Genetic analysis of Dengue 3 virus subtype III 5′ and 3′ non-coding regions

Virus Research

Volumn 135, Issue 2, 2008, Pages 320-325

  Silva, Ricardo L A ^a   de Silva, Aravinda M ^b   Harris, Eva ^c   MacDonald, Gene H ^a  

^a ST JUDE CHILDREN S RESEARCH HOSPITAL   (United States)

^b UNIVERSITY OF NORTH CAROLINA SCHOOL OF MEDICINE   (United States)

^c UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

Dengue 3 virus; Non coding region; Nucleotide sequence; Phylogenetic analysis

Indexed keywords

ARTICLE; CONTROLLED STUDY; DENGUE VIRUS; GENE INSERTION; GENETIC ANALYSIS; GENETIC CODE; GENETIC VARIABILITY; MARTINIQUE; NICARAGUA; NONHUMAN; NUCLEOTIDE SEQUENCE; PATHOGENICITY; PHYLOGENY; PRIORITY JOURNAL; SRI LANKA; VIRUS ISOLATION; VIRUS STRAIN;

3' UNTRANSLATED REGIONS; 5' UNTRANSLATED REGIONS; ANIMALS; BASE SEQUENCE; CELLS, CULTURED; CULICIDAE; DENGUE HEMORRHAGIC FEVER; DENGUE VIRUS; EPIDEMIOLOGY, MOLECULAR; HUMANS; MARTINIQUE; MOLECULAR SEQUENCE DATA; NICARAGUA; PHYLOGENY; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA; SRI LANKA;

DENGUE VIRUS TYPE 3;

EID: 45449088881     PISSN: 01681702     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.virusres.2008.03.007     Document Type: Article

References (22)

1. Brinton M.A., and Dispoto J.H. Sequence and secondary structure analysis of the 5′-terminal region of flavivirus genome RNA. Virology 162 (1988) 290-299
2. Clyde K., Kyle J.L., and Harris E. Recent advances in deciphering viral and host determinants of dengue virus replication and pathogenesis. J. Virol. 80 (2006) 11418-11431
3. Cologna R., and Rico-Hesse R. American genotype structures decrease dengue virus output from human monocytes and dendritic cells. J. Virol. 77 (2003) 3929-3938
4. Edgil D., Diamond M.S., Holden K.L., Paranjape S.M., and Harris E. Translation efficiency determines differences in cellular infection among dengue virus type 2 strains. Virology 317 (2003) 275-290
5. Gritsun T.S., Venugopal K., Zanotto P.M.D., Mikhailov M.V., Sall A.A., Holmes E.C., Polkinghorne I., Frolova T.V., Pogodina V.V., Lashkevich V.A., and Gould E.A. Complete sequence of two tick-borne flaviviruses isolated from Siberia the UK: Analysis significance of the 5′ 3′-UTRs. Virus Res. 49 (1997) 27-39
6. Hahn C.S., Hahn Y.S., Rice C.M., Lee E., Dalgarno L., Strauss E.G., and Strauss J.H. Conserved elements in the 3′ unranslated region of flavivirus RNAs and potential cyclization sequences. J. Mol. Biol. 198 (1987) 33-41
7. Harris E., Videa E., Perez L., Sandoval E., Tellez Y., Perez M.L., Cuadra R., Rocha J., Idiaquez W., Alonso R.E., Delgado M.A., Campo L.A., Acevedo F., Gonzalez A., Amador J.J., and Balmaseda A. Clinical, epidemiologic, virologic features of dengue in the 1998 epidemic in Nicaragua. Am. J. Trop. Med. Hyg. 63 (2000) 5-11
8. Hillis D.M., and Bull J.J. An empirical-test of bootstrapping as a method for assessing confidence in phylogenetic analysis. Syst. Biol. 42 (1993) 182-192
9. Kimura M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16 (1980) 111-120
10. Khromykh A.A., Varnavski A.N., Sedlak P.L., and Westaway E.G. Coupling between replication and packaging of flavivirus RNA: evidence derived from the use of DNA-based full-length cDNA clones of kunjin virus. J. Virol. 75 (2001) 4633-4640
11. Leitmeyer K.C., Vaughn D.W., Watts D.M., Salas R., de Chacon I.V., Ramos C., and Rico-Hesse R. Dengue virus structural differences that correlate with pathogenesis. J. Virol. 73 (1999) 4738-4747
12. Mandl C.W., Heinz F.X., Puchhammerstockl E., and Kunz C. Sequencing the termini of capped viral-Rna by 5′-3′ ligation PCR. Biotechniques 10 (1991) 484-486
13. Mangada M.N., and Igarashi M.A. Sequences of terminal non-coding regions from four Dengue-2 viruses isolated from patients exhibiting different disease severities. Virus Genes 14 (1997) 5-12
14. Markoff L., Pang X., Houng H.S., Falgout B., Olsen R., Jones E., and Polo S. Derivation and characterization of a dengue type 1 host range-restricted mutant virus that is attenuated and highly immunogenic in monkeys. J. Virol. 76 7 (2002) 3318-3328
15. Markoff L. 5′- 3′-noncoding regions in flavivirus RNA. In: Chambers T.J., and Monath T.P. (Eds). Advances in Virus Research (2003), Academic Press, San Diego 177-228
16. Men R.H., Bray M., Clark D., Chanock R.M., and Lai C.J. Dengue type 4 virus mutants containing deletions in the 3′ noncoding region of the RNA genome: Analysis of growth restriction in cell culture altered viremia pattern immunogenicity in rhesus monkeys. J. Virol. 70 6 (1996) 3930-3937
17. Messer W.B., Vitarana U.T., Sivananthan K., Elvtigala J., Preethimala L.D., Ramesh R., Withana N., Gubler D.J., and De Silva A.M. Epidemiology of dengue in Sri Lanka before after the emergence of epidemic dengue hemorrhagic fever. Am. J. Trop. Med. Hyg. 66 (2002) 765-773
18. Messer W.B., Gubler D.J., Harris E., Sivananthan K., and De Silva A.M. Emergence global spread of a dengue serotype 3, subtype III virus. Emerg. Infect. Dis. 9 (2003) 800-809
19. Monath T.P., and Heinz F.X. Flaviviridae: the viruses their replication. In: Fields B.N., et al. (Ed). Fields Virology. third ed. (1996), Lippincott-Raven, Philadelphia 961-1034
20. Peyrefitte C.N., Couissinier-Paris P., Mercier-Perennec V., Bessaud M., Martial J., Kenane N., Durand J.P.A., and Tolou H.J. Genetic characterization of newly reintroduced Dengue Virus Type 3 in Martinique (French West Indies). J. Clin. Microbiol. 41 (2003) 5195-5198
21. Poidinger M., Hall R.A., and Mackenzie J.S. Molecular characterization of the Japanese encephalitis serocomplex of the flavivirus genus. Virology 218 (1996) 417-421
22. Shurtleff A.C., Beasley D.W.C., Chen J.J.Y., Ni H.L., Suderman M.T., Wang H.M., Xu R.L., Wang E., Weaver S.C., Watts D.M., Russell K.L., and Barrett A.D.T. Genetic variation in the 3′ non-coding region of dengue viruses. Virology 281 (2001) 75-87