Rapid evolution of in vivo-selected sequences and structures replacing 20% of a subviral RNA
| Autor: | Maitreyi Chattopadhyay, Johnathan L. Nieves, David B. Kushner, Anne E. Simon, Tareq Azad, Megan Y. Young, Holleh F. Tajalli, Christine Szarko, Nina B. Jean-Jacques, Allison M. Murawski |
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| Rok vydání: | 2015 |
| Předmět: |
Time Factors
Biology Article Viral RNA evolution DNA sequencing Evolution Molecular 03 medical and health sciences Virology Plant virus Satellite RNA Gene duplication Selection Genetic 030304 developmental biology Genetics 0303 health sciences SELEX Turnip crinkle virus SELEX Aptamer Technique 030302 biochemistry & molecular biology RNA Plants biology.organism_classification Helper virus Nucleic Acid Conformation RNA Satellite Carmovirus Satellite (biology) Dimerization Systematic evolution of ligands by exponential enrichment |
| Zdroj: | Virology. 483:149-162 |
| ISSN: | 0042-6822 |
| DOI: | 10.1016/j.virol.2015.04.002 |
| Popis: | The 356 nt noncoding satellite RNA C (satC) of Turnip crinkle virus (TCV) is composed of 5′ sequences from a second TCV satRNA (satD) and 3′ sequences derived from TCV. SHAPE structure mapping revealed that 76 nt in the poorly-characterized satD-derived region form an extended hairpin (H2). Pools of satC in which H2 was replaced with 76, 38, or 19 random nt were co-inoculated with TCV helper virus onto plants and satC fitness assessed using in vivo functional selection (SELEX). The most functional progeny satCs, including one as fit as wild-type, contained a 38–39 nt H2 region that adopted a hairpin structure and exhibited an increased ratio of dimeric to monomeric molecules. Some progeny of satC with H2 deleted featured a duplication of 38 nt, partially rebuilding the deletion. Therefore, H2 can be replaced by a 38–39 nt hairpin, sufficient for overall structural stability of the 5′ end of satC. |
| Databáze: | OpenAIRE |
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