RNA interference by expressing short hairpin RNA in the Ciona intestinalis embryo
@article{Nishiyama2008RNAIB,
title={RNA interference by expressing short hairpin RNA in the Ciona intestinalis embryo},
author={A Nishiyama and Shigeki Fujiwara},
journal={Development},
year={2008},
volume={50}
}We carried out RNA interference by expressing short hairpin RNA (shRNA) in the Ciona intestinalis embryo. For this purpose, we identified a gene encoding U6 small nuclear RNA (snRNA) in the C. intestinalis genome. The 1‐kb sequence upstream of the U6 snRNA gene was sufficient for directing transcription of short RNA as revealed by Northern blot hybridization. An shRNA‐expressing plasmid vector was constructed, in which shRNA‐encoding oligonucleotides are inserted downstream of the U6 promoter…
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References
SHOWING 1-10 OF 56 REFERENCES
Gene silencing in chick embryos with a vector‐based small interfering RNA system
- BiologyDevelopment, growth & differentiation
- 2003
In this paper, the use of vector‐based RNA interference (RNAi) to specifically interfere with gene expression in chick embryos is reported. In ovo electroporation was carried out to transfer a small…
An RNA-directed nuclease mediates post-transcriptional gene silencing in Drosophila cells
- BiologyNature
- 2000
It is shown that ‘loss-of-function’ phenotypes can be created in cultured Drosophila cells by transfection with specific double-stranded RNAs, which coincides with a marked reduction in the level of cognate cellular messenger RNAs.
U6 promoter–driven siRNAs with four uridine 3′ overhangs efficiently suppress targeted gene expression in mammalian cells
- BiologyNature Biotechnology
- 2002
A vector-based siRNA expression system that can induce RNAi in mammalian cells is reported, which might allow therapeutic applications by means of vector-mediated RNAi and facilitate a wide range of functional analysis of mammalian genes.
Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans
- BiologyNature
- 1998
To their surprise, it was found that double-stranded RNA was substantially more effective at producing interference than was either strand individually, arguing against stochiometric interference with endogenous mRNA and suggesting that there could be a catalytic or amplification component in the interference process.
Role for a bidentate ribonuclease in the initiation step of RNA interference
- BiologyNature
- 2001
Dicer is a member of the RNase III family of nucleases that specifically cleave double-stranded RNAs, and is evolutionarily conserved in worms, flies, plants, fungi and mammals, and has a distinctive structure, which includes a helicase domain and dualRNase III motifs.
Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells
- BiologyNature
- 2001
21-nucleotide siRNA duplexes provide a new tool for studying gene function in mammalian cells and may eventually be used as gene-specific therapeutics.
Morpholino-based gene knockdown screen of novel genes with developmental function in Ciona intestinalis
- BiologyDevelopment
- 2003
Screening for developmental genes by the reverse genetic approach in Ciona intestinalis embryos is effective for identifying novel genes with developmental functions required for the development of chordates.
Distinct roles for Argonaute proteins in small RNA-directed RNA cleavage pathways.
- BiologyGenes & development
- 2004
It is shown that AGO2 is an essential component for siRNA-directed RNA interference (RNAi) response and is required for the unwinding of siRNA duplex and in consequence assembly of si RNA into RISC in Drosophila embryos, and that distinct Argonaute proteins act at different steps of the small RNA silencing mechanism.
RNAi expression vectors in mammalian cells.
- BiologyMethods in molecular biology
- 2004
How to generate vector-based siRNA expression vectors is described and the experimental procedure for suppressing the expression of a reporter gene by transient transfection of a si RNA expression vector is outlined.
Upstream regulatory elements are necessary and sufficient for transcription of a U6 RNA gene by RNA polymerase III.
- BiologyThe EMBO journal
- 1988
Analysis of 3′ deletion mutants showed that the transcription termination of U6 RNA is dependent on a T cluster present on the 3′ end of the gene, thus providing further support to other lines of evidence that U6 genes are transcribed by RNA polymerase III.