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Article

Functional RNA Structures in the 3′UTR of Tick-Borne, Insect-Specific and No-Known-Vector Flaviviruses

1
Department of Theoretical Chemistry, University of Vienna, Währingerstraße 17, 1090 Vienna, Austria
2
Research Group BCB, Faculty of Computer Science, University of Vienna, Währingerstraße 29, 1090 Vienna, Austria
*
Author to whom correspondence should be addressed.
Viruses 2019, 11(3), 298; https://doi.org/10.3390/v11030298
Received: 1 March 2019 / Revised: 19 March 2019 / Accepted: 20 March 2019 / Published: 24 March 2019
(This article belongs to the Special Issue Virus Bioinformatics)
Untranslated regions (UTRs) of flaviviruses contain a large number of RNA structural elements involved in mediating the viral life cycle, including cyclisation, replication, and encapsidation. Here we report on a comparative genomics approach to characterize evolutionarily conserved RNAs in the 3 UTR of tick-borne, insect-specific and no-known-vector flaviviruses in silico. Our data support the wide distribution of previously experimentally characterized exoribonuclease resistant RNAs (xrRNAs) within tick-borne and no-known-vector flaviviruses and provide evidence for the existence of a cascade of duplicated RNA structures within insect-specific flaviviruses. On a broader scale, our findings indicate that viral 3 UTRs represent a flexible scaffold for evolution to come up with novel xrRNAs. View Full-Text
Keywords: flavivirus; non-coding RNA; secondary structure flavivirus; non-coding RNA; secondary structure
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Figure 1

  • Externally hosted supplementary file 1
    Link: https://github.com/mtw/ITNFV-Data
    Description: Supporting data for Ochsenreiter et al. (2019), including xrRNA covariance models, seed alignments and xrRNA coordinates
MDPI and ACS Style

Ochsenreiter, R.; Hofacker, I.L.; Wolfinger, M.T. Functional RNA Structures in the 3′UTR of Tick-Borne, Insect-Specific and No-Known-Vector Flaviviruses. Viruses 2019, 11, 298. https://doi.org/10.3390/v11030298

AMA Style

Ochsenreiter R, Hofacker IL, Wolfinger MT. Functional RNA Structures in the 3′UTR of Tick-Borne, Insect-Specific and No-Known-Vector Flaviviruses. Viruses. 2019; 11(3):298. https://doi.org/10.3390/v11030298

Chicago/Turabian Style

Ochsenreiter, Roman, Ivo L. Hofacker, and Michael T. Wolfinger. 2019. "Functional RNA Structures in the 3′UTR of Tick-Borne, Insect-Specific and No-Known-Vector Flaviviruses" Viruses 11, no. 3: 298. https://doi.org/10.3390/v11030298

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