Transcriptome dataset of six human pathogen RNA viruses generated by nanopore sequencing
István Prazsák,
Zsolt Csabai,
Gábor Torma,
Henrietta Papp,
Fanni Földes,
Gábor Kemenesi,
Ferenc Jakab,
Gábor Gulyás,
Ádám Fülöp,
Klára Megyeri,
Béla Dénes,
Zsolt Boldogkői,
Dóra Tombácz
Affiliations
István Prazsák
Department of Medical Biology, Albert Szent-Györgyi Medical School, University of Szeged, Szeged, Hungary
Zsolt Csabai
Department of Medical Biology, Albert Szent-Györgyi Medical School, University of Szeged, Szeged, Hungary
Gábor Torma
Department of Medical Biology, Albert Szent-Györgyi Medical School, University of Szeged, Szeged, Hungary
Henrietta Papp
National Laboratory of Virology, Szentágothai Research Centre, University of Pécs, Pécs, Hungary; Institute of Biology, Faculty of Sciences, University of Pécs, Pécs, Hungary
Fanni Földes
National Laboratory of Virology, Szentágothai Research Centre, University of Pécs, Pécs, Hungary; Institute of Biology, Faculty of Sciences, University of Pécs, Pécs, Hungary
Gábor Kemenesi
National Laboratory of Virology, Szentágothai Research Centre, University of Pécs, Pécs, Hungary; Institute of Biology, Faculty of Sciences, University of Pécs, Pécs, Hungary
Ferenc Jakab
National Laboratory of Virology, Szentágothai Research Centre, University of Pécs, Pécs, Hungary; Institute of Biology, Faculty of Sciences, University of Pécs, Pécs, Hungary
Gábor Gulyás
Department of Medical Biology, Albert Szent-Györgyi Medical School, University of Szeged, Szeged, Hungary
Ádám Fülöp
Department of Medical Biology, Albert Szent-Györgyi Medical School, University of Szeged, Szeged, Hungary
Klára Megyeri
Department of Medical Microbiology and Immunobiology, Albert Szent-Györgyi Medical School, University of Szeged, Szeged, Hungary
Béla Dénes
Veterinary Diagnostic Directorate, National Food Chain Safety Office, Budapest, Hungary
Zsolt Boldogkői
Department of Medical Biology, Albert Szent-Györgyi Medical School, University of Szeged, Szeged, Hungary; Corresponding authors at: Department of Medical Biology, Albert Szent-Györgyi Medical School, University of Szeged, Szeged, Hungary.
Dóra Tombácz
Department of Medical Biology, Albert Szent-Györgyi Medical School, University of Szeged, Szeged, Hungary; MTA-SZTE Momentum GeMiNI Research Group, University of Szeged, Szeged, Hungary; Corresponding authors at: Department of Medical Biology, Albert Szent-Györgyi Medical School, University of Szeged, Szeged, Hungary.
Long-read sequencing (LRS) approaches shed new light on the complexity of viral (Kakuk et al., 2021 [1]; Boldogkői et al., 2019 [2]; Depledge et a., 2019 [3]), bacterial (Yan et al., 2018 [4]) and eukaryotic (Tilgner et al., 2014 [5]) transcriptomes. Emerging RNA viruses are zoonotic (Woolhouse et al., 2016 [6]) and create public health problems, e.g. influenza pandemic caused by H1N1 virus in (Fraser et al., 2009 [7]), as well as the current SARS-CoV-2 pandemic (Kim et al., 2020 [8]). In this study, we carried out nanopore sequencing for generating transcriptomic data valuable for structural and kinetic profiling of six important human pathogen RNA viruses, the H1N1 subtype of Influenza A virus (IVA), the Zika virus (ZIKV), the West Nile virus (WNV), the Crimean-Congo hemorrhagic fever virus (CCHFV), the Coxsackievirus [group B serotype 5 (CVB5)] and the Vesicular stomatitis Indiana virus (VSIV), and the response of host cells upon viral infection. The raw sequencing data were filtered during basecalling and only high quality reads (Qscore ≥ 7) were mapped to the appropriate viral and host genomes. Length distribution of sequencing reads were assessed and statistics of data were plotted by the ReadStat.4 python script. The datasets can be used to profile the transcriptomic landscape of RNA viruses, provide information for novel gene annotations, can serve as resource for studying the virus-host interactions, and for the analysis of RNA base modifications. These datasets can be used to compare the different sequencing techniques, library preparation approaches, bioinformatics pipelines, and to analyze the RNA profiles of viruses with small RNA genomes.
