Secondary and tertiary structure of the BVDV IRES
This post summarizes what SHAPE-guided modeling and 3D analysis reveal about a pseudoknot in the BVDV internal ribosome entry site and why that matters for IRES function.
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Molecular epidemiology and RNA structure in Chikungunya virus
Comparative and phylogenetic analysis of CHIKV genomes links lineage-associated single-nucleotide variants to changes in conserved RNA structures.
Insect-specific flaviviruses from Zambia and their exoribonuclease-resistant RNAs
This study isolates two insect-specific flaviviruses from mosquitoes in Zambia and shows that their 3'UTRs contain functional xrRNA-like elements that stall Xrn1.
Chikungunya virus phylogeny and lineage-specific RNA structures
An updated CHIKV phylogeny based on 598 genomes, linking lineage structure to conserved and lineage-specific 3' UTR RNA architectures.
Musashi binding elements in Zika virus 3'UTR
A comparative analysis of Musashi binding element accessibility in Zika virus and related flavivirus 3' UTRs using thermodynamic RNA structure modeling.
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