Conserved RNA Secondary Structures in Picornaviridae Genomes

C. Witwer, S. Rauscher, I. L. Hofacker and P. F. Stadler

Working Papers from Santa Fe Institute

Abstract: The family Picornaviridae contains important pathogens including, for example, Hepatitis A virus and Foot-and-Mouth Disease Virus. The genome of these viruses is a single messenger-active (+)-RNA of 7200 to 8500nts. Besides coding for the viral proteins, it also contains functionally important RNA secondary structures, among them an IRES region toward the 5'end.

This contribution provides a comprehensive computational survey of the complete genomic RNAs and a detailed comparative analysis of the conserved structural elements in seven of the currently nine genera in the family Picornaviridae. Compared with previous studies we find: (1) that only smaller sections of the IRES region than previously reported are conserved at single-base-pair resolution, and (2) that there is a number of significant structural elements in the coding region. Furthermore we identify potential CREs in four genera where this feature has not been reported so far.

Keywords: Picornaviridae; RNA secondary structure; IRES; CRE (search for similar items in EconPapers)
Date: 2001-08
References: View references in EconPapers View complete reference list from CitEc
Citations:

There are no downloads for this item, see the EconPapers FAQ for hints about obtaining it.

Related works:
This item may be available elsewhere in EconPapers: Search for items with the same title.

Export reference: BibTeX RIS (EndNote, ProCite, RefMan) HTML/Text

Persistent link: https://EconPapers.repec.org/RePEc:wop:safiwp:01-08-040

Access Statistics for this paper

More papers in Working Papers from Santa Fe Institute Contact information at EDIRC.
Bibliographic data for series maintained by Thomas Krichel ().