scholarly journals RNA Transcripts Derived from a Cloned Full-Length Copy of the Feline Calicivirus Genome Do Not Require VpG for Infectivity

Virology ◽  
1995 ◽  
Vol 210 (2) ◽  
pp. 383-390 ◽  
Author(s):  
Stanislav Sosnovtsev ◽  
Kim Y. Green
Keyword(s):  
Full Length ◽  
Feline Calicivirus ◽  
Rna Transcripts ◽  
Full Length Copy

Infectious RNA transcripts derived from full-length DNA copies of the genomic RNAs of cowpea mosaic virus

Virology ◽  
1988 ◽  
Vol 165 (1) ◽  
pp. 33-41 ◽  
Author(s):  
Pieter Vos ◽  
Martine Jaegle ◽  
Joan Wellink ◽  
Jan Verver ◽  
Rik Eggen ◽  
...  
Keyword(s):  
Mosaic Virus ◽  
Full Length ◽  
Cowpea Mosaic Virus ◽  
Genomic Rnas ◽  
Rna Transcripts

scholarly journals RNA transcripts of full-length cDNA clones of rabbit hepatitis E virus are infectious in rabbits

2015 ◽  
Vol 96 (5) ◽  
pp. 1190-1190
Author(s):  
Caitlin M. Cossaboom ◽  
Yao-Wei Huang ◽  
Danielle M. Yugo ◽  
Scott P. Kenney ◽  
Pablo Piñeyro ◽  
...  
Keyword(s):  
Hepatitis E Virus ◽  
Hepatitis E ◽  
Full Length ◽  
Cdna Clones ◽  
Full Length Cdna ◽  
Rna Transcripts

scholarly journals Effects of Homology Length in the Repeat Region on Minus-Strand DNA Transfer and Retroviral Replication

2001 ◽  
Vol 75 (2) ◽  
pp. 809-820 ◽  
Author(s):  
Que Dang ◽  
Wei-Shau Hu
Keyword(s):  
Reverse Transcription ◽  
Leukemia Virus ◽  
Dna Transfer ◽  
Full Length ◽  
Minus Strand ◽  
Rna Transcripts ◽  
R Region ◽  
Retroviral Replication ◽  
The Impact ◽  
Viral Titers

ABSTRACT Homology between the two repeat (R) regions in the retroviral genome mediates minus-strand DNA transfer during reverse transcription. We sought to define the effects of R homology lengths on minus-strand DNA transfer. We generated five murine leukemia virus (MLV)-based vectors that contained identical sequences but different lengths of the 3′ R (3, 6, 12, 24 and 69 nucleotides [nt]); 69 nt is the full-length MLV R. After one round of replication, viral titers from the vector with a full-length downstream R were compared with viral titers generated from the other four vectors with reduced R lengths. Viral titers generated from vectors with R lengths reduced to one-third (24 nt) or one-sixth (12 nt) that of the wild type were not significantly affected; however, viral titers generated from vectors with only 3- or 6-nt homology in the R region were significantly lower. Because expression and packaging of the RNA were similar among all the vectors, the differences in the viral titers most likely reflected the impact of the homology lengths on the efficiency of minus-strand DNA transfer. The molecular nature of minus-strand DNA transfer was characterized in 63 proviruses. Precise R-to-R transfer was observed in most proviruses generated from vectors with 12-, 24-, or 69-nt homology in R, whereas aberrant transfers were predominantly used to generate proviruses from vectors with 3- or 6-nt homology. Reverse transcription using RNA transcribed from an upstream promoter, termed read-in RNA transcripts, resulted in most of the aberrant transfers. These data demonstrate that minus-strand DNA transfer is homology driven and a minimum homology length is required for accurate and efficient minus-strand DNA transfer.

scholarly journals Comparative evaluation of full-length isoform quantification from RNA-Seq

2019 ◽  
Author(s):  
Dimitra Sarantopoulou ◽  
Soumyashant Nayak ◽  
Thomas G. Brooks ◽  
Nicholas F. Lahens ◽  
Gregory R. Grant
Keyword(s):  
Structural Parameters ◽  
Differential Expression Analysis ◽  
Full Length ◽  
Rna Seq ◽  
Rna Transcripts ◽  
Fundamental Difficulty ◽  
Isoform Quantification ◽  
Realistic Data ◽  
Naive Approach ◽  
Better Than

AbstractFull-length isoform quantification from RNA-Seq is a key goal in transcriptomics analyses and an area of active development. The fundamental difficulty stems from the fact that RNA transcripts are long, while RNA-Seq reads are typically short. We have generated realistic benchmarking data, and have performed a comprehensive comparative analysis of isoform quantification, including evaluating them on the level of differential expression analysis. Genome, transcriptome and pseudo alignment-based methods are included; and a naive approach is included to establish a baseline. Kallisto, RSEM, and Cufflinks exhibit the highest accuracy on idealized data, while on more realistic data they do not perform considerably better than the naive approach. We determine the effect of structural parameters, such as number of exons or number of isoforms, on accuracy. Overall, the tested methods show sufficient divergence from the truth to suggest that full-length isoform quantification should be employed selectively.

Expression of RNA transcripts of potato virus X full-length and subgenomic cDNAs

Biochimie ◽  
1990 ◽  
Vol 72 (9) ◽  
pp. 677-684 ◽  
Author(s):  
S MOROZOV ◽  
N MIROSHNICHENKO ◽  
D ZELENINA ◽  
O FEDORKIN ◽  
A SOLOVIJEV ◽  
...  
Keyword(s):  
Potato Virus ◽  
Potato Virus X ◽  
Full Length ◽  
Rna Transcripts

scholarly journals In Vitro Assembly of Human H/ACA Small Nucleolar RNPs Reveals Unique Features of U17 and Telomerase RNAs

2000 ◽  
Vol 20 (9) ◽  
pp. 3037-3048 ◽  
Author(s):  
François Dragon ◽  
Vanda Pogačić ◽  
Witold Filipowicz
Keyword(s):  
Full Length ◽  
Stem Loop ◽  
Rna Transcripts ◽  
Cell Extracts ◽  
In Vitro Assembly ◽  
Tail Structure ◽  
Human Telomerase ◽  
Nucleolar Rnas

ABSTRACT The H/ACA small nucleolar RNAs (snoRNAs) are involved in pseudouridylation of pre-rRNAs. They usually fold into a two-domain hairpin-hinge-hairpin-tail structure, with the conserved motifs H and ACA located in the hinge and tail, respectively. Synthetic RNA transcripts and extracts from HeLa cells were used to reconstitute human U17 and other H/ACA ribonucleoproteins (RNPs) in vitro. Competition and UV cross-linking experiments showed that proteins of about 60, 29, 23, and 14 kDa interact specifically with U17 RNA. Except for U17, RNPs could be reconstituted only with full-length H/ACA snoRNAs. For U17, the 3′-terminal stem-loop followed by box ACA (U17/3′st) was sufficient to form an RNP, and U17/3′st could compete other full-length H/ACA snoRNAs for assembly. The H/ACA-like domain that constitutes the 3′ moiety of human telomerase RNA (hTR), and its 3′-terminal stem-loop (hTR/3′st), also could form an RNP by binding H/ACA proteins. Hence, the 3′-terminal stem-loops of U17 and hTR have some specific features that distinguish them from other H/ACA RNAs. Antibodies that specifically recognize the human GAR1 (hGAR1) protein could immunoprecipitate H/ACA snoRNAs and hTR from HeLa cell extracts, which demonstrates that hGAR1 is a component of H/ACA snoRNPs and telomerase in vivo. Moreover, we show that in vitro-reconstituted RNPs contain hGAR1 and that binding of hGAR1 does not appear to be a prerequisite for the assembly of the other H/ACA proteins.

scholarly journals Infectious RNA transcripts from full-length dengue virus type 2 cDNA clones made in yeast.

1997 ◽  
Vol 71 (7) ◽  
pp. 5366-5374 ◽  
Author(s):  
S Polo ◽  
G Ketner ◽  
R Levis ◽  
B Falgout
Keyword(s):  
Dengue Virus ◽  
Virus Type ◽  
Full Length ◽  
Cdna Clones ◽  
Rna Transcripts ◽  
Dengue Virus Type 2 ◽  
Made In
Sign in / Sign up

Export Citation Format

Share Document