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Structural analysis provides insights into the modular organization of picornavirus IRES.

Abstract：

:Picornavirus RNA translation is driven by the internal ribosome entry site (IRES) element. The impact of RNA structure on the foot-and-mouth disease virus (FMDV) IRES activity has been analyzed using Selective 2'Hydroxyl Acylation analyzed by Primer Extension (SHAPE) and high throughput analysis of RNA conformation by antisense oligonucleotides printed on microarrays. SHAPE reactivity revealed the self-folding capacity of domain 3 and evidenced a change of RNA structure in a defective GNRA mutant. A modified RNA conformation of this mutant was also evidenced by RNA accessibility to oligonucleotides. Interestingly, comparison of nucleotide reactivity with RNA accessibility revealed that SHAPE reactive nucleotides corresponding to the GNRA motif were not accessible to their respective target oligonucleotides. The differential response was observed both in domain 3 and the entire IRES. Our results demonstrate distant effects of the GNRA motif in the domain 3 RNA conformation, and highlight the modular organization of a picornavirus IRES.

journal_name

Virology

journal_title

Virology

authors

Fernández N,García-Sacristán A,Ramajo J,Briones C,Martínez-Salas E

doi

10.1016/j.virol.2010.10.013

subject

Has Abstract

pub_date

2011-01-20 00:00:00

pages

251-61

issue

2

eissn

0042-6822

issn

1096-0341

pii

S0042-6822(10)00649-5

journal_volume

409

pub_type

杂志文章

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