Phylogenetic evidence for the improved RNA higher-order structure in internal ribosome entry sequences of HCV and pestiviruses

Virus Genes

Volumn 17, Issue 3, 1998, Pages 279-295

  Le, Shu Yun ^a   Liu, Wei Min ^a,b   Maizel Jr , Jacob V ^a  

^a NATIONAL INSTITUTES OF HEALTH   (United States)

^b INDIANA UNIVERSITY   (United States)

Author keywords

HCV and pestivirus; Internal ribosome entry site; Phylogenetic comparison; RNA structure; Translational control

Indexed keywords

CIS ACTING ELEMENT; MESSENGER RNA; VIRUS RNA;

ARTICLE; CATTLE DISEASE; CHOLERA; DIARRHEA; HEPATITIS C VIRUS; NONHUMAN; PESTIVIRUS; PHYLOGENY; PRIORITY JOURNAL; RIBOSOME; RNA STRUCTURE; SWINE DISEASE; TRANSLATION INITIATION;

5' UNTRANSLATED REGIONS; BASE SEQUENCE; CONSERVED SEQUENCE; HEPACIVIRUS; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; PESTIVIRUS; PHYLOGENY; RIBOSOMES; RNA, VIRAL; SEQUENCE HOMOLOGY, NUCLEIC ACID;

EID: 0032423263     PISSN: 09208569     EISSN: None     Source Type: Journal    
DOI: 10.1023/A:1008073905920     Document Type: Article

References (34)

1. Saito I., Miyamura T., Obayashi A., Harada H., Katayama T., Kikuchi S., Watanabe Y., Kot S., Onj M., Ohta Y., Choo Q.-L., Houghton M., and Kuo G., Proc Natl Acad Sci USA 87, 6547-6549, 1990.
2. Bukh J., Purcell R.H., and Miller R.H., Proc Natl Acad Sci USA 90, 8234-8238, 1993.
3. Bukh J., Purcell R.H., and Miller R.H., Proc Natl Acad Sci USA 89, 4942-4946, 1992.
4. Le S.-Y., Sonenberg N., and Maizel Jr. J.V., Gene 154, 137-143, 1995.
5. Tsukiyama-Kohara K., Iizuka N., Kohara M., and Nomoto A., J Virol 66, 1476-1483, 1992.
6. Wang C., Sarnow P., and Siddiqui A., J Virol 67, 3338-3344, 1993.
7. Poole T.L., Wang C., Popp R.A., Potgieter L.N.D., Siddiqui A., and Collett M.S., Virology 206, 750-754, 1995.
8. Reynolds J.E., Kaminski A., Kettinen H.J., Grace K., Clarke B.E., Carroll A.R., Rowlands D.J., and Jackson D.J., EMBO J 14, 6010-6020, 1995.
9. Lu H. and Wimmer E., Proc Natl Acad Sci USA 93, 1412-1417, 1996.
10. Honda M., Ping L., Rijnbrand R.C.A., Amphlett E., Clarke B., Rowlands D., and Lemon S.M., Virology 222, 31-42, 1996.
11. Honda M., Brown E.A., and Lemon S.M., RNA 2, 955-968, 1996.
12. Le S.-Y., Chen J.-H., and Maizel Jr. J.V., Nucleic Acids Res 21, 2173-2178, 1993.
13. Freier S.M., Kierzek R., Jaeger J.A., Sugimoto N., Caruthers M.H., Neilson T., and Turner D.H., Proc Natl Acad Sci USA 83, 9373-9377, 1986.
14. Walter A.E., Turner D.H., Kim J., Lyttle M.H., Muller P., Mathews D.H., and Zuker M., Proc Natl Acad Sci USA 91, 9218-9222, 1994.
15. Zuker M., Methods Mol Biol 25, 267-294, 1994.
16. Le S.-Y. and Zuker M., J Mol Biol 216, 729-741, 1990.
17. Chen J.-H., Le S.-Y., and Maizel Jr. J.V., Comp Appl Biosci 8, 243-248, 1992.
18. Le S.-Y., Chen J.-H., and Maizel Jr. J.V., In Sarma, R.H. and Sarma, M.H. (ed). Structure & Methods: Human Genome Initiative and DNA Recombination. Adenine Press, Schenectady, 1990, Vol. 1, pp. 127-136.
19. Wilbur W.J. and Lipman D.J., Proc Natl Acad Sci USA 80, 726-730, 1983.
20. Wang C., Le S.-Y., Ali N., and Siddiqui A., RNA 1, 526-537, 1995.
21. Steinberg S., Misch A., and Sprinzl M., Nucleic Acids Res 21, 3011-3015, 1993.
22. Michel F. and Westhof E., J Mol Biol 216, 585-610, 1990.
23. Massire C., Jaeger L., and Westhof E., RNA 3, 553-556, 1997.
24. Schnare M.N., Damberger S.H., Gray M.W., and Gutell R.R., J Mol Biol 256, 701-719, 1996.
25. Jaeger J.A., Turner D.H., and Zuker M., Proc Natl Acad Sci USA 86, 7706-7710, 1989.
26. Cech T.R., Tanner N.K., Tinoco Jr. I., Weir B.R., Zuker M., and Perlman P.S., Proc Natl Acad Sci USA 80, 3903-3907, 1983.
27. Brown E.A., Zhang H., Ping L.H., and Lemon S.M., Nucleic-Acids Res 20, 504-5045, 1992.
28. Deng R. and Brock K.V., Nucleic Acids Res 21, 1949-1957.
29. Lehnert V., Jaeger L., Michel F., and Westhof E., Chem and Biol 3. 993-1009, 1996.
30. Westhof E., Masquida B., and Jaeger L., Folding and Design 1, R78-R88, 1996.
31. Wang C., Sarnow P., and Siddiqui A., J Virol 68, 7301-7307, 1994.
32. Buratti E., Gerotto M., Pontisso P., Alberti A., Tisminetzky S.G., and Baralle F.E., FEBS 411, 275-280, 1997.
33. Le S.-Y., Siddiqui A., and Maizel Jr. J.V., Virus Gene 12, 135-147, 1996.
34. Borman A.M., Le Mercier P., Girard M,. and Kean K.M., Nucleic Acids Res 25, 925-932, 1997.