{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,3,28]],"date-time":"2025-03-28T04:14:35Z","timestamp":1743135275749,"version":"3.40.3"},"publisher-location":"New York, NY","reference-count":40,"publisher":"Springer US","isbn-type":[{"type":"print","value":"9781071641590"},{"type":"electronic","value":"9781071641606"}],"license":[{"start":{"date-parts":[[2024,12,3]],"date-time":"2024-12-03T00:00:00Z","timestamp":1733184000000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"},{"start":{"date-parts":[[2024,12,3]],"date-time":"2024-12-03T00:00:00Z","timestamp":1733184000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2025]]},"DOI":"10.1007\/978-1-0716-4160-6_17","type":"book-chapter","created":{"date-parts":[[2024,12,2]],"date-time":"2024-12-02T12:02:23Z","timestamp":1733140943000},"page":"257-272","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["An Evolutionary Framework Exploiting Virologs and Their Host Origins to Inform Poxvirus Protein Functions"],"prefix":"10.1007","author":[{"given":"Dustin C.","family":"Hancks","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2024,12,3]]},"reference":[{"key":"17_CR1","doi-asserted-by":"publisher","first-page":"2033","DOI":"10.1126\/science.1081867","volume":"299","author":"BL Scola","year":"2003","unstructured":"Scola BL, Audic S, Robert C et al (2003) A giant virus in amoebae. Science 299:2033\u20132033. https:\/\/doi.org\/10.1126\/science.1081867","journal-title":"Science"},{"key":"17_CR2","doi-asserted-by":"publisher","first-page":"1344","DOI":"10.1126\/science.1101485","volume":"306","author":"D Raoult","year":"2004","unstructured":"Raoult D, Audic S, Robert C et al (2004) The 1.2-megabase genome sequence of Mimivirus. Science 306:1344\u20131350. https:\/\/doi.org\/10.1126\/science.1101485","journal-title":"Science"},{"key":"17_CR3","doi-asserted-by":"publisher","first-page":"521","DOI":"10.1038\/nri845","volume":"2","author":"GL Smith","year":"2002","unstructured":"Smith GL, McFadden G (2002) Smallpox: anything to declare? Nat Rev Immunol 2:521\u2013527. https:\/\/doi.org\/10.1038\/nri845","journal-title":"Nat Rev Immunol"},{"key":"17_CR4","doi-asserted-by":"publisher","DOI":"10.1016\/j.lpm.2022.104117","volume":"51","author":"P Berche","year":"2022","unstructured":"Berche P (2022) Life and death of smallpox. Presse Med 51:104117. https:\/\/doi.org\/10.1016\/j.lpm.2022.104117","journal-title":"Presse Med"},{"key":"17_CR5","doi-asserted-by":"publisher","first-page":"mgen000932","DOI":"10.1099\/mgen.0.000932","volume":"9","author":"D Forni","year":"2023","unstructured":"Forni D, Molteni C, Cagliani R et al (2023) Analysis of variola virus molecular evolution suggests an old origin of the virus consistent with historical records. Microb Genom 9:mgen000932. https:\/\/doi.org\/10.1099\/mgen.0.000932","journal-title":"Microb Genom"},{"key":"17_CR6","doi-asserted-by":"publisher","first-page":"522","DOI":"10.1002\/9781119650836.ch53","volume-title":"Veterinary microbiology","author":"G Delhon","year":"2022","unstructured":"Delhon G (2022) Poxviridae. In: Veterinary microbiology. Wiley, Hoboken, pp 522\u2013532"},{"key":"17_CR7","doi-asserted-by":"publisher","first-page":"1726","DOI":"10.3390\/v7041726","volume":"7","author":"L S\u00e1nchez-Sampedro","year":"2015","unstructured":"S\u00e1nchez-Sampedro L, Perdiguero B, Mej\u00edas-P\u00e9rez E et al (2015) The evolution of poxvirus vaccines. Viruses 7:1726\u20131803. https:\/\/doi.org\/10.3390\/v7041726","journal-title":"Viruses"},{"key":"17_CR8","doi-asserted-by":"publisher","DOI":"10.1016\/j.jmb.2023.168173","volume":"435","author":"B Perdiguero","year":"2023","unstructured":"Perdiguero B, P\u00e9rez P, Marcos-Villar L et al (2023) Highly attenuated poxvirus-based vaccines against emerging viral diseases. J Mol Biol 435:168173. https:\/\/doi.org\/10.1016\/j.jmb.2023.168173","journal-title":"J Mol Biol"},{"key":"17_CR9","doi-asserted-by":"publisher","first-page":"8122","DOI":"10.1073\/pnas.83.21.8122","volume":"83","author":"TR Fuerst","year":"1986","unstructured":"Fuerst TR, Niles EG, Studier FW, Moss B (1986) Eukaryotic transient-expression system based on recombinant vaccinia virus that synthesizes bacteriophage T7 RNA polymerase. Proc Natl Acad Sci 83:8122\u20138126. https:\/\/doi.org\/10.1073\/pnas.83.21.8122","journal-title":"Proc Natl Acad Sci"},{"key":"17_CR10","doi-asserted-by":"publisher","first-page":"561","DOI":"10.1080\/14712598.2019.1600669","volume":"19","author":"LE Torres-Dom\u00ednguez","year":"2019","unstructured":"Torres-Dom\u00ednguez LE, McFadden G (2019) Poxvirus oncolytic virotherapy. Expert Opin Biol Ther 19:561\u2013573. https:\/\/doi.org\/10.1080\/14712598.2019.1600669","journal-title":"Expert Opin Biol Ther"},{"key":"17_CR11","doi-asserted-by":"publisher","first-page":"5452","DOI":"10.3390\/cancers13215452","volume":"13","author":"MM Rahman","year":"2021","unstructured":"Rahman MM, McFadden G (2021) Oncolytic viruses: newest frontier for cancer immunotherapy. Cancers 13:5452. https:\/\/doi.org\/10.3390\/cancers13215452","journal-title":"Cancers"},{"key":"17_CR12","doi-asserted-by":"publisher","first-page":"247","DOI":"10.1016\/0042-6822(90)90294-2","volume":"179","author":"SJ Goebel","year":"1990","unstructured":"Goebel SJ, Johnson GP, Perkus ME et al (1990) The complete DNA sequence of vaccinia virus. Virology 179:247\u2013266. https:\/\/doi.org\/10.1016\/0042-6822(90)90294-2","journal-title":"Virology"},{"key":"17_CR13","doi-asserted-by":"publisher","first-page":"239","DOI":"10.1146\/annurev-virology-091919-104752","volume":"9","author":"MD Greseth","year":"2022","unstructured":"Greseth MD, Traktman P (2022) The life cycle of the vaccinia virus genome. Annu Rev Virol 9:239\u2013259. https:\/\/doi.org\/10.1146\/annurev-virology-091919-104752","journal-title":"Annu Rev Virol"},{"key":"17_CR14","doi-asserted-by":"publisher","first-page":"779","DOI":"10.1038\/s41594-021-00655-w","volume":"28","author":"C Grimm","year":"2021","unstructured":"Grimm C, Bartuli J, Boettcher B et al (2021) Structural basis of the complete poxvirus transcription initiation process. Nat Struct Mol Biol 28:779\u2013788. https:\/\/doi.org\/10.1038\/s41594-021-00655-w","journal-title":"Nat Struct Mol Biol"},{"key":"17_CR15","doi-asserted-by":"publisher","first-page":"1537","DOI":"10.1016\/j.cell.2019.11.024","volume":"179","author":"C Grimm","year":"2019","unstructured":"Grimm C, Hillen HS, Bedenk K et al (2019) Structural basis of poxvirus transcription: vaccinia RNA polymerase complexes. Cell 179:1537\u20131550.e19. https:\/\/doi.org\/10.1016\/j.cell.2019.11.024","journal-title":"Cell"},{"key":"17_CR16","doi-asserted-by":"publisher","first-page":"765","DOI":"10.3390\/biomedicines9070765","volume":"9","author":"H Yu","year":"2021","unstructured":"Yu H, Bruneau RC, Brennan G, Rothenburg S (2021) Battle Royale: innate recognition of poxviruses and viral immune evasion. Biomedicines 9:765. https:\/\/doi.org\/10.3390\/biomedicines9070765","journal-title":"Biomedicines"},{"key":"17_CR17","doi-asserted-by":"publisher","first-page":"677","DOI":"10.1146\/annurev-genet-110711-155522","volume":"46","author":"MD Daugherty","year":"2012","unstructured":"Daugherty MD, Malik HS (2012) Rules of engagement: molecular insights from host-virus arms races. Annu Rev Genet 46:677\u2013700. https:\/\/doi.org\/10.1146\/annurev-genet-110711-155522","journal-title":"Annu Rev Genet"},{"key":"17_CR18","doi-asserted-by":"publisher","first-page":"e01526-22","DOI":"10.1128\/mbio.01526-22","volume":"14","author":"G Brennan","year":"2022","unstructured":"Brennan G, Stoian AMM, Yu H et al (2022) Molecular mechanisms of poxvirus evolution. MBio 14:e01526-22. https:\/\/doi.org\/10.1128\/mbio.01526-22","journal-title":"MBio"},{"key":"17_CR19","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pbio.3001045","volume":"18","author":"M Sorouri","year":"2020","unstructured":"Sorouri M, Chang T, Jesudhasan P et al (2020) Signatures of host\u2013pathogen evolutionary conflict reveal MISTR\u2014a conserved MItochondrial STress Response network. PLoS Biol 18:e3001045. https:\/\/doi.org\/10.1371\/journal.pbio.3001045","journal-title":"PLoS Biol"},{"key":"17_CR20","doi-asserted-by":"publisher","first-page":"e02096-21","DOI":"10.1128\/mbio.02096-21","volume":"13","author":"M Sorouri","year":"2022","unstructured":"Sorouri M, Chang T, Hancks DC (2022) Mitochondria and viral infection: advances and emerging battlefronts. MBio 13:e02096-21. https:\/\/doi.org\/10.1128\/mbio.02096-21","journal-title":"MBio"},{"key":"17_CR21","doi-asserted-by":"publisher","first-page":"fuad053","DOI":"10.1093\/femsre\/fuad053","volume":"47","author":"M Moniruzzaman","year":"2023","unstructured":"Moniruzzaman M, Garcia MPE, Farzad R et al (2023) Virologs, viral mimicry, and virocell metabolism: the expanding scale of cellular functions encoded in the complex genomes of giant viruses. FEMS Microbiol Rev 47:fuad053. https:\/\/doi.org\/10.1093\/femsre\/fuad053","journal-title":"FEMS Microbiol Rev"},{"key":"17_CR22","doi-asserted-by":"publisher","first-page":"3493","DOI":"10.1007\/s00018-012-1252-6","volume":"70","author":"N Donnelly","year":"2013","unstructured":"Donnelly N, Gorman AM, Gupta S, Samali A (2013) The eIF2\u03b1 kinases: their structures and functions. Cell Mol Life Sci 70:3493\u20133511. https:\/\/doi.org\/10.1007\/s00018-012-1252-6","journal-title":"Cell Mol Life Sci"},{"key":"17_CR23","doi-asserted-by":"publisher","first-page":"295","DOI":"10.1016\/s1097-2765(02)00590-7","volume":"10","author":"AC Dar","year":"2002","unstructured":"Dar AC, Sicheri F (2002) X-ray crystal structure and functional analysis of vaccinia virus K3L reveals molecular determinants for PKR subversion and substrate recognition. Mol Cell 10:295\u2013305. https:\/\/doi.org\/10.1016\/s1097-2765(02)00590-7","journal-title":"Mol Cell"},{"key":"17_CR24","doi-asserted-by":"publisher","first-page":"15974","DOI":"10.1074\/jbc.270.27.15974","volume":"270","author":"OR Colamonici","year":"1995","unstructured":"Colamonici OR, Domanski P, Sweitzer SM et al (1995) Vaccinia virus B18R gene encodes a type I interferon-binding protein that blocks interferon \u03b1 transmembrane signaling (\u2217). J Biol Chem 270:15974\u201315978. https:\/\/doi.org\/10.1074\/jbc.270.27.15974","journal-title":"J Biol Chem"},{"key":"17_CR25","doi-asserted-by":"publisher","first-page":"4633","DOI":"10.1128\/jvi.69.8.4633-4639.1995","volume":"69","author":"A Alcam\u00ed","year":"1995","unstructured":"Alcam\u00ed A, Smith GL (1995) Vaccinia, cowpox, and camelpox viruses encode soluble gamma interferon receptors with novel broad species specificity. J Virol 69:4633\u20134639. https:\/\/doi.org\/10.1128\/jvi.69.8.4633-4639.1995","journal-title":"J Virol"},{"key":"17_CR26","doi-asserted-by":"publisher","first-page":"1431","DOI":"10.1126\/science.2420005","volume":"231","author":"J Cooper","year":"1986","unstructured":"Cooper J, Gould K, Cartwright C, Hunter T (1986) Tyr527 is phosphorylated in pp60c-src: implications for regulation. Science 231:1431. https:\/\/doi.org\/10.1126\/science.2420005","journal-title":"Science"},{"key":"17_CR27","doi-asserted-by":"publisher","first-page":"3309","DOI":"10.1016\/j.celrep.2019.08.055","volume":"28","author":"EJ Petrie","year":"2019","unstructured":"Petrie EJ, Sandow JJ, Lehmann WIL et al (2019) Viral MLKL homologs subvert necroptotic cell death by sequestering cellular RIPK3. Cell Rep 28:3309\u20133319.e5. https:\/\/doi.org\/10.1016\/j.celrep.2019.08.055","journal-title":"Cell Rep"},{"key":"17_CR28","doi-asserted-by":"publisher","first-page":"5405","DOI":"10.1093\/molbev\/msab256","volume":"38","author":"SN Palmer","year":"2021","unstructured":"Palmer SN, Chappidi S, Pinkham C, Hancks DC (2021) Evolutionary profile for (host and viral) MLKL indicates its activities as a battlefront for extensive counteradaptation. Mol Biol Evol 38:5405\u20135422. https:\/\/doi.org\/10.1093\/molbev\/msab256","journal-title":"Mol Biol Evol"},{"key":"17_CR29","doi-asserted-by":"publisher","first-page":"152","DOI":"10.1038\/s41586-023-05851-w","volume":"616","author":"G Wang","year":"2023","unstructured":"Wang G, Zhang D, Orchard RC et al (2023) Norovirus MLKL-like protein initiates cell death to induce viral egress. Nature 616:152\u2013158. https:\/\/doi.org\/10.1038\/s41586-023-05851-w","journal-title":"Nature"},{"key":"17_CR30","doi-asserted-by":"publisher","first-page":"W228","DOI":"10.1093\/nar\/gkac278","volume":"50","author":"V Thumuluri","year":"2022","unstructured":"Thumuluri V, Armenteros JJA, Johansen AR et al (2022) DeepLoc 2.0: multi-label subcellular localization prediction using protein language models. Nucleic Acids Res 50:W228\u2013W234. https:\/\/doi.org\/10.1093\/nar\/gkac278","journal-title":"Nucleic Acids Res"},{"key":"17_CR31","doi-asserted-by":"publisher","first-page":"D1040","DOI":"10.1093\/nar\/gks1215","volume":"41","author":"I Rusinova","year":"2013","unstructured":"Rusinova I, Forster S, Yu S et al (2013) INTERFEROME v2.0: an updated database of annotated interferon-regulated genes. Nucleic Acids Res 41:D1040\u2013D1046. https:\/\/doi.org\/10.1093\/nar\/gks1215","journal-title":"Nucleic Acids Res"},{"key":"17_CR32","doi-asserted-by":"publisher","first-page":"1260419","DOI":"10.1126\/science.1260419","volume":"347","author":"M Uhl\u00e9n","year":"2015","unstructured":"Uhl\u00e9n M, Fagerberg L, Hallstr\u00f6m BM et al (2015) Tissue-based map of the human proteome. Science 347:1260419. https:\/\/doi.org\/10.1126\/science.1260419","journal-title":"Science"},{"key":"17_CR33","doi-asserted-by":"publisher","first-page":"1091","DOI":"10.1038\/ni1008-1091","volume":"9","author":"TSP Heng","year":"2008","unstructured":"The Immunological Genome Project Consortium, Heng TSP, Painter MW et al (2008) The Immunological Genome Project: networks of gene expression in immune cells. Nat Immunol 9:1091\u20131094. https:\/\/doi.org\/10.1038\/ni1008-1091","journal-title":"Nat Immunol"},{"key":"17_CR34","doi-asserted-by":"publisher","first-page":"W556","DOI":"10.1093\/nar\/gkz430","volume":"47","author":"Z Tang","year":"2019","unstructured":"Tang Z, Kang B, Li C et al (2019) GEPIA2: an enhanced web server for large-scale expression profiling and interactive analysis. Nucleic Acids Res 47:W556\u2013W560. https:\/\/doi.org\/10.1093\/nar\/gkz430","journal-title":"Nucleic Acids Res"},{"key":"17_CR35","doi-asserted-by":"publisher","first-page":"1113","DOI":"10.1038\/ng.2764","volume":"45","author":"K Chang","year":"2013","unstructured":"Chang K, Creighton CJ, Davis C et al (2013) The Cancer Genome Atlas Pan-Cancer analysis project. Nat Genet 45:1113\u20131120. https:\/\/doi.org\/10.1038\/ng.2764","journal-title":"Nat Genet"},{"key":"17_CR36","doi-asserted-by":"publisher","first-page":"660","DOI":"10.1126\/science.aaa0355","volume":"348","author":"M Mel\u00e9","year":"2015","unstructured":"Mel\u00e9 M, Ferreira PG, Reverter F et al (2015) The human transcriptome across tissues and individuals. Science 348:660\u2013665. https:\/\/doi.org\/10.1126\/science.aaa0355","journal-title":"Science"},{"key":"17_CR37","doi-asserted-by":"publisher","first-page":"1113","DOI":"10.1074\/mcp.m114.043083","volume":"14","author":"Y Fukasawa","year":"2015","unstructured":"Fukasawa Y, Tsuji J, Fu S-C et al (2015) MitoFates: improved prediction of mitochondrial targeting sequences and their cleavage sites. Mol Cell Proteomics 14:1113. https:\/\/doi.org\/10.1074\/mcp.m114.043083","journal-title":"Mol Cell Proteomics"},{"key":"17_CR38","doi-asserted-by":"publisher","first-page":"371","DOI":"10.1016\/0092-8674(78)90205-2","volume":"13","author":"DH Spector","year":"1978","unstructured":"Spector DH, Smith K, Padgett T et al (1978) Uninfected avian cells contain RNA related to the transforming gene of avian sarcoma viruses. Cell 13:371\u2013379. https:\/\/doi.org\/10.1016\/0092-8674(78)90205-2","journal-title":"Cell"},{"key":"17_CR39","doi-asserted-by":"publisher","first-page":"669","DOI":"10.1016\/j.cell.2005.08.012","volume":"122","author":"RB Seth","year":"2005","unstructured":"Seth RB, Sun L, Ea C-K, Chen ZJ (2005) Identification and characterization of MAVS, a mitochondrial antiviral signaling protein that activates NF-\u03baB and IRF3. Cell 122:669\u2013682. https:\/\/doi.org\/10.1016\/j.cell.2005.08.012","journal-title":"Cell"},{"key":"17_CR40","doi-asserted-by":"publisher","first-page":"674","DOI":"10.1038\/nature07317","volume":"455","author":"H Ishikawa","year":"2008","unstructured":"Ishikawa H, Barber GN (2008) STING is an endoplasmic reticulum adaptor that facilitates innate immune signalling. Nature 455:674\u2013678. https:\/\/doi.org\/10.1038\/nature07317","journal-title":"Nature"}],"container-title":["Methods in Molecular Biology","Vaccinia, Mpox, and Other Poxviruses"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/978-1-0716-4160-6_17","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,3,28]],"date-time":"2025-03-28T02:44:45Z","timestamp":1743129885000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1007\/978-1-0716-4160-6_17"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,12,3]]},"ISBN":["9781071641590","9781071641606"],"references-count":40,"URL":"https:\/\/doi.org\/10.1007\/978-1-0716-4160-6_17","relation":{},"ISSN":["1064-3745","1940-6029"],"issn-type":[{"type":"print","value":"1064-3745"},{"type":"electronic","value":"1940-6029"}],"subject":[],"published":{"date-parts":[[2024,12,3]]},"assertion":[{"value":"3 December 2024","order":1,"name":"first_online","label":"First Online","group":{"name":"ChapterHistory","label":"Chapter History"}}]}}