Functional RNA Structures in the 3′UTR of Tick-Borne, Insect-Specific and No-Known-Vector Flaviviruses
Department of Theoretical Chemistry, University of Vienna, Währingerstraße 17, 1090 Vienna, Austria
Research Group BCB, Faculty of Computer Science, University of Vienna, Währingerstraße 29, 1090 Vienna, Austria
Author to whom correspondence should be addressed.
Received: 1 March 2019 / Revised: 19 March 2019 / Accepted: 20 March 2019 / Published: 24 March 2019
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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.
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Externally hosted supplementary file 1
Description: Supporting data for Ochsenreiter et al. (2019), including xrRNA covariance models, seed alignments and xrRNA coordinates
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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.
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.
Ochsenreiter, Roman; Hofacker, Ivo L.; Wolfinger, Michael T. 2019. "Functional RNA Structures in the 3′UTR of Tick-Borne, Insect-Specific and No-Known-Vector Flaviviruses." Viruses 11, no. 3: 298.
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