Correlation between recombination junctions and RNA secondary structure elements in poliovirus Sabin strains.

Virus Genes
Evaggelos DedepsidisPanayotis Markoulatos

Abstract

In order to test the hypothesis that RNA structural elements promote the distribution of certain types of recombination junctions in each one of the 2C and 3D poliovirus genomic regions (Sabin 3/Sabin 2 or Sabin 1 in 2C and Sabin 2/Sabin 1 or Sabin 3 in 3D), we searched in 2C and 3D regions of reference Sabin strains for high probability RNA structural elements that could promote recombination. Recombination junctions that were identified in clinical strains of this study, as well as in clinical strains of previous studies, were superimposed on RNA secondary structure models of 2C and 3D genomic regions. Furthermore, we created an in vitro model, based on double infection of cell-culture with two poliovirus strains, for the production and identification of recombinant Sabin strains in 2C and 3D regions. Our intention was to compare the results that refer to the correlation of recombination junctions and RNA secondary structures in 2C and 3D regions of clinical strains, with the respective results of the in vitro model. Most of the recombination junctions of the clinical strains were correlated with RNA secondary structure elements, which were identical between recombining Sabin strains, and also presented high predictive value....Continue Reading

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Citations

Sep 21, 2011·PloS One·Maël BessaudFrancis Delpeyroux
May 26, 2015·Virus Evolution·Darren P MartinBrejnev Muhire
Dec 30, 2014·Virus Genes·Zaharoula KyriakopoulouPanayotis Markoulatos
Jun 19, 2016·Nucleic Acids Research·Andrew WoodmanDavid J Evans
Sep 22, 2019·Viruses·Claire MuslinFrancis Delpeyroux

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Methods Mentioned

BETA
PCR
electrophoresis
FCS

Software Mentioned

PRIMER
RNAstructure
Mfold
Simplot
Gel Pro Analyzer
Clustalw

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