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Specifically, we conducted a transcriptomic analysis to annotate the transcription start sites (TSSs) and transcription end sites (TESs) of the virus by utilizing Cap Analysis of gene expression sequencing on the Illumina platform and direct RNA sequencing on the Oxford Nanopore technology device. Our investigations uncovered significant complexity in the use of alternative TSSs and TESs in viral genes. In this research, we also detected the promoter elements and poly(A) signals associated with the viral genes. Additionally, we identified novel genes in both the left and right variable regions of the viral genome.<\/jats:p>\n                    <jats:sec>\n                      <jats:title>IMPORTANCE<\/jats:title>\n                      <jats:p>Generally, gaining insight into how the transcription of a virus is regulated offers insights into the key mechanisms that control its life cycle. The recent outbreak of the human monkeypox virus has underscored the necessity of understanding the basic biology of its causative agent. Our results are pivotal for constructing a comprehensive transcriptomic atlas of the human monkeypox virus, providing valuable resources for future studies.<\/jats:p>\n                    <\/jats:sec>\n                  <\/jats:sec>","DOI":"10.1128\/msphere.00356-24","type":"journal-article","created":{"date-parts":[[2024,8,27]],"date-time":"2024-08-27T19:33:10Z","timestamp":1724787190000},"update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":4,"title":["Exploring the transcriptomic profile of human monkeypox virus via CAGE and native RNA sequencing approaches"],"prefix":"10.1128","volume":"9","author":[{"given":"Gergely \u00c1rmin","family":"Nagy","sequence":"first","affiliation":[{"name":"Department of Medical Biology, Albert Szent-Gy\u00f6rgyi Medical School, University of Szeged, Szeged, Hungary"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5520-2978","authenticated-orcid":false,"given":"D\u00f3ra","family":"Tomb\u00e1cz","sequence":"additional","affiliation":[{"name":"Department of Medical Biology, Albert Szent-Gy\u00f6rgyi Medical School, University of Szeged, Szeged, Hungary"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Istv\u00e1n","family":"Prazs\u00e1k","sequence":"additional","affiliation":[{"name":"Department of Medical Biology, Albert Szent-Gy\u00f6rgyi Medical School, University of Szeged, Szeged, Hungary"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zsolt","family":"Csabai","sequence":"additional","affiliation":[{"name":"Department of Medical Biology, Albert Szent-Gy\u00f6rgyi Medical School, University of Szeged, Szeged, Hungary"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"\u00c1kos","family":"D\u00f6rm\u0151","sequence":"additional","affiliation":[{"name":"Department of Medical Biology, Albert Szent-Gy\u00f6rgyi Medical School, University of Szeged, Szeged, Hungary"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"G\u00e1bor","family":"Guly\u00e1s","sequence":"additional","affiliation":[{"name":"Department of Medical Biology, Albert Szent-Gy\u00f6rgyi Medical School, University of Szeged, Szeged, Hungary"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"G\u00e1bor","family":"Kemenesi","sequence":"additional","affiliation":[{"name":"National Laboratory of Virology, Szent\u00e1gothai Research Centre, University of P\u00e9cs, P\u00e9cs, Hungary"},{"name":"Institute of Biology, Faculty of Sciences, University of P\u00e9cs, P\u00e9cs, Hungary"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"G\u00e1bor E.","family":"T\u00f3th","sequence":"additional","affiliation":[{"name":"National Laboratory of Virology, Szent\u00e1gothai Research Centre, University of P\u00e9cs, P\u00e9cs, Hungary"},{"name":"Institute of Biology, Faculty of Sciences, University of P\u00e9cs, P\u00e9cs, Hungary"},{"name":"Bernhard Nocht Institute for Tropical Medicine, WHO Collaborating Centre for Arbovirus and Hemorrhagic Fever Reference and Research, Hamburg, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ji\u0159\u00ed","family":"Holoubek","sequence":"additional","affiliation":[{"name":"Veterinary Research Institute, Brno, Czechia"},{"name":"Institute of Parasitology, Biology Centre of the Czech Academy of Sciences, Ceske Budejovice, Czechia"},{"name":"Department of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czechia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Daniel","family":"R\u016f\u017eek","sequence":"additional","affiliation":[{"name":"Veterinary Research Institute, Brno, Czechia"},{"name":"Institute of Parasitology, Biology Centre of the Czech Academy of Sciences, Ceske Budejovice, Czechia"},{"name":"Department of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czechia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Bal\u00e1zs","family":"Kakuk","sequence":"additional","affiliation":[{"name":"Department of Medical Biology, Albert Szent-Gy\u00f6rgyi Medical School, University of Szeged, Szeged, Hungary"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1184-7293","authenticated-orcid":false,"given":"Zsolt","family":"Boldogk\u0151i","sequence":"additional","affiliation":[{"name":"Department of Medical Biology, Albert Szent-Gy\u00f6rgyi Medical School, University of Szeged, Szeged, Hungary"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"235","reference":[{"key":"e_1_3_5_2_2","doi-asserted-by":"publisher","DOI":"10.1067\/mjd.2001.109302"},{"key":"e_1_3_5_3_2","doi-asserted-by":"publisher","DOI":"10.1101\/cshperspect.a010199"},{"key":"e_1_3_5_4_2","first-page":"573","volume-title":"Field\u2019s virology","author":"Moss B","year":"2021","unstructured":"Moss B, Smith GL. 2021. 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