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RNA, Satellite (1):
Recent article
RNA, Satellite
Abstract
We review the history of cross-protection with regard to the development of ideas concerning its likely mechanisms, including RNA silencing and exclusion, and its influence on the early development of genetically engineered virus resistance. We also examine examples of the practical use of cross-pro...
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PMID: 20965075
PDF is available here.
PDF is available here.
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Journal of General Virology (90)Pt 2 2009
Abstract
The satellite RNA of bamboo mosaic virus (satBaMV) has a single open reading frame encoding a non-structural protein, P20, which facilitates long-distance movement of satBaMV in BaMV and satBaMV co-infected plants. Immunohistochemistry and immunoelectron microscopy revealed that the P20 protein accu...
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PMID: 19141462
PDF is available here.
PDF is available here.
Journal of Virology (82)23 2008
Abstract
We show that the accumulation of satRNA strongly depends on temperature and on the presence of the helper virus p19 silencing suppressor protein, suggesting that RNA silencing plays a crucial role in satRNA accumulation. We also demonstrate that another member of the Tombusvirus genus, Carnation Ita...
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PMID: 18815304
PDF is available here.
PDF is available here.
Abstract
We demonstrate that a functional CP, but not DCL2/DCL4, is required for satC-mediated repression of TCV. In addition, enhancement of satC accumulation in the absence of a functional CP requires DCL2/DCL4....
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PMID: 18639914
PDF is available here.
PDF is available here.
Virus Research (136)1-2 2008
Abstract
An in vitro system was applied to analyze the replication of a satellite RNA of Bamboo mosaic virus (BaMV), designated satBaMV RNA, using solubilized membrane-bound RNA-dependent RNA polymerase (RdRp) complexes isolated from BaMV-infected Nicotiana benthamiana. After removal of endogenous templates,...
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PMID: 18538884
PDF is available here.
PDF is available here.
Journal of Virology (82)17 2008
Abstract
We have initiated a detailed analysis of secondary and tertiary elements within the 3' end of Turnip crinkle virus (TCV) that are required for viral accumulation in vivo. MPGAfold, a massively parallel genetic algorithm, suggested the presence of five hairpins (H4a, H4b, and previously identified ha...
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PMID: 18579599
PDF is available here.
PDF is available here.
Journal of Chromatography A (1189)1-2 2008
Abstract
High-performance liquid chromatography was developed for further separation of double-stranded (ds) RNAs obtained by CF-11 cellulose chromatography from plants infected with satellite associated cucumber mosaic virus. Fractions separated by monolithic polymer column, especially applicable for nuclei...
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PMID: 18206900
PDF is available here.
PDF is available here.
Abstract
The 17-kDa capsid protein (CP) of satellite panicum mosaic virus (SPMV) contains a distinct N-terminal arginine-rich motif (N-ARM) which is required for SPMV virion assembly and the activity of SPMV CP to promote systemic accumulation of its cognate RNA. The present study indicates that SPMV CP also...
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PMID: 18393621
PDF is available here.
PDF is available here.
Journal of Virology (81)17 2007
Abstract
We found that the CMV replicase had different fidelity in different environments, with important implications in viral disease evolution. Insertions were very rare events, irrespective of the region of the satRNA genome assayed and independent of the hosts tested. On the other hand, deletion events...
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PMID: 17553888
PDF is available here.
PDF is available here.
Abstract
We also demonstrated that the integrity of the AHSL structure of interfering satBaMV was essential for the interference of BaMV accumulation. Concurrent analyses of natural satBaMV isolates revealed that all of the interfering isolates contained the same structures and sequences in the internal loop...
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PMID: 17482233
PDF is available here.
PDF is available here.
Journal of Chromatography A (1144)1 2007
Abstract
Replicative double-stranded RNA (dsRNA) is useful in preliminary identification of Cucumber mosaic virus and its satellite RNA (satRNA). This plant pathogen complex yields sufficient quantity of the replicative RNA form that can be isolated by chromatography on chemically unmodified graded cellulose...
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PMID: 17187813
PDF is available here.
PDF is available here.
Journal of Virology (80)18 2006
Abstract
We previously proposed that an RNA conformational switch in an untranslated satellite RNA (satC) of Turnip crinkle virus (TCV) regulates initiation of minus-strand synthesis (G. Zhang, J. Zhang, A. T. George, T. Baumstark, and A. E. Simon, RNA 12:147-162, 2006). This model was based on the lack of p...
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PMID: 16940529
PDF is available here.
PDF is available here.
Abstract
We elucidate various biological properties of P20 and the involvement of a single domain in its activities. P20 displayed a strong self-interaction in vitro and in vivo, and cross-linking assays demonstrated its oligomerization. Domain mapping, using the bacterial two-hybrid system, indicated that t...
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PMID: 16838788
PDF is available here.
PDF is available here.
Abstract
We assessed a role for noncoding centromeric RNAs in the structure and function of the centromere. We identified minor satellite transcripts of 120 nt in murine cells that localize to centromeres and accumulate upon stress or differentiation. Forced accumulation of 120-nt transcripts leads to defect...
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PMID: 16731634
PDF is available here.
PDF is available here.
Journal of General Virology (87)Pt 5 2006
Abstract
The intra- and intercellular transport of potexviruses require interactions among viral RNA, coat protein and elements of the triple gene block proteins (TGBps). In this study, the requirement of bamboo mosaic virus (BaMV) TGBps for movement functions and the compatibilities with those of two potexv...
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PMID: 16603539
PDF is available here.
PDF is available here.
Journal of Virological Methods (132)1-2 2006
Abstract
The satellite RNA of the grapevine isolate NW of Arabis mosaic virus (ArMV) was cloned and sequenced, and showed 75% identity at the nucleotide level to the satellite RNA of the lilac isolate of ArMV. In order to survey ArMV isolates from various geographical origins and natural hosts for the presen...
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PMID: 16216344
PDF is available here.
PDF is available here.
Journal of Virology (80)5 2006
Abstract
Satellite RNA of Bamboo mosaic virus (satBaMV), a single-stranded mRNA type satellite encoding a protein of 20 kDa (P20), depends on the helper BaMV for replication and encapsidation. Two satBaMV isolates, BSF4 and BSL6, exhibit distinctly differential phenotypes in Nicotiana benthamiana plants when...
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PMID: 16474162
PDF is available here.
PDF is available here.
Acta Biochimica Polonica (53)1 2006
Abstract
We used a SAGE-based assay to profile RNAs associated with hnRNP K protein in rat mitochondria. RNA was isolated from mitoplasts obtained from highly purified and RNase-treated mitochondria. Total RNA and RNA associated with hnRNP K protein were then used as input material for generating two SAGE li...
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PMID: 16496041
PDF is available here.
PDF is available here.
Postepy biochemii (52)2 2006
Abstract
Plant ss(+)RNA viruses besides their genome RNAs often are associated with additional subviral RNA molecules which occur naturally or are generated de novo during infection. There are such molecules like: satellite, defective, defective interfering and chimeric RNAs. Subviral RNAs can not replicate...
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PMID: 17078511
PDF is available here.
PDF is available here.
BMC Microbiology (6)1 2006
Abstract
ABSTRACT : BACKGROUND : Viroids, satellite RNAs, satellites viruses and the human hepatitis delta virus form the 'brotherhood' of the smallest known infectious RNA agents, known as the subviral RNAs. For most of these species, it is generally accepted that characteristics such as cell movement, repl...
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PMID: 16519798
PDF is available here.
PDF is available here.
Abstract
Two Cucumber mosaic virus (CMV) satellite RNAs, namely Yns and Yi and of 385nt and 369nt respectively, were introduced to systemic host plants with a satellite RNA-free isolate of CMV (CNa), after in vitro transcription of satellite RNAs from cDNA clones and by co-inoculation with CMV genomic RNAs....
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PMID: 15989262
PDF is available here.
PDF is available here.
Journal of Virology (79)6 2005
Abstract
We propose that replication primarily involves multimers, possibly as dimeric forms. These forms may revert to monomers by a termination of replication at 5' end sequences and/or by internal initiation at the 3' ends of multimeric junctions....
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PMID: 15731260
PDF is available here.
PDF is available here.
Abstract
We have investigated a tombusvirus sat RNA and determined that it contains two functionally-relevant higher-order RNA domains, a T-shaped domain and a downstream domain, that are similar to elements shown previously to be present in the 5' untranslated regions (UTRs) of tombusvirus genomes. Although...
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PMID: 15680429
PDF is available here.
PDF is available here.
Abstract
Satellite RNA (satRNA) associated with Bamboo mosaic virus (BaMV) is dependent on BaMV for replication and encapsidation. Molecular analyses of total RNA extracted from bamboo species collected worldwide revealed that 26 out of 61 BaMV isolates harbored satBaMV. Among them, two phylogenetically dist...
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PMID: 15527838
PDF is available here.
PDF is available here.
Journal of General Virology (85)Pt 10 2004
Abstract
These results suggest that sat RNA has a replication strategy differing from that of genomic and DI RNAs, for it requires the presence of a cis-replicating genome acting as a trans-replication enhancer....
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PMID: 15448375
PDF is available here.
PDF is available here.
Abstract
Nearly all members of the Carmovirus genus contain a structurally conserved 3' proximal hairpin (H5) with a large internal symmetrical loop (LSL). H5 has been identified as a repressor of minus-strand synthesis in a satellite RNA (satC), which shares partial sequence similarity with its helper virus...
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PMID: 15262498
PDF is available here.
PDF is available here.
Journal of Virology (78)6 2004
Abstract
We determine helper virus requirements and the effects of mutations and deletions in satRPV RNA on its replication in oat cells. Using in vivo selection of a satRPV RNA pool randomized at specific bases, we found that disruption of the base pairing necessary to form the non-self-cleaving conformatio...
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PMID: 14990726
PDF is available here.
PDF is available here.
Phytopathology (42) 2004
Abstract
Although many subviral RNAs reduce or intensify disease symptoms caused by the helper virus, only recently have clues concerning the mechanism of disease modulation been revealed. New models for DI RNA-mediated reduction in helper virus levels and symptom attenuation include DI RNA enhancement of po...
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PMID: 15283672
PDF is available here.
PDF is available here.
Abstract
Archives of Virology (148)9 2003
Abstract
Satellite RNA was sought in 51 isolates of Rice yellow mottle virus (RYMV) representative of the geographical, molecular and pathogenic variability of the virus in Africa. Three-quarters of the isolates from cultivated rice and wild gramineaceous hosts supported a satellite RNA. The prevalence of RY...
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PMID: 14505085
PDF is available here.
PDF is available here.
Abstract
We investigated the role of the 3'-proximal 130 nt of this sequence in viral RNA accumulation within the context of a TBSV defective interfering (DI) RNA. Sequence comparisons between different tombusviruses revealed that the 3' portion of the 130-nt sequence is highly conserved and deletion analysi...
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PMID: 12954222
PDF is available here.
PDF is available here.
Abstract
We now report that TCV virion levels were substantially reduced by the presence of satC or when two amino acids were inserted at the N-terminus of the CP, resulting in similarly enhanced symptoms. Since the TCV CP is a suppressor of RNA silencing, increased levels of resultant free CP could augment...
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PMID: 12890616
PDF is available here.
PDF is available here.
Journal of Virology (77)14 2003
Abstract
These results support the hypothesis that a sequence-nonspecific plus-strand hairpin brings together flanking CA-rich sequences in the M1H region that confers fitness to satC by reducing the accumulation of stable virions....
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PMID: 12829828
PDF is available here.
PDF is available here.
Abstract
The satellite RNA of Bamboo mosaic virus (satBaMV) contains on open reading frame for a 20-kDa protein that is flanked by a 5'-untranslated region (UTR) of 159 nucleotides (nt) and a 3'-UTR of 129 nt. A secondary structure was predicted for the 5'-UTR of satBaMV RNA, which folds into a large stem-lo...
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PMID: 12832220
PDF is available here.
PDF is available here.
Abstract
We present here an observational and experimental analysis of the evolution of virulence of the plant virus Cucumber mosaic virus (CMV) during an epidemic on tomato in eastern Spain. Three types of CMV isolates were found that caused in tomato plants either a systemic necrosis (N isolates), stunting...
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PMID: 12778545
PDF is available here.
PDF is available here.
Journal of Molecular Biology (326)1 2003
Abstract
These results suggest that M1H replacement sequences contribute to the fitness of satC by either containing (-)-strand elements that enhance satRNA replication and/or a (+)-strand hairpin flanked with single-stranded sequence that enhances TCV movement....
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PMID: 12547189
PDF is available here.
PDF is available here.
Abstract
We have studied the correlation between structural dynamics and function of the hairpin ribozyme. The enzyme-substrate complex exists in either docked (active) or undocked (inactive) conformations. Using single-molecule fluorescence methods, we found complex structural dynamics with four docked stat...
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PMID: 12029135
PDF is available here.
PDF is available here.
Abstract
We set out to identify the 5' and 3' extremities of TED and features of these sequences with respect to translation. We found that both in wheat germ extract and in tobacco protoplasts, the 5' border is confined to 3 nt. Mutational analysis revealed that the autonomous function of TED is sensitive t...
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PMID: 11924567
PDF is available here.
PDF is available here.
Nucleic Acids Research (29)24 2001
Abstract
We have termed helix 7. In full-length VS RNA, this helix appears to span over 40 bp of sequence and brings the 5'- and 3'-ends of the RNA into proximity for the ligation reaction. Here we report a variant of the VS ribozyme with an extended 5'- and 3'-terminus capable of forming a truncated helix 7...
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PMID: 11812844
PDF is available here.
PDF is available here.
Abstract
We have found that replacement of 28 nt of the satC enhancer, termed the motif1-hairpin, with 28 randomized bases reduced satC accumulation 8- to 13-fold in Arabidopsis thaliana protoplasts. Deletion of single-stranded flanking sequences at either side of the hairpin also affected RNA accumulation w...
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PMID: 11601903
PDF is available here.
PDF is available here.
Biochemistry (Washington) (40)37 2001
Abstract
We have incorporated deoxy modifications at these four positions and determined the resulting destabilization of the docked conformer by means of time-resolved fluorescence resonance energy transfer. In a minimal form of the ribozyme, in which the loops are placed on the arms of a two-way helical ju...
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PMID: 11551220
PDF is available here.
PDF is available here.
Abstract
We show that, despite their low overall sequence similarity, a sequence alignment manually adjusted to take into account all the local similarities and the insertions/deletions and duplications/rearrangements described in the literature for viroids and viroid-like satellite RNA, along with the use o...
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PMID: 11479686
PDF is available here.
PDF is available here.
Abstract
We performed in vitro translation experiments to examine expression of these RNAs. Translation of three RT-PCR clones representing different lengths of the amino-terminal portion of the ORF of the genomic RNA resulted in autocatalytic release of the predicted 32.5-kDa protein. Site-directed mutagene...
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PMID: 11222102
PDF is available here.
PDF is available here.
Journal of Molecular Biology (305)4 2001
Abstract
The terminal half of the 5' untranslated region (UTR) in the (+)-strand RNA genome of tomato bushy stunt virus was analyzed for possible roles in viral RNA replication. Computer-aided thermodynamic analysis of secondary structure, phylogenetic comparisons for base-pair covariation, and chemical and...
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PMID: 11162089
PDF is available here.
PDF is available here.
Abstract
These results suggest that the sequence-specific DNA methylation spread into cells in which no satRNA replication occurred and that this was mediated by the spread of unamplified satRNA and/or its associated 22 nt RNA molecules....
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PMID: 11214177
PDF is available here.
PDF is available here.
Methods in Enzymology (341) 2001
Abstract
Structure of the ribozyme substrate hairpin of Neurospora VS RNA: a close look at the cleavage site.
Abstract
The cleavage site of the Neurospora VS RNA ribozyme is located in a separate hairpin domain containing a hexanucleotide internal loop with an A-C mismatch and two adjacent G-A mismatches. The solution structure of the internal loop and helix la of the ribozyme substrate hairpin has been determined b...
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PMID: 11142381
PDF is available here.
PDF is available here.
Abstract
We have compared the folding of this form of the ribozyme and subspecies lacking either the loops or the helical junction using fluorescence resonance energy transfer. The complete ribozyme as a four-way junction folds into an antiparallel structure by the cooperative binding of magnesium ions, requ...
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PMID: 11142382
PDF is available here.
PDF is available here.
Virus/Uirusu (50)2 2000
Abstract
Abstract
I model the evolution of coviruses using information on both viral virulence and the interactions between viruses and molecules that parasitize them: satellite viruses, satellite RNAs and defective interfering viruses. The model ultimately, and inevitably contains within it single-species dynamics a...
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PMID: 11127906
PDF is available here.
PDF is available here.
Journal of Virology (74)22 2000
Abstract
We concluded that an SGP contains one core promoterlike sequence (nt -30 through +16), two upstream enhancers (nt -59 through -31 and -91 through -60), and one downstream enhancer (nt +17 through +52), when the transcription initiation site is taken as +1. Site-directed mutagenesis and compensatory...
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PMID: 11044078
PDF is available here.
PDF is available here.
Abstract
We report the cloning, sequencing, and analysis of the other three dsRNAs. Sizes of the accessory dsRNAs are 3.6 kb (dsRNA 2), 1.9 kb (dsRNA 3), and 0.9 kb (dsRNA 4), compared to 9.8 kb for the genomic dsRNA segment (dsRNA 1). All three accessory dsRNA species are polyadenylated on the 3'-end of one...
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PMID: 11022006
PDF is available here.
PDF is available here.
Plant Cell Online (12)7 2000
Abstract
D satellite RNA (satRNA) with its helper virus, namely, cucumber mosaic virus, causes systemic necrosis in tomato. The infected plant exhibits a distinct spatial and temporal cell death pattern. The distinct features of chromatin condensation and nuclear DNA fragmentation indicate that programmed ce...
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PMID: 10899975
PDF is available here.
PDF is available here.
Journal of Virology (74)14 2000
Abstract
We have determined that certain sequences within the 3'-terminal stem-loop structures of satC and diG, which also serve as promoters for complementary strand synthesis, are critical for symptom modulation. Furthermore, the ability to attenuate symptoms was correlated with weakened binding of TCV CP...
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PMID: 10864666
PDF is available here.
PDF is available here.
Abstract
We have named the carmovirus consensus sequence (CCS), suppressed satC plus-strand synthesis to undetectable levels in protoplasts while still permitting some minus-strand synthesis. However, single and multiple mutations introduced into the 3'-proximal element had little or no effect on satC accumu...
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PMID: 10704342
PDF is available here.
PDF is available here.
Abstract
Viral RNA replication begins with specific recognition of cis-acting RNA elements by the viral RNA-dependent RNA polymerase (RdRp) and/or associated host factors. A short RNA element (3'-AACCCCUGGGAGGC) located 41 bases from the 5' end of minus strands of satellite RNA C (satC), a 356-base subviral...
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PMID: 10704343
PDF is available here.
PDF is available here.
Journal of Virology (74)5 2000
Abstract
Satellite panicum mosaic virus (SPMV) depends on its helper virus, panicum mosaic virus (PMV), to provide trans-acting proteins for replication and movement. The 824-nucleotide (nt) genome of SPMV possesses an open reading frame encoding a 17.5-kDa capsid protein (CP), which is shown to be dispensab...
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PMID: 10666255
PDF is available here.
PDF is available here.
Abstract
Fluorescence in situ hybridization (FISH) was employed on somatic chromosome preparations of Guizotia abyssinica using a DNA probe of the 18S-5.8S-26S rRNA genes including the transcribed and non-transcribed spacer sequences. A maximum of six major and two minor signal sites of rDNA was observed. Ho...
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PMID: 10857261
PDF is available here.
PDF is available here.
Archives of Virology (145)1 2000
Abstract
A satellite RNA (satRNA) associated with blackcurrant reversion nepovirus (BRV) was isolated and its nucleotide sequence was determined from cDNA clones. BRV satRNA was 1432 nucleotides (nt) in length excluding the poly(A)-tail, and contained one open reading frame which encodes a polypeptide of 402...
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PMID: 10664405
PDF is available here.
PDF is available here.
Abstract
A Monte Carlo method was used to test the extent of sequence similarity among viroids, satellite RNAs, and hepatitis delta virus. This analysis revealed that there is insufficient sequence similarity among these pathogens to support the hypothesis that they have a common evolutionary origin. Further...
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PMID: 10654264
PDF is available here.
PDF is available here.