A minimal RNA promoter for minus-strand RNA synthesis by the brome mosaic virus polymerase complex 1 1Edited by D. E. Draper

Chapman, Matthew R.; Kao, C. Cheng

doi:10.1006/jmbi.1998.2503

Cited by 104 publications

(115 citation statements)

References 24 publications

Supporting

Mentioning

108

Contrasting

Unclassified

Order By: Relevance

“…Altogether, these results suggest that the elements for replicase binding and for the initiation of RNA synthesis can function independently of each other. Consistent with this, RNA synthesis in vitro by the BMV and cucumber mosaic virus (CMV) replicases can be inhibited by specificity elements that lack an initiation site Chapman and Kao 1999;Chen et al 2000;Sivakumaran et al 2002).…”

Section: Introductionmentioning

confidence: 66%

“…2001). SLD consists of a 4-bp stem with a 4-nt loop and is not believed to play a role in directing RNA synthesis (Chapman and Kao 1999). When fused to R15, the resulting RNA named SLDR15 directed 3% of the RNA product of R15 ( Fig.…”

Section: Structured Nonpromoter Bmv Rna Can Inhibit Rna Synthesismentioning

confidence: 99%

“…Previous research showed that the length of the 3Ј singlestranded sequence affects RNA synthesis (Chapman and Kao 1999;Ranjith-Kumar et al 2003). A 5-nt singlestranded sequence containing an initiation site is required for the initiation of minus-strand RNA synthesis in vitro.…”

Section: Structured Nonpromoter Bmv Rna Can Inhibit Rna Synthesismentioning

confidence: 99%

“…To reconcile both sets of results, we hypothesize that RNA structures that are incapable of serving as promoter elements will inhibit initiation of RNA synthesis by the BMV replicase. This model accounts for the observation that the BMV replicase is incapable of efficient RNA synthesis in vitro when the CAM is mutated (Chapman and Kao 1999;Kim et al 2000). Nagy et al (1999) also observed that nonpromoter stem-loops decreased RNA synthesis by the turnip crinkle virus replicase in vitro.…”

Section: Introductionmentioning

confidence: 98%

“…The high-resolution structure of the terminal stem loop portion of SLC was determined by NMR (Kim et al 2000) and has a well-defined conformation in which the 5Ј-most adenine protrudes from the loop and forms a clamped adenine motif (CAM). This adenine is important for RNA synthesis in vitro and in vivo, and can bind the BMV replicase (Chapman and Kao 1999;C.H. Kim and Kao 2001;Rao and Hall 1993).…”

Section: Introductionmentioning

confidence: 99%

See 4 more Smart Citations

Stable RNA structures can repress RNA synthesis in vitro by the brome mosaic virus replicase

Zhang¹,

Kim²,

Sivakumaran³

et al. 2003

RNA

View full text Add to dashboard Cite

A 15-nucleotide (nt) unstructured RNA with an initiation site but lacking a promoter could direct the initiation of RNA synthesis by the brome mosaic virus (BMV) replicase in vitro. However, BMV RNA with a functional initiation site but a mutated promoter could not initiate RNA synthesis either in vitro or in vivo. To explain these two observations, we hypothesize that RNA structures that cannot function as promoters could prevent RNA synthesis by the BMV RNA replicase. We documented that four different nonpromoter stem-loops can inhibit RNA synthesis from an initiation-competent RNA sequence in vitro. Destabilizing these structures increased RNA synthesis. However, RNA synthesis was restored in full only when a BMV RNA promoter element was added in cis. Competition assays to examine replicase-RNA interactions showed that the structured RNAs have a lower affinity for the replicase than do RNAs lacking stable structures or containing a promoter element. The results characterize another potential mechanism whereby the BMV replicase can specifically recognize BMV RNAs.

show abstract

Section: Introductionmentioning

confidence: 66%

Section: Structured Nonpromoter Bmv Rna Can Inhibit Rna Synthesismentioning

confidence: 99%

Section: Structured Nonpromoter Bmv Rna Can Inhibit Rna Synthesismentioning

confidence: 99%

Section: Introductionmentioning

confidence: 98%

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Stable RNA structures can repress RNA synthesis in vitro by the brome mosaic virus replicase

Zhang¹,

Kim²,

Sivakumaran³

et al. 2003

RNA

View full text Add to dashboard Cite

show abstract

Viral tRNAs and tRNA‐like structures

Dreher

2010

WIREs RNA

View full text Add to dashboard Cite

Viruses commonly exploit or modify some aspect of tRNA biology. Large DNA viruses, especially bacteriophages, phycodnaviruses, and mimiviruses, produce their own tRNAs, apparently to adjust translational capacity during infection. Retroviruses recruit specific host tRNAs for use in priming the reverse transcription of their genome. Certain positive-strand RNA plant viral genomes possess 3'-tRNA-like structures (TLSs) that are built quite differently from authentic tRNAs, and yet efficiently recapitulate several properties of tRNAs. The structures and roles of these TLSs are discussed, emphasizing the variety in both structure and function.

show abstract

RNA sequence and secondary structural determinants in a minimal viral promoter that directs replicase recognition and initiation of genomic plus-strand RNA synthesis 1 1Edited by D. E. Draper

Sivakumaran

Kim

Tayon

et al. 1999

Journal of Molecular Biology

Self Cite

View full text Add to dashboard Cite

Viral RNA replication provides a useful system to study the structure and function of RNAs and the mechanism of RNA synthesis from RNA templates. Previously we demonstrated that a 27 nt RNA from brome mosaic virus (BMV) can direct correct initiation of genomic plus-strand RNA synthesis by the BMV replicase. In this study, using biochemical, nuclear magnetic resonance, and thermodynamic analyses, we determined that the secondary structure of this 27 nt RNA can be significantly altered and retain the ability to direct RNA synthesis. In contrast, we find that position-specific changes in the RNA sequence will affect replicase recognition, modulate the polymerization process, and contribute to the differential accumulation of viral RNAs. These functional results are in agreement with the phylogenetic analysis of BMV and related viral sequences and suggest that a similar mechanism of RNA synthesis takes place for members of the alphavirus superfamily.

show abstract

A minimal RNA promoter for minus-strand RNA synthesis by the brome mosaic virus polymerase complex 1 1Edited by D. E. Draper

Cited by 104 publications

References 24 publications

Stable RNA structures can repress RNA synthesis in vitro by the brome mosaic virus replicase

Stable RNA structures can repress RNA synthesis in vitro by the brome mosaic virus replicase

Viral tRNAs and tRNA‐like structures

RNA sequence and secondary structural determinants in a minimal viral promoter that directs replicase recognition and initiation of genomic plus-strand RNA synthesis 1 1Edited by D. E. Draper

Contact Info

Product

Resources

About