An RNA domain within the 5′ untranslated region of the tomato bushy stunt virus genome modulates viral RNA replication

Journal of Molecular Biology

Volumn 305, Issue 4, 2001, Pages 741-756

  Wu, Baodong ^a   Vanti, William B ^a   White, K Andrew ^a  

^a YORK UNIVERSITY   (Canada)

Author keywords

Plant virus; Plus strand RNA virus; RNA function; RNA structure; Tombusvirus

Indexed keywords

NUCLEASE S1; STRUCTURAL PROTEIN; VIRUS RNA;

5' UNTRANSLATED REGION; ARTICLE; BASE PAIRING; CONTROLLED STUDY; IN VITRO STUDY; IN VIVO STUDY; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PLANT VIRUS; PRIORITY JOURNAL; RNA REPLICATION; RNA TRANSLATION; THERMODYNAMICS; TOMBUSVIRUS; VIRUS GENOME;

LYCOPERSICON ESCULENTUM; RNA VIRUSES; TOMATO BUSHY STUNT VIRUS; TOMBUSVIRUS;

EID: 0035951298     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.2000.4298     Document Type: Article

References (50)

1. A functional ribonucleoprotein complex forms around the 5′ end of poliovirus RNA
2. Poliovirus RNA synthesis utilizes an RNP complex formed around the 5′-end of viral RNA
3. Structure of an RNA double helix including uraciluracil base-pairs in an internal loop
4. Replication of the genomic RNA of a positive-strand RNA animal virus from negative-sense transcripts
5. Comparison of the replication of positive-stranded RNA viruses of plants and animals
6. New satellite RNAs, but not DI RNAs, are found in natural populations of tomato bushy stunt virus
7. A minimal RNA promoter for (-)-strand RNA synthesis by the brome mosaic virus polymerase complex
8. 5 S RNA secondary structure
9. Switch from translation to RNA replication in a positive-stranded RNA virus
10. The secondary structure of the 5′-noncoding region of beet necrotic yellow vein virus RNA 3: Evidence for a role in viral RNA replication
11. Transient expression of cellular polypyrimidine-tract binding protein stimulates cap-independent translation directed by both picornaviral and flaviviral internal ribosome entry sites in vivo
12. RNA promoters located on (-)-strands of a subviral RNA associated with turnip crinkle virus
13. 3′ Terminal putative stem-loop structure required for the accumulation of cymbidium ringspot viral RNA
14. The complete genome structure and synthesis of infectious RNA from clones of tomato bushy stunt virus
15. A defective interfering RNA that contains a mosaic of a plant virus genome
16. RNA motifs that determine specificity between a viral replicase and its promoter
17. Three-dimensional tertiary structure of yeast phenylalanine transfer RNA
18. Polypyrimidine tract-binding protein binds to the leader RNA of mouse hepatitis virus and serves as a regulator of viral transcription
19. Gene expression from viral RNA genomes
20. Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure
21. Stem-loop structure in the 5′ region of potato virus X genome required for plus-strand RNA accumulation
22. Restoration of a stem-loop structure required for potato virus X RNA accumulation indicates selection for a mismatch and a GNRA tetraloop
23. Partial purification and characterization of tomato bushy stunt virus and cucumber necrosis virus RNA-dependent RNA polymerases: Similarities and differences in template usage between tombusvirus and carmovirus RNA-dependent RNA polymerases
24. Dissecting RNA recombination in vitro: Role of RNA sequences and the viral replicase
25. RNA elements required for RNA recombination function as replication enhancers in vitro and in vivo in a plus-strand RNA virus
26. Uncoupled expression of p33 and p92 permits amplification of tomato bushy stunt virus RNAs
27. The requirement for a 5′ stem-loop structure in brome mosaic virus replication supports a new model for viral positive-strand RNA initiation
28. Evolution of the RNA coliphages: The role of secondary structures during RNA replication
29. Enhancer-like properties of an RNA element that modulates tombusvirus RNA accumulation
30. Structure of yeast phenylalanine tRNA at 3 Å resolution
31. Sequence analysis of cymbidium ringspot virus satellite and defective interfering RNAs
32. Molecular biology of Tombusviridae
33. The tomato bushy stunt virus replicase proteins are coordinately expressed and membrane associated
34. Identification of tomato bushy stunt virus host-specific symptom determinants by expression of individual genes from a potato virus X vector
35. Tomato bushy stunt virus spread is regulated by two nested genes that function in cell-to-cell movement and host-dependent systemic invasion
36. Altered 3′-terminal RNA structure in phage Qbeta adapted to host factor-less Escherichia coli
37. Specific site selection in RNA resulting from a combination of non-specific secondary structure and -CCR- boxes: Initiation of (-)-strand synthesis by turnip yellow mosaic virus RNA-dependent RNA polymerase
38. Initiation of genomic plus-strand RNA synthesis from DNA and RNA templates by a viral RNA-dependent RNA polymerase
39. RNA sequence and secondary structural determinants in a minimal viral promoter that directs replicase recognition and initiation of genomic plus-strand RNA synthesis
40. Requirement of a 3′-terminal stem-loop in in vitro transcription by an RNA-dependent RNA polymerase
41. A brome mosaic virus intergenic RNA3 replication signal functions with viral replication protein 1a to dramatically stabilize RNA in vivo
42. Formation and evolution of tombusvirus defective interfering RNAs
43. Nonhomologous RNA recombination in tombusviruses: Generation and evolution of defective interfering RNAs by stepwise deletions
44. Requirement of 3′-terminal guanosine in (-)-stranded RNA for in vitro replication of cucumber mosaic virus satellite RNA by viral RNA-dependent RNA polymerase
45. Formation and amplification of a novel tombusvirus defective RNA which lacks the 5′ nontranslated region of the viral genome
46. A primary determinant of cap-independent translation is located in the 3′-proximal region of the tomato bushy stunt virus genome
47. A stem-loop motif formed by the immediate 5′ terminus of the bovine viral diarrhea virus genome modulates translation as well as replication of the viral RNA
48. Subgenomic mRNA regulation by a distal RNA element in a (+)-strand RNA virus
49. Algorithms and thermodynamics for RNA secondary structure prediction: A practical guide