The recent human Monkeypox outbreak underlined the importance of studying basic biology of orthopoxviruses. However, the transcriptome of its causative agent has not been investigated before neither with short-, nor with long-read sequencing approaches. This Oxford Nanopore long-read RNA-Sequencing dataset fills this gap. It will enable the in-depth characterization of the transcriptomic architecture of the monkeypox virus, and may even make possible to annotate novel host transcripts. Moreover, our direct cDNA and native RNA sequencing reads will allow the estimation of gene expression changes of both the virus and the host cells during the infection. Overall, our study will lead to a deeper understanding of the alterations caused by the viral infection on a transcriptome level.

Department of Experimental Biology Faculty of Science Masaryk University Kamenice 753 5 Brno CZ 62500 Czech Republic

Department of Medical Biology Albert Szent Györgyi Medical School University of Szeged Somogyi u 4 6720 Szeged Hungary

Department of Microbiology and Infectious Diseases University of Veterinary Medicine Budapest 1143 Budapest Hungária krt 23 25 Hungary

Institute of Biology Faculty of Sciences University of Pécs Pécs Hungary

Institute of Parasitology Biology Centre of the Czech Academy of Sciences Branisovska 31 CZ 37005 Ceske Budejovice Czech Republic

National Laboratory of Virology Szentágothai Research Centre University of Pécs Pécs Hungary

Veterinary Research Institute Hudcova 70 CZ 62100 Brno Czech Republic

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