysis"],"prefix":"10.71150","volume":"62","author":[{"given":"Anyeseu","family":"Park","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chanhee","family":"Lee","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7195-9185","authenticated-orcid":false,"given":"Jeong Yoon","family":"Lee","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"4586","published-online":{"date-parts":[[2024,3,7]]},"reference":[{"key":"112_CR1","doi-asserted-by":"publisher","first-page":"7968","DOI":"10.1128\/JVI.76.16.7968-7975.2002","volume":"76","author":"N Avvakumov","year":"2002","unstructured":"Avvakumov, N., Wheeler, R., D\u2019Halluin, J. C., & Mymryk, J. S. (2002). Comparative sequence analysis of the largest e1a proteins of human and simian adenoviruses. Journal of Virology, 76, 7968\u20137975.","journal-title":"Journal of Virology"},{"key":"112_CR2","volume-title":"Cell cycle control. Methods in molecular biology","author":"S Bagga","year":"2014","unstructured":"Bagga, S., & Bouchard, M. J. (2014). Cell cycle regulation during viral infection. In E. Noguchi & M. Gadaleta (Eds.), Cell cycle control. Methods in molecular biology.  (Vol. 1170). Humana Press."},{"key":"112_CR3","doi-asserted-by":"publisher","DOI":"10.1128\/jvi.01090-21","volume":"96","author":"CR Bair","year":"2022","unstructured":"Bair, C. R., Zhang, W., Gonzalez, G., Kamali, A., Stylos, D., Blanco, J. C. G., & Kajon, A. E. (2022). Human adenovirus type 4 comprises two major phylogroups with distinct replicative fitness and virulence phenotypes. Journal of Virology, 96, e0109021.","journal-title":"Journal of Virology"},{"key":"112_CR4","doi-asserted-by":"publisher","first-page":"741","DOI":"10.1038\/s41467-019-08599-y","volume":"10","author":"AT Baker","year":"2019","unstructured":"Baker, A. T., Greenshields-Watson, A., Coughlan, L., Davies, J. A., Uusi-Kerttula, H., Cole, D. K., Rizkallah, P. J., & Parker, A. L. (2019). Diversity within the adenovirus fiber knob hypervariable loops influences primary receptor interactions. Nature Communications, 10, 741.","journal-title":"Nature Communications"},{"key":"112_CR5","doi-asserted-by":"publisher","first-page":"3053","DOI":"10.1093\/nar\/22.15.3053","volume":"22","author":"M Bondesson","year":"1994","unstructured":"Bondesson, M., Mannervik, M., Akusj\u00e4rvi, G., & Svensson, C. (1994). An adenovirus E1A transcriptional repressor domain functions as an activator when tethered to a promoter. Nucleic Acids Research, 22, 3053\u20133060.","journal-title":"Nucleic Acids Research"},{"key":"112_CR6","doi-asserted-by":"publisher","DOI":"10.3389\/fmolb.2021.668184","volume":"8","author":"N Bordin","year":"2021","unstructured":"Bordin, N., Sillitoe, I., Lees, J. G., & Orengo, C. (2021). Tracing evolution through protein structures: Nature captured in a few thousand folds. Frontiers in Molecular Biosciences, 8, 668184.","journal-title":"Frontiers in Molecular Biosciences"},{"key":"112_CR7","doi-asserted-by":"publisher","first-page":"91","DOI":"10.1038\/s41541-020-00243-x","volume":"5","author":"R Bos","year":"2020","unstructured":"Bos, R., Rutten, L., van der Lubbe, J. E. M., Bakkers, M. J. G., Hardenberg, G., Wegmann, F., Zuijdgeest, D., de Wilde, A. H., Koornneef, A., Verwilligen, A., et al. (2020). Ad26 vector-based COVID-19 vaccine encoding a prefusion-stabilized SARS-CoV-2 spike immunogen induces potent humoral and cellular immune responses. Npj Vaccines, 5, 91.","journal-title":"Npj Vaccines"},{"key":"112_CR8","doi-asserted-by":"publisher","first-page":"199","DOI":"10.1097\/01.ico.0000170693.13326.fb","volume":"25","author":"AL Butt","year":"2006","unstructured":"Butt, A. L., & Chodosh, J. (2006). Adenoviral keratoconjunctivitis in a tertiary care eye clinic. Cornea, 25, 199\u2013202.","journal-title":"Cornea"},{"key":"112_CR9","doi-asserted-by":"publisher","DOI":"10.1007\/978-981-15-0702-1","volume-title":"Genome and genomics: From archaea to eukaryotes","author":"KV Chaitanya","year":"2019","unstructured":"Chaitanya, K. V. (2019). Structure and organization of virus genomes. In K. V. Chaitanya (Ed.), Genome and genomics: From archaea to eukaryotes. Springer."},{"key":"112_CR10","doi-asserted-by":"publisher","first-page":"3531","DOI":"10.1002\/1873-3468.13695","volume":"593","author":"M Charman","year":"2019","unstructured":"Charman, M., Herrmann, C., & Weitzman, M. D. (2019). Viral and cellular interactions during adenovirus DNA replication. FEBS Letters, 593, 3531\u20133550.","journal-title":"FEBS Letters"},{"key":"112_CR11","first-page":"4843","volume":"56","author":"J Chodosh","year":"2015","unstructured":"Chodosh, J., Singh, G., Robinson, C., Lee, J. Y., Rajaiya, J., Jones, M., Dyer, D., & Seto, D. (2015). Proteotyping as a tool to study the evolution of human adenoviruses associated with epidemic keratoconjunctivitis. Investigative Ophthalmology & Visual Science, 56, 4843.","journal-title":"Investigative Ophthalmology & Visual Science"},{"key":"112_CR12","doi-asserted-by":"publisher","first-page":"265","DOI":"10.1016\/j.virol.2013.09.009","volume":"447","author":"S Dehghan","year":"2013","unstructured":"Dehghan, S., Seto, J., Jones, M. S., Dyer, D. W., Chodosh, J., & Seto, D. (2013a). Simian adenovirus type 35 has a recombinant genome comprising human and simian adenovirus sequences, which predicts its potential emergence as a human respiratory pathogen. Virology, 447, 265\u2013273.","journal-title":"Virology"},{"key":"112_CR13","doi-asserted-by":"publisher","first-page":"197","DOI":"10.1016\/j.virol.2013.05.014","volume":"443","author":"S Dehghan","year":"2013","unstructured":"Dehghan, S., Seto, J., Liu, E. B., Walsh, M. P., Dyer, D. W., Chodosh, J., & Seto, D. (2013b). Computational analysis of four human adenovirus type 4 genomes reveals molecular evolution through two interspecies recombination events. Virology, 443, 197\u2013207.","journal-title":"Virology"},{"key":"112_CR14","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0040385","volume":"7","author":"MD Dicks","year":"2012","unstructured":"Dicks, M. D., Spencer, A. J., Edwards, N. J., Wadell, G., Bojang, K., Gilbert, S. C., Hill, A. V., & Cottingham, M. G. (2012). A novel chimpanzee adenovirus vector with low human seroprevalence: Improved systems for vector derivation and comparative immunogenicity. PLoS ONE, 7, e40385.","journal-title":"PLoS ONE"},{"key":"112_CR15","doi-asserted-by":"publisher","first-page":"109","DOI":"10.1038\/nrmicro817","volume":"2","author":"DS Dimitrov","year":"2004","unstructured":"Dimitrov, D. S. (2004). Virus entry: Molecular mechanisms and biomedical applications. Nature Reviews Microbiology, 2, 109\u2013122.","journal-title":"Nature Reviews Microbiology"},{"key":"112_CR16","doi-asserted-by":"publisher","first-page":"12635","DOI":"10.1128\/JVI.79.20.12635-12642.2005","volume":"79","author":"K Ebner","year":"2005","unstructured":"Ebner, K., Pinsker, W., & Lion, T. (2005). Comparative sequence analysis of the hexon gene in the entire spectrum of human adenovirus serotypes: Phylogenetic, taxonomic, and clinical implications. Journal of Virology, 79, 12635\u201312642.","journal-title":"Journal of Virology"},{"key":"112_CR17","doi-asserted-by":"publisher","DOI":"10.1128\/jvi.00370-23","volume":"97","author":"M Ehrenfeld","year":"2023","unstructured":"Ehrenfeld, M., Segeth, F., Mantwill, K., Brockhaus, C., Zhao, Y., Ploner, C., Kolk, A., Gschwend, J. E., Nawroth, R., & Holm, P. S. (2023). Targeting cell cycle facilitates E1A-independent adenoviral replication. Journal of Virology, 97, e0037023.","journal-title":"Journal of Virology"},{"key":"112_CR18","doi-asserted-by":"publisher","first-page":"440","DOI":"10.1016\/S1473-3099(20)30515-6","volume":"21","author":"H Fausther-Bovendo","year":"2021","unstructured":"Fausther-Bovendo, H., & Kobinger, G. (2021). Vaccine innovation spurred by the long wait for an Ebola virus vaccine. The Lancet Infectious Diseases, 21, 440\u2013441.","journal-title":"The Lancet Infectious Diseases"},{"key":"112_CR19","doi-asserted-by":"publisher","DOI":"10.1111\/ctr.13527","volume":"33","author":"DF Florescu","year":"2019","unstructured":"Florescu, D. F., & Schaenman, J. M. (2019). Adenovirus in solid organ transplant recipients: Guidelines from the american society of transplantation infectious diseases community of practice. Clinical Transplantation, 33, e13527.","journal-title":"Clinical Transplantation"},{"key":"112_CR20","doi-asserted-by":"publisher","first-page":"441","DOI":"10.1038\/nrm827","volume":"3","author":"SM Frisch","year":"2002","unstructured":"Frisch, S. M., & Mymryk, J. S. (2002). Adenovirus-5 E1A: Paradox and paradigm. Nature Reviews Molecular Cell Biology, 3, 441\u2013452.","journal-title":"Nature Reviews Molecular Cell Biology"},{"key":"112_CR21","doi-asserted-by":"publisher","first-page":"2388","DOI":"10.1128\/JVI.72.3.2388-2397.1998","volume":"72","author":"H Gah\u00e9ry-S\u00e9gard","year":"1998","unstructured":"Gah\u00e9ry-S\u00e9gard, H., Farace, F., Godfrin, D., Gaston, J., Lengagne, R., Tursz, T., Boulanger, P., & Guillet, J. G. (1998). Immune response to recombinant capsid proteins of adenovirus in humans: Antifiber and anti-penton base antibodies have a synergistic effect on neutralizing activity. Journal of Virology, 72, 2388\u20132397.","journal-title":"Journal of Virology"},{"key":"112_CR22","doi-asserted-by":"publisher","first-page":"3823","DOI":"10.1073\/pnas.86.10.3823","volume":"86","author":"HS Ginsberg","year":"1989","unstructured":"Ginsberg, H. S., Lundholm-Beauchamp, U., Horswood, R. L., Pernis, B., Wold, W. S., Chanock, R. M., & Prince, G. A. (1989). Role of early region 3 (E3) in pathogenesis of adenovirus disease. Proceedings of the National Academy of Sciences of the United States of America, 86, 3823\u20133827.","journal-title":"Proceedings of the National Academy of Sciences of the United States of America"},{"key":"112_CR23","doi-asserted-by":"publisher","first-page":"11572","DOI":"10.1074\/jbc.R116.724807","volume":"291","author":"EC Greene","year":"2016","unstructured":"Greene, E. C. (2016). DNA sequence alignment during homologous recombination. Journal of Biological Chemistry, 291, 11572\u201311580.","journal-title":"Journal of Biological Chemistry"},{"key":"112_CR24","first-page":"156","volume":"2","author":"TR Gregory","year":"2009","unstructured":"Gregory, T. R. (2009). Understanding natural selection: essential concepts and common misconceptions. Evolution: Education and Outreach, 2, 156\u2013175.","journal-title":"Evolution: Education and Outreach"},{"key":"112_CR25","doi-asserted-by":"publisher","first-page":"461","DOI":"10.1101\/gad.10.4.461","volume":"10","author":"J Han","year":"1996","unstructured":"Han, J., Sabbatini, P., Perez, D., Rao, L., Modha, D., & White, E. (1996). The E1B 19K protein blocks apoptosis by interacting with and inhibiting the p53-inducible and death-promoting Bax protein. Genes & Development, 10, 461\u2013477.","journal-title":"Genes & Development"},{"key":"112_CR26","doi-asserted-by":"publisher","first-page":"1285","DOI":"10.1128\/CVI.00144-09","volume":"16","author":"C Harro","year":"2009","unstructured":"Harro, C., Sun, X., Stek, J. E., Leavitt, R. Y., Mehrotra, D. V., Wang, F., Bett, A. J., Casimiro, D. R., Shiver, J. W., DiNubile, M. J., et al. (2009). Safety and immunogenicity of the Merck adenovirus serotype 5 (MRKAd5) and MRKAd6 human immunodeficiency virus type 1 trigene vaccines alone and in combination in healthy adults. Clinical and Vaccine Immunology, 16, 1285\u20131292.","journal-title":"Clinical and Vaccine Immunology"},{"key":"112_CR27","doi-asserted-by":"publisher","first-page":"881","DOI":"10.1002\/jmv.25041","volume":"90","author":"S Hashimoto","year":"2018","unstructured":"Hashimoto, S., Gonzalez, G., Harada, S., Oosako, H., Hanaoka, N., Hinokuma, R., & Fujimoto, T. (2018). Recombinant type human mastadenovirus D85 associated with epidemic keratoconjunctivitis since 2015 in Japan. Journal of Medical Virology, 90, 881\u2013889.","journal-title":"Journal of Medical Virology"},{"key":"112_CR28","doi-asserted-by":"publisher","first-page":"2634","DOI":"10.1016\/j.celrep.2019.08.005","volume":"28","author":"AO Hassan","year":"2019","unstructured":"Hassan, A. O., Dmitriev, I. P., Kashentseva, E. A., Zhao, H., Brough, D. E., Fremont, D. H., Curiel, D. T., & Diamond, M. S. (2019). A gorilla adenovirus-based vaccine against zika virus induces durable immunity and confers protection in pregnancy. Cell Reports, 28, 2634\u20132646.","journal-title":"Cell Reports"},{"key":"112_CR29","doi-asserted-by":"publisher","first-page":"3504","DOI":"10.1002\/1873-3468.13694","volume":"593","author":"P Hidalgo","year":"2019","unstructured":"Hidalgo, P., Ip, W. H., Dobner, T., & Gonzalez, R. A. (2019). The biology of the adenovirus E1B 55K protein. FEBS Letters, 593, 3504\u20133517.","journal-title":"FEBS Letters"},{"key":"112_CR30","doi-asserted-by":"publisher","first-page":"S172","DOI":"10.1002\/jgm.495","volume":"6","author":"MS Horwitz","year":"2004","unstructured":"Horwitz, M. S. (2004). Function of adenovirus E3 proteins and their interactions with immunoregulatory cell proteins. The Journal of Gene Medicine, 6, S172\u2013S183.","journal-title":"The Journal of Gene Medicine"},{"key":"112_CR31","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0110781","volume":"9","author":"G Huang","year":"2014","unstructured":"Huang, G., Yao, W., Yu, W., Mao, L., Sun, H., Yao, W., Tian, J., Wang, L., Bo, Z., Zhu, Z., et al. (2014). Outbreak of epidemic keratoconjunctivitis caused by human adenovirus type 56, China, 2012. PLoS ONE, 9, e110781.","journal-title":"PLoS ONE"},{"key":"112_CR32","doi-asserted-by":"publisher","first-page":"2178","DOI":"10.3389\/fmicb.2018.02178","volume":"9","author":"AM Ismail","year":"2018","unstructured":"Ismail, A. M., Lee, J. S., Lee, J. Y., Singh, G., Dyer, D. W., Seto, D., Chodosh, J., & Rajaiya, J. (2018). Adenoviromics: Mining the human adenovirus species D genome. Frontiers in Microbiology, 9, 2178.","journal-title":"Frontiers in Microbiology"},{"key":"112_CR33","doi-asserted-by":"publisher","first-page":"3583","DOI":"10.1002\/1873-3468.13693","volume":"593","author":"AM Ismail","year":"2019","unstructured":"Ismail, A. M., Zhou, X., Dyer, D. W., Seto, D., Rajaiya, J., & Chodosh, J. (2019). Genomic foundations of evolution and ocular pathogenesis in human adenovirus species D. FEBS Letters, 593, 3583\u20133608.","journal-title":"FEBS Letters"},{"key":"112_CR34","doi-asserted-by":"publisher","DOI":"10.1128\/microbiolspec.DMIH2-0020-2015","author":"MG Ison","year":"2016","unstructured":"Ison, M. G., & Hayden, R. T. (2016). Adenovirus. Microbiol Spectrum. https:\/\/doi.org\/10.1128\/microbiolspec.DMIH2-0020-2015","journal-title":"Microbiol Spectrum"},{"key":"112_CR35","doi-asserted-by":"publisher","first-page":"161","DOI":"10.3390\/v15010161","volume":"15","author":"MR Jennings","year":"2023","unstructured":"Jennings, M. R., & Parks, R. J. (2023). Human adenovirus gene expression and replication is regulated through dynamic changes in nucleoprotein structure throughout infection. Viruses, 15, 161.","journal-title":"Viruses"},{"key":"112_CR36","doi-asserted-by":"publisher","first-page":"1471","DOI":"10.1099\/vir.0.009225-0","volume":"90","author":"H Kaneko","year":"2009","unstructured":"Kaneko, H., Iida, T., Ishiko, H., Ohguchi, T., Ariga, T., Tagawa, Y., Aoki, K., Ohno, S., & Suzutani, T. (2009). Analysis of the complete genome sequence of epidemic keratoconjunctivitis-related human adenovirus type 8, 19, 37 and a novel serotype. Journal of General Virology, 90, 1471\u20131476.","journal-title":"Journal of General Virology"},{"key":"112_CR37","doi-asserted-by":"publisher","first-page":"358","DOI":"10.1111\/cla.12422","volume":"36","author":"J Kang","year":"2020","unstructured":"Kang, J., Ismail, A. M., Dehghan, S., Rajaiya, J., Allard, M. W., Lim, H. C., Dyer, D. W., Chodosh, J., & Seto, D. (2020). Genomics-based re-examination of the taxonomy and phylogeny of human and simian Mastadenoviruses: An evolving whole genomes approach, revealing putative zoonosis, anthroponosis, and amphizoonosis. Cladistics, 36, 358\u2013373.","journal-title":"Cladistics"},{"key":"112_CR38","first-page":"1","volume-title":"Basic Biochemistry","author":"RH Khan","year":"2017","unstructured":"Khan, R. H., Siddiqi, M. K., & Salahuddin, P. (2017). Protein structure and function. In W. A. Khan (Ed.), Basic Biochemistry (pp. 1\u201339). Austin Publishing Group."},{"key":"112_CR39","doi-asserted-by":"publisher","first-page":"147","DOI":"10.1186\/s12985-019-1248-z","volume":"16","author":"CE Lange","year":"2019","unstructured":"Lange, C. E., Niama, F. R., Cameron, K., Olson, S. H., Aime Nina, R., Ondzie, A., Bounga, G., Smith, B. R., Pante, J., Reed, P., et al. (2019). First evidence of a new simian adenovirus clustering with human mastadenovirus f viruses. Virology Journal, 16, 147.","journal-title":"Virology Journal"},{"key":"112_CR40","doi-asserted-by":"publisher","first-page":"e00105","DOI":"10.1128\/mSphere.00105-18","volume":"3","author":"JY Lee","year":"2018","unstructured":"Lee, J. Y., Lee, J. S., Materne, E. C., Rajala, R., Ismail, A. M., Seto, D., Dyer, D. W., Rajaiya, J., & Chodosh, J. (2018). Bacterial RecA protein promotes adenoviral recombination during in vitro infection. mSphere, 3, e00105-e118.","journal-title":"mSphere"},{"key":"112_CR41","doi-asserted-by":"publisher","first-page":"188","DOI":"10.1126\/science.1217134","volume":"337","author":"SW Lee","year":"2012","unstructured":"Lee, S. W., Markham, P. F., Coppo, M. J. C., Legione, A. R., Markham, J. F., Noormohammadi, A. H., Browning, G. F., Ficorilli, N., Hartley, C. A., & Devlin, J. M. (2012). Attenuated vaccines can recombine to form virulent field viruses. Science, 337, 188.","journal-title":"Science"},{"key":"112_CR42","doi-asserted-by":"publisher","first-page":"357","DOI":"10.1002\/rmv.589","volume":"18","author":"L Lenaerts","year":"2008","unstructured":"Lenaerts, L., De Clercq, E., & Naesens, L. (2008). Clinical features and treatment of adenovirus infections. Reviews in Medical Virology, 18, 357\u2013374.","journal-title":"Reviews in Medical Virology"},{"key":"112_CR43","doi-asserted-by":"publisher","first-page":"2055","DOI":"10.1128\/JVI.72.3.2055-2061.1998","volume":"72","author":"E Li","year":"1998","unstructured":"Li, E., Stupack, D., Klemke, R., Cheresh, D. A., & Nemerow, G. R. (1998). Adenovirus endocytosis via \u03b1vintegrins requires phosphoinositide-3-OH kinase. Journal of Virology, 72, 2055\u20132061.","journal-title":"Journal of Virology"},{"key":"112_CR44","doi-asserted-by":"publisher","first-page":"441","DOI":"10.1128\/CMR.00116-13","volume":"27","author":"T Lion","year":"2014","unstructured":"Lion, T. (2014). Adenovirus infections in immunocompetent and immunocompromised patients. Clinical Microbiology Reviews, 27, 441\u2013462.","journal-title":"Clinical Microbiology Reviews"},{"key":"112_CR45","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0024491","volume":"6","author":"EB Liu","year":"2011","unstructured":"Liu, E. B., Ferreyra, L., Fischer, S. L., Pavan, J. V., Nates, S. V., Hudson, N. R., Tirado, D., Dyer, D. W., Chodosh, J., Seto, D., et al. (2011). Genetic analysis of a novel human adenovirus with a serologically unique hexon and a recombinant fiber gene. PLoS ONE, 6, e24491.","journal-title":"PLoS ONE"},{"key":"112_CR46","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0100665","volume":"9","author":"J Liu","year":"2014","unstructured":"Liu, J., Nian, Q. G., Zhang, Y., Xu, L. J., Hu, Y., Li, J., Deng, Y. Q., Zhu, S. Y., Wu, X. Y., et al. (2014). In vitro characterization of human adenovirus type 55 in comparison with its parental adenoviruses, types 11 and 14. PLoS ONE, 9, e100665.","journal-title":"PLoS ONE"},{"key":"112_CR47","doi-asserted-by":"publisher","first-page":"2217","DOI":"10.1110\/ps.041171805","volume":"14","author":"M Lynch","year":"2005","unstructured":"Lynch, M. (2005). Simple evolutionary pathways to complex proteins. Protein Science, 14, 2217\u20132225.","journal-title":"Protein Science"},{"key":"112_CR48","doi-asserted-by":"publisher","first-page":"2590","DOI":"10.1016\/j.jmb.2018.06.024","volume":"430","author":"MS Maginnis","year":"2018","unstructured":"Maginnis, M. S. (2018). Virus-receptor interactions: The key to cellular invasion. Journal of Molecular Biology, 430, 2590\u20132611.","journal-title":"Journal of Molecular Biology"},{"key":"112_CR49","doi-asserted-by":"publisher","first-page":"S44","DOI":"10.1016\/S1525-0016(16)42959-X","volume":"5","author":"T Matsushita","year":"2002","unstructured":"Matsushita, T., Ozawa, K., & Colosi, P. (2002). 129. The adenovirus E1B 19K gene but not the E1B 55K gene mediates high efficiency AAV vector production. Molecular Therapy, 5, S44.","journal-title":"Molecular Therapy"},{"key":"112_CR50","doi-asserted-by":"publisher","first-page":"2013","DOI":"10.1093\/molbev\/msz134","volume":"36","author":"AF Moutinho","year":"2019","unstructured":"Moutinho, A. F., Trancoso, F. F., & Dutheil, J. Y. (2019). The impact of protein architecture on adaptive evolution. Molecular Biology and Evolution, 36, 2013\u20132028.","journal-title":"Molecular Biology and Evolution"},{"key":"112_CR51","doi-asserted-by":"publisher","first-page":"727","DOI":"10.1128\/jvi.32.3.727-733.1979","volume":"32","author":"JR Nevins","year":"1979","unstructured":"Nevins, J. R., Ginsberg, H. S., Blanchard, J. M., Wilson, M. C., & Darnell, J. E., Jr. (1979). Regulation of the primary expression of the early adenovirus transcription units. Journal of Virology, 32, 727\u2013733.","journal-title":"Journal of Virology"},{"key":"112_CR52","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1007583","volume":"16","author":"IB Novikov","year":"2020","unstructured":"Novikov, I. B., Wilkins, A. D., & Lichtarge, O. (2020). An evolutionary trace method defines functionally important bases and sites common to RNA families. PLoS Computational Biology, 16, e1007583.","journal-title":"PLoS Computational Biology"},{"key":"112_CR53","doi-asserted-by":"publisher","first-page":"evac032","DOI":"10.1093\/gbe\/evac032","volume":"14","author":"M Oman","year":"2022","unstructured":"Oman, M., Alam, A., & Ness, R. W. (2022). How sequence context-dependent mutability drives mutation rate variation in the genome. Genome Biology and Evolution, 14, evac032.","journal-title":"Genome Biology and Evolution"},{"key":"112_CR54","doi-asserted-by":"publisher","first-page":"25","DOI":"10.1186\/1743-422X-11-25","volume":"11","author":"M Pauly","year":"2014","unstructured":"Pauly, M., Hoppe, E., Mugisha, L., Petrzelkova, K., Akoua-Koffi, C., Couacy-Hymann, E., Anoh, A. E., Mossoun, A., Schubert, G., Wiersma, L., et al. (2014). High prevalence and diversity of species D adenoviruses (HAdV-D) in human populations of four Sub-Saharan countries. Virology Journal, 11, 25.","journal-title":"Virology Journal"},{"key":"112_CR55","doi-asserted-by":"publisher","first-page":"1095","DOI":"10.1093\/nar\/gkn1057","volume":"37","author":"P Pelka","year":"2009","unstructured":"Pelka, P., Ablack, J. N. G., Torchia, J., Turnell, A. S., Grand, R. J. A., & Mymryk, J. S. (2009). Transcriptional control by adenovirus E1A conserved region 3 via p300\/CBP. Nucleic Acids Research, 37, 1095\u20131106.","journal-title":"Nucleic Acids Research"},{"key":"112_CR56","doi-asserted-by":"publisher","first-page":"694","DOI":"10.1038\/281694a0","volume":"281","author":"M Perricaudet","year":"1979","unstructured":"Perricaudet, M., Akusj\u00e4rvi, G., Virtanen, A., & Pettersson, U. (1979). Structure of two spliced mRNAs from the transforming region of human subgroup C adenoviruses. Nature, 281, 694\u2013696.","journal-title":"Nature"},{"key":"112_CR57","doi-asserted-by":"publisher","first-page":"251","DOI":"10.1097\/QCO.0000000000000451","volume":"31","author":"JR Radke","year":"2018","unstructured":"Radke, J. R., & Cook, J. L. (2018). Human adenovirus infections: Update and consideration of mechanisms of viral persistence. Current Opinion in Infectious Diseases, 31, 251\u2013256.","journal-title":"Current Opinion in Infectious Diseases"},{"key":"112_CR58","doi-asserted-by":"publisher","first-page":"2505","DOI":"10.3390\/v13122505","volume":"13","author":"J Rajaiya","year":"2021","unstructured":"Rajaiya, J., Saha, A., Zhou, X., & Chodosh, J. (2021). Human adenovirus species D interactions with corneal stromal cells. Viruses, 13, 2505.","journal-title":"Viruses"},{"key":"112_CR59","doi-asserted-by":"publisher","first-page":"1208","DOI":"10.1016\/j.meegid.2011.04.031","volume":"11","author":"CM Robinson","year":"2011","unstructured":"Robinson, C. M., Seto, D., Jones, M. S., Dyer, D. W., & Chodosh, J. (2011a). Molecular evolution of human species D adenoviruses. Infection, Genetics and Evolution, 11, 1208\u20131217.","journal-title":"Infection, Genetics and Evolution"},{"key":"112_CR60","doi-asserted-by":"publisher","first-page":"213","DOI":"10.1186\/1471-2164-9-213","volume":"9","author":"CM Robinson","year":"2008","unstructured":"Robinson, C. M., Shariati, F., Gillaspy, A. F., Dyer, D. W., & Chodosh, J. (2008). Genomic and bioinformatics analysis of human adenovirus type 37: New insights into corneal tropism. BMC Genomics, 9, 213.","journal-title":"BMC Genomics"},{"key":"112_CR61","doi-asserted-by":"publisher","first-page":"141","DOI":"10.1016\/j.virol.2010.10.020","volume":"409","author":"CM Robinson","year":"2011","unstructured":"Robinson, C. M., Singh, G., Henquell, C., Walsh, M. P., Peigue-Lafeuille, H., Seto, D., Jones, M. S., Dyer, D. W., & Chodosh, J. (2011b). Computational analysis and identification of an emergent human adenovirus pathogen implicated in a respiratory fatality. Virology, 409, 141\u2013147.","journal-title":"Virology"},{"key":"112_CR62","doi-asserted-by":"publisher","first-page":"1812","DOI":"10.1038\/srep01812","volume":"3","author":"CM Robinson","year":"2013","unstructured":"Robinson, C. M., Singh, G., Lee, J. Y., Dehghan, S., Rajaiya, J., Liu, E. B., Yousuf, M. A., Betensky, R. A., Jones, M. S., Dyer, D. W., et al. (2013). Molecular evolution of human adenoviruses. Scientific Reports, 3, 1812.","journal-title":"Scientific Reports"},{"key":"112_CR63","doi-asserted-by":"publisher","first-page":"3124","DOI":"10.1073\/pnas.0303709101","volume":"101","author":"J Schaack","year":"2004","unstructured":"Schaack, J., Bennett, M. L., Colbert, J. D., Torres, A. V., Clayton, G. H., Ornelles, D., & Moorhead, J. (2004). E1A and E1B proteins inhibit inflammation induced by adenovirus. Proceedings of the National Academy of Sciences of the USA, 101, 3124\u20133129.","journal-title":"Proceedings of the National Academy of Sciences of the USA"},{"key":"112_CR64","doi-asserted-by":"publisher","first-page":"143","DOI":"10.3390\/v11020143","volume":"11","author":"G Singh","year":"2019","unstructured":"Singh, G., Ismail, A. M., Lee, J. Y., Ramke, M., Lee, J. S., Dyer, D. W., Seto, D., Rajaiya, J., & Chodosh, J. (2019). Divergent evolution of E1A CR3 in human adenovirus species D. Viruses, 11, 143.","journal-title":"Viruses"},{"key":"112_CR65","doi-asserted-by":"publisher","first-page":"12481","DOI":"10.1128\/JVI.01927-13","volume":"87","author":"G Singh","year":"2013","unstructured":"Singh, G., Robinson, C. M., Dehghan, S., Jones, M. S., Dyer, D. W., Seto, D., & Chodosh, J. (2013). Homologous recombination in E3 genes of human adenovirus species D. Journal of Virology., 87, 12481\u201312488.","journal-title":"Journal of Virology."},{"key":"112_CR66","doi-asserted-by":"publisher","first-page":"452","DOI":"10.1016\/j.virol.2015.08.018","volume":"485","author":"G Singh","year":"2015","unstructured":"Singh, G., Zhou, X., Lee, J. Y., Yousuf, M. A., Ramke, M., Ismail, A. M., Lee, J. S., Robinson, C. M., Seto, D., Dyer, D. W., et al. (2015). Recombination of the epsilon determinant and corneal tropism: Human adenovirus species D types 15, 29, 56, and 69. Virology, 485, 452\u2013459.","journal-title":"Virology"},{"key":"112_CR67","doi-asserted-by":"publisher","first-page":"325","DOI":"10.1007\/s00430-019-00645-2","volume":"209","author":"AC Stasiak","year":"2020","unstructured":"Stasiak, A. C., & Stehle, T. (2020). Human adenovirus binding to host cell receptors: A structural view. Medical Microbiology and Immunology, 209, 325\u2013333.","journal-title":"Medical Microbiology and Immunology"},{"key":"112_CR68","doi-asserted-by":"publisher","first-page":"170","DOI":"10.3390\/vaccines8020170","volume":"8","author":"T Steffen","year":"2020","unstructured":"Steffen, T., Hassert, M., Hoft, S. G., Stone, E. T., Zhang, J., Geerling, E., Grimberg, B. T., Roberts, M. S., Pinto, A. K., & Brien, J. D. (2020). Immunogenicity and efficacy of a recombinant human adenovirus type 5 vaccine against zika virus. Vaccines, 8, 170.","journal-title":"Vaccines"},{"key":"112_CR69","doi-asserted-by":"publisher","first-page":"719","DOI":"10.1016\/S1473-3099(20)30019-0","volume":"20","author":"MD Tapia","year":"2020","unstructured":"Tapia, M. D., Sow, S. O., Mbaye, K. D., Thiongane, A., Ndiaye, B. P., Ndour, C. T., Mboup, S., Keshinro, B., Kinge, T. N., Vernet, G., et al. (2020). Safety, reactogenicity, and immunogenicity of a chimpanzee adenovirus vectored Ebola vaccine in children in Africa: A randomised, observer-blind, placebo-controlled, phase 2 trial. The Lancet Infectious Diseases, 20, 719\u2013730.","journal-title":"The Lancet Infectious Diseases"},{"key":"112_CR70","doi-asserted-by":"publisher","first-page":"1367","DOI":"10.3390\/v2071367","volume":"2","author":"S Torres","year":"2010","unstructured":"Torres, S., Chodosh, J., Seto, D., & Jones, M. S. (2010). The revolution in viral genomics as exemplified by the bioinformatic analysis of human adenoviruses. Viruses, 2, 1367\u20131381.","journal-title":"Viruses"},{"key":"112_CR72","doi-asserted-by":"publisher","first-page":"171","DOI":"10.1016\/S0074-7696(05)45006-8","volume":"245","author":"RA Villanueva","year":"2005","unstructured":"Villanueva, R. A., Rouill\u00e9, Y., & Dubuisson, J. (2005). Interactions between virus proteins and host cell membranes during the viral life cycle. International Review of Cytology, 245, 171\u2013244.","journal-title":"International Review of Cytology"},{"key":"112_CR73","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0005635","volume":"4","author":"MP Walsh","year":"2009","unstructured":"Walsh, M. P., Chintakuntlawar, A., Robinson, C. M., Madisch, I., Harrach, B., Hudson, N. R., Schnurr, D., Heim, A., Chodosh, J., Seto, D., et al. (2009). Evidence of molecular evolution driven by recombination events influencing tropism in a novel human adenovirus that causes epidemic keratoconjunctivitis. PLoS ONE, 4, e5635.","journal-title":"PLoS ONE"},{"key":"112_CR74","doi-asserted-by":"publisher","first-page":"1358","DOI":"10.4161\/cbt.29842","volume":"15","author":"F Wei","year":"2014","unstructured":"Wei, F., Wang, H., Chen, X., Li, C., & Huang, Q. (2014). Dissecting the roles of E1A and E1B in adenoviral replication and RCAd-enhanced RDAd transduction efficacy on tumor cells. Cancer Biology & Therapy, 15, 1358\u20131366.","journal-title":"Cancer Biology & Therapy"},{"key":"112_CR75","doi-asserted-by":"publisher","first-page":"1106","DOI":"10.2741\/1604","volume":"10","author":"MD Weitzman","year":"2005","unstructured":"Weitzman, M. D. (2005). Functions of the adenovirus E4 proteins and their impact on viral vectors. Frontiers in Bioscience-Landmark, 10, 1106\u20131117.","journal-title":"Frontiers in Bioscience-Landmark"},{"key":"112_CR76","doi-asserted-by":"publisher","first-page":"7836","DOI":"10.1038\/sj.onc.1204861","volume":"20","author":"E White","year":"2001","unstructured":"White, E. (2001). Regulation of the cell cycle and apoptosis by the oncogenes of adenovirus. Oncogene, 20, 7836\u20137846.","journal-title":"Oncogene"},{"key":"112_CR77","doi-asserted-by":"publisher","first-page":"7225","DOI":"10.1128\/JVI.77.13.7225-7235.2003","volume":"77","author":"E Wu","year":"2003","unstructured":"Wu, E., Pache, L., Von Seggern, D. J., Mullen, T. M., Mikyas, Y., Stewart, P. L., & Nemerow, G. R. (2003). Flexibility of the adenovirus fiber is required for efficient receptor interaction. Journal of Virology, 77, 7225\u20137235.","journal-title":"Journal of Virology"}],"container-title":["Journal of Microbiology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s12275-024-00112-5.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1007\/s12275-024-00112-5\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s12275-024-00112-5.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,12,24]],"date-time":"2024-12-24T17:47:04Z","timestamp":1735062424000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1007\/s12275-024-00112-5"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,3,7]]},"references-count":76,"journal-issue":{"issue":"5","published-print":{"date-parts":[[2024,5]]}},"alternative-id":["112"],"URL":"https:\/\/doi.org\/10.1007\/s12275-024-00112-5","relation":{},"ISSN":["1225-8873","1976-3794"],"issn-type":[{"value":"1225-8873","type":"print"},{"value":"1976-3794","type":"electronic"}],"subject":[],"published":{"date-parts":[[2024,3,7]]},"assertion":[{"value":"10 December 2023","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"10 January 2024","order":2,"name":"revised","label":"Revised","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"14 January 2024","order":3,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"7 March 2024","order":4,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Declarations"}},{"value":"The authors have no financial conflicts of interest to declare.","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Conflict of interest"}}]}}