{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,23]],"date-time":"2026-08-23T17:51:46Z","timestamp":1787507506535,"version":"build-2736575974"},"reference-count":101,"publisher":"Oxford University Press (OUP)","issue":"4","license":[{"start":{"date-parts":[[2025,9,30]],"date-time":"2025-09-30T00:00:00Z","timestamp":1759190400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001807","name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de S\u00e3o Paulo","doi-asserted-by":"publisher","award":["20\/08943\u20135"],"award-info":[{"award-number":["20\/08943\u20135"]}],"id":[{"id":"10.13039\/501100001807","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003593","name":"Conselho Nacional de Desenvolvimento Cient\u00edfico e Tecnol\u00f3gico","doi-asserted-by":"publisher","award":["311154\/2021\u20132"],"award-info":[{"award-number":["311154\/2021\u20132"]}],"id":[{"id":"10.13039\/501100003593","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2025,11,6]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>N 6-Methyladenosine (m6A) is a key base modification that regulates RNA stability and translation during viral infection. While m6A methylation of host mRNAs has been studied in SARS-CoV-2-infected cells, its role in long noncoding RNAs (lncRNAs) is unknown. Here, we analyzed direct RNA sequencing (dRNA-seq) data from infected human lung cells (Calu-3) using a machine learning m6A detection framework. We observed a global increase in m6A levels across 10 antiviral response\u2013associated lncRNAs, with UCA1, GAS5, and NORAD\u2014regulators of interferon (IFN) signaling\u2014showing the most pronounced changes. This might, in part, explain the attenuated IFN expression observed in infected cells. We identified methylated DRACH motifs in predicted lncRNA duplex-forming regions, which may favor Hoogsteen base-pairing, which destabilize secondary structures and target interaction sites. These results provide new perspectives on how SARS-CoV-2 could impact lncRNAs to modulate host immunity and viral persistence through m6A-dependent mechanisms.<\/jats:p>","DOI":"10.1093\/narmme\/ugaf034","type":"journal-article","created":{"date-parts":[[2025,9,30]],"date-time":"2025-09-30T12:19:39Z","timestamp":1759234779000},"source":"Crossref","is-referenced-by-count":2,"title":["SARS-CoV-2 reshapes m6A methylation in long noncoding RNAs of human lung cells"],"prefix":"10.1093","volume":"2","author":[{"given":"Cristina M","family":"Peter","sequence":"first","affiliation":[{"name":"Center for Medical Bioinformatics, Escola Paulista de Medicina, Federal University of S\u00e3o Paulo (UNIFESP) , S\u00e3o Paulo 04039-032, SP ,","place":["Brazil"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Caio O","family":"Cyrino","sequence":"additional","affiliation":[{"name":"Center for Medical Bioinformatics, Escola Paulista de Medicina, Federal University of S\u00e3o Paulo (UNIFESP) , S\u00e3o Paulo 04039-032, SP ,","place":["Brazil"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nilmar S","family":"Moretti","sequence":"additional","affiliation":[{"name":"Departamento de Microbiologia, Imunologia e Parasitologia, Escola Paulista de Medicina, Federal University of S\u00e3o Paulo (UNIFESP) , S\u00e3o Paulo 04023-062, SP ,","place":["Brazil"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Fernando","family":"Antoneli","sequence":"additional","affiliation":[{"name":"Center for Medical Bioinformatics, Escola Paulista de Medicina, Federal University of S\u00e3o Paulo (UNIFESP) , S\u00e3o Paulo 04039-032, SP ,","place":["Brazil"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8045-2477","authenticated-orcid":false,"given":"Marcelo R\u00a0S","family":"Briones","sequence":"additional","affiliation":[{"name":"Center for Medical Bioinformatics, Escola Paulista de Medicina, Federal 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