Recombination Located over 2A-2B Junction Ribosome Frameshifting Region of Saffold Cardiovirus
Institute of Tropical Medicine, University of São Paulo, São Paulo 05403-000, Brazil
Enteric Disease Laboratory, Virology Center, Adolfo Lutz Institute, São Paulo 01246-000, Brazil
LIM/46, Faculty of Medicine, University of São Paulo, São Paulo 01246-903, Brazil
Secretary of Health of Tocantins, Tocantins 77453-000, Brazil
Institute of Biological Sciences, Federal University of Tocantins, Tocantins 77001-090, Brazil
Public Health Laboratory of Tocantins State (LACEN/TO), Tocantins 77016-330, Brazil
Postgraduate Program in Health Science, Faculty of Medicine of ABC, Santo André 09060-870, Brazil
Retrovirology Laboratory, Federal University of São Paulo, São Paulo 04023-062, Brazil
Blood Systems Research Institute, San Francisco, CA 94143, USA
Department Laboratory Medicine, University of California San Francisco, San Francisco, CA 94143, USA
Institute of Biological Sciences, Federal University of Pará, Pará 66075-000, Brazil
Authors to whom correspondence should be addressed.
These authors contributed equally to this work.
These authors jointly supervised this work.
Viruses 2018, 10(10), 520; https://doi.org/10.3390/v10100520
Received: 27 July 2018 / Revised: 26 August 2018 / Accepted: 4 September 2018 / Published: 24 September 2018
(This article belongs to the Section Animal Viruses)
Here we report the nearly full-length genome of a recombinant Saffold virus strain (SAFV-BR-193) isolated from a child with acute gastroenteritis. Evolutionary analysis performed using all available near-full length Saffold picornavirus genomes showed that the breakpoint found in the Brazilian strain (SAFV-BR-193) is indeed a recombination hotspot. Notably, this hotspot is located just one nucleotide after the ribosomal frameshift GGUUUUU motif in the SAFV genome. Empirical studies will be necessary to determine if this motif also affects the binding affinity of RNA-dependent RNA-polymerase (RdRp) and therefore increases the changes of RdRp swap between molecules during the synthesis of viral genomes.