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A Genome-Wide Analysis of RNA Pseudoknots That Stimulate Efficient −1 Ribosomal Frameshifting or Readthrough in Animal Viruses
Joint Authors
Huang, Xiaolan
Du, Zhihua
Cheng, Qiang
Source
Issue
Vol. 2013, Issue 2013 (31 Dec. 2013), pp.1-15, 15 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2013-11-04
Country of Publication
Egypt
No. of Pages
15
Main Subjects
Abstract EN
Programmed −1 ribosomal frameshifting (PRF) and stop codon readthrough are two translational recoding mechanisms utilized by some RNA viruses to express their structural and enzymatic proteins at a defined ratio.
Efficient recoding usually requires an RNA pseudoknot located several nucleotides downstream from the recoding site.
To assess the strategic importance of the recoding pseudoknots, we have carried out a large scale genome-wide analysis in which we used an in-house developed program to detect all possible H-type pseudoknots within the genomic mRNAs of 81 animal viruses.
Pseudoknots are detected downstream from ~85% of the recoding sites, including many previously unknown pseudoknots.
~78% of the recoding pseudoknots are the most stable pseudoknot within the viral genomes.
However, they are not as strong as some designed pseudoknots that exhibit roadblocking effect on the translating ribosome.
Strong roadblocking pseudoknots are not detected within the viral genomes.
These results indicate that the decoding pseudoknots have evolved to possess optimal stability for efficient recoding.
We also found that the sequence at the gag-pol frameshift junction of HIV1 harbors potential elaborated pseudoknots encompassing the frameshift site.
A novel mechanism is proposed for possible involvement of the elaborated pseudoknots in the HIV1 PRF event.
American Psychological Association (APA)
Huang, Xiaolan& Cheng, Qiang& Du, Zhihua. 2013. A Genome-Wide Analysis of RNA Pseudoknots That Stimulate Efficient −1 Ribosomal Frameshifting or Readthrough in Animal Viruses. BioMed Research International،Vol. 2013, no. 2013, pp.1-15.
https://search.emarefa.net/detail/BIM-1031169
Modern Language Association (MLA)
Huang, Xiaolan…[et al.]. A Genome-Wide Analysis of RNA Pseudoknots That Stimulate Efficient −1 Ribosomal Frameshifting or Readthrough in Animal Viruses. BioMed Research International No. 2013 (2013), pp.1-15.
https://search.emarefa.net/detail/BIM-1031169
American Medical Association (AMA)
Huang, Xiaolan& Cheng, Qiang& Du, Zhihua. A Genome-Wide Analysis of RNA Pseudoknots That Stimulate Efficient −1 Ribosomal Frameshifting or Readthrough in Animal Viruses. BioMed Research International. 2013. Vol. 2013, no. 2013, pp.1-15.
https://search.emarefa.net/detail/BIM-1031169
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-1031169