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Design of LNA‐modified siRNAs against the highly structured 5′ UTR of coxsackievirus B3
Author(s) -
Dutkiewicz Mariola,
Grunert Hans-Peter,
Zeichhardt Heinz,
Lena Suzy W.,
Wengel Jesper,
Kurreck Jens
Publication year - 2008
Publication title -
febs letters
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.593
H-Index - 257
eISSN - 1873-3468
pISSN - 0014-5793
DOI - 10.1016/j.febslet.2008.07.051
Subject(s) - small interfering rna , rnase h , oligonucleotide , rna , rnase p , rna interference , untranslated region , microbiology and biotechnology , trans acting sirna , coxsackievirus , biology , virology , virus , dna , chemistry , biochemistry , gene , enterovirus
This study describes a strategy to develop LNA‐modified small interfering RNA (siRNAs) against the highly structured 5′ UTR of coxsackievirus B3 (CVB‐3), which is an attractive target site due to its high degree of conservation. Accessible sites were identified based on structural models and RNase H assays with DNA oligonucleotides. Subsequently, LNA gapmers, siRNAs, siLNAs and small internally segmented interfering RNA (sisiLNAs) were designed against sites, which were found to be accessible in the in vitro assays, and tested in reporter assays and experiments with the infectious virus. The best siLNA improved viability of infected cells by 92% and exerted good antiviral activity in plaque reduction assays.