Direct repeats in the flavivirus 3' untranslated region; a strategy for survival in the environment?Gritsun, T. S. and Gould, E. A. (2007) Direct repeats in the flavivirus 3' untranslated region; a strategy for survival in the environment? Virology, 358 (2). pp. 258-65. ISSN 0042-6822 Full text not archived in this repository. It is advisable to refer to the publisher's version if you intend to cite from this work. See Guidance on citing. To link to this item DOI: 10.1016/j.virol.2006.09.033 Abstract/SummaryPreviously, direct repeats (DRs) of 20-70 nucleotides were identified in the 3' untranslated regions (3'UTR) of flavivirus sequences. To address their functional significance, we have manually generated a pan-flavivirus 3'UTR alignment and correlated it with the corresponding predicted RNA secondary structures. This approach revealed that intra-group-conserved DRs evolved from six long repeated sequences (LRSs) which, as approximately 200-nucleotide domains were preserved only in the genomes of the slowly evolving tick-borne flaviviruses. We propose that short DRs represent the evolutionary remnants of LRSs rather than distinct molecular duplications. The relevance of DRs to virus replication enhancer function, and thus survival, is discussed.
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