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Conserved elements in the 3′ untranslated region of flavivirus RNAs and potential cyclization sequences

Hahn, Chang S. and Hahn, Young S. and Rice, Charles M. and Lee, Eva and Dalgarno, Lynn and Strauss, Ellen G. and Strauss, James H. (1987) Conserved elements in the 3′ untranslated region of flavivirus RNAs and potential cyclization sequences. Journal of Molecular Biology, 198 (1). pp. 33-41. ISSN 0022-2836. doi:10.1016/0022-2836(87)90455-4.

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We have isolated a cDNA clone after reverse transcription of the genomic RNA of Asibi yellow fever virus whose structure suggests it was formed by self-priming from a 3’-terminal hairpin of 87 nucleotides in the genomic RNA. We have also isolated a clone from cDNA made to Murray Valley encephalitis virus RNA that also appears to have arisen by self-priming from a 3’-terminal structure very similar or identical to that of yellow fever. In addition, 3’-terminal sequencing of the Sl strain of dengue 2 RNA shows that this RNA is also capable of forming a 3’-terminal hairpin of 79 nucleotides. Furthermore, we have identified two 20-nucleotide sequence elements which are present in the 3’ untranslated region of all three viruses; one of these sequence elements is repeated in Murray Valley encephalitis and dengue 2 RNA but not in yellow fever RNA. In all three viruses, which represent the three major serological subgroups of the mosquito-borne flaviviruses, the 3’-proximal conserved sequence element, which is found immediately adjacent to the potential 3’-terminal hairpin, is complementary to another conserved domain near the 5’ end of the viral RNAs, suggesting that flavivirus RNAs can cyclize (calculated delta G < - 11 kcal; 1 kcal = 4.184 kJ).

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Additional Information:© 1987 Academic Press Limited (Received 6 May 1987, and in revised form 17 July 1987) This work was supported by grant DMB-86-17372 from the NSF, by grants AI-20612 and AI-10793 from the NIH, by a grant from the World Health Organization, and by a grant from the National Health and Medical Research Council of Australia. C.M.R. is supported by a grant from the Pew Memorial Trust.
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World Health OrganizationUNSPECIFIED
National Health and Medical Research Council of AustraliaUNSPECIFIED
Pew Memorial TrustUNSPECIFIED
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ID Code:65556
Deposited By: Donna Wrublewski
Deposited On:22 Mar 2016 19:30
Last Modified:10 Nov 2021 23:47

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