Bioinformatic analysis suggests that a conserved ORF in the waikaviruses encodes an overlapping gene

Bioinformatic analysis suggests that a conserved ORF in the waikaviruses encodes an overlapping gene The genus Waikavirus belongs to the order Picornavirales , whose members all use a polyprotein expression strategy. With the exception of Theiler’s virus, overlapping genes are essentially unknown in the order. Recently, we reported experimental verification for a new short overlapping coding sequence (CDS) in the Potyviridae —a family in which overlapping genes were previously unknown. Using the same bioinformatics software (MLOGD), we have identified an ~89-codon conserved open reading frame (ORF) with a strong coding signature in members of the genus Waikavirus . The ORF overlaps the polyprotein ORF but is in the +1 reading frame. Here, we describe the bioinformatic analysis. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Archives of Virology Springer Journals

Bioinformatic analysis suggests that a conserved ORF in the waikaviruses encodes an overlapping gene

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Publisher
Springer Vienna
Copyright
Copyright © 2008 by Springer-Verlag
Subject
Biomedicine; Infectious Diseases; Medical Microbiology ; Virology
ISSN
0304-8608
eISSN
1432-8798
D.O.I.
10.1007/s00705-008-0119-5
Publisher site
See Article on Publisher Site

Abstract

The genus Waikavirus belongs to the order Picornavirales , whose members all use a polyprotein expression strategy. With the exception of Theiler’s virus, overlapping genes are essentially unknown in the order. Recently, we reported experimental verification for a new short overlapping coding sequence (CDS) in the Potyviridae —a family in which overlapping genes were previously unknown. Using the same bioinformatics software (MLOGD), we have identified an ~89-codon conserved open reading frame (ORF) with a strong coding signature in members of the genus Waikavirus . The ORF overlaps the polyprotein ORF but is in the +1 reading frame. Here, we describe the bioinformatic analysis.

Journal

Archives of VirologySpringer Journals

Published: Jul 1, 2008

References

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