An Introduction to RNA-mediated Gene Silencing

Overview

Journal Sci Prog

Publisher Sage Publications

Specialty Science

Date 2005 Dec 24

PMID 16372594

Citations 1

Authors

Mark Geanacopoulos

Affiliations

Soon will be listed here.

Abstract

Careful analysis of cases where introduction of additional copies of endogenous genes caused coordinate silencing of both the transgene and the endogenous gene laid the ground work for the discovery of RNA-mediated silencing. Silencing begins with the expression and recognition of double-stranded RNA, which is cleaved into short RNAs that recognize, by complementarity, sequences that are targets for down regulation. An RNA target can be regarded (post-transcriptional gene silencing), but the small RNAs can also direct the sequence-specific modification of DNA and chromatin. RNA-mediated gene silencing in eukaryotes may have originated as surveillance mechanism to protect the organism from transposable elements and viruses and then evolved to specify chromosomal modifications and to regulate expression of a significant fraction of endogenous genes by microRNAs. This review seeks to furnish the student and non-expert with some idea of how RNA-mediated silencing was discovered and a broad overview of the present state of knowledge.

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References

Cogoni C, Macino G . Gene silencing in Neurospora crassa requires a protein homologous to RNA-dependent RNA polymerase. Nature. 1999; 399(6732):166-9. DOI: 10.1038/20215. View

Matzke M, Birchler J . RNAi-mediated pathways in the nucleus. Nat Rev Genet. 2005; 6(1):24-35. DOI: 10.1038/nrg1500. View

Moss E, Lee R, Ambros V . The cold shock domain protein LIN-28 controls developmental timing in C. elegans and is regulated by the lin-4 RNA. Cell. 1997; 88(5):637-46. DOI: 10.1016/s0092-8674(00)81906-6. View

Romano N, Macino G . Quelling: transient inactivation of gene expression in Neurospora crassa by transformation with homologous sequences. Mol Microbiol. 1992; 6(22):3343-53. DOI: 10.1111/j.1365-2958.1992.tb02202.x. View

Feschotte C, Jiang N, Wessler S . Plant transposable elements: where genetics meets genomics. Nat Rev Genet. 2002; 3(5):329-41. DOI: 10.1038/nrg793. View

Sontheimer E . Assembly and function of RNA silencing complexes. Nat Rev Mol Cell Biol. 2005; 6(2):127-38. DOI: 10.1038/nrm1568. View

Fire A, Xu S, Montgomery M, Kostas S, Driver S, Mello C . Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature. 1998; 391(6669):806-11. DOI: 10.1038/35888. View

Napoli C, Lemieux C, Jorgensen R . Introduction of a Chimeric Chalcone Synthase Gene into Petunia Results in Reversible Co-Suppression of Homologous Genes in trans. Plant Cell. 1990; 2(4):279-289. PMC: 159885. DOI: 10.1105/tpc.2.4.279. View

Lee D, Seong K, Pratt R, Baker K, Aramayo R . Properties of unpaired DNA required for efficient silencing in Neurospora crassa. Genetics. 2004; 167(1):131-50. PMC: 1470857. DOI: 10.1534/genetics.167.1.131. View

10.

Hammond S, Bernstein E, Beach D, Hannon G . An RNA-directed nuclease mediates post-transcriptional gene silencing in Drosophila cells. Nature. 2000; 404(6775):293-6. DOI: 10.1038/35005107. View

11.

Bernstein E, Caudy A, Hammond S, Hannon G . Role for a bidentate ribonuclease in the initiation step of RNA interference. Nature. 2001; 409(6818):363-6. DOI: 10.1038/35053110. View

12.

Schramke V, Sheedy D, Denli A, Bonila C, Ekwall K, Hannon G . RNA-interference-directed chromatin modification coupled to RNA polymerase II transcription. Nature. 2005; 435(7046):1275-9. DOI: 10.1038/nature03652. View

13.

Song J, Smith S, Hannon G, Joshua-Tor L . Crystal structure of Argonaute and its implications for RISC slicer activity. Science. 2004; 305(5689):1434-7. DOI: 10.1126/science.1102514. View

14.

Almeida R, Allshire R . RNA silencing and genome regulation. Trends Cell Biol. 2005; 15(5):251-8. DOI: 10.1016/j.tcb.2005.03.006. View

15.

Sijen T, Plasterk R . Transposon silencing in the Caenorhabditis elegans germ line by natural RNAi. Nature. 2003; 426(6964):310-4. DOI: 10.1038/nature02107. View

16.

Martienssen R, Zaratiegui M, Goto D . RNA interference and heterochromatin in the fission yeast Schizosaccharomyces pombe. Trends Genet. 2005; 21(8):450-6. DOI: 10.1016/j.tig.2005.06.005. View

17.

Sontheimer E, Carthew R . Silence from within: endogenous siRNAs and miRNAs. Cell. 2005; 122(1):9-12. DOI: 10.1016/j.cell.2005.06.030. View

18.

Coen E, Carpenter R . A semi-dominant allele, niv-525, acts in trans to inhibit expression of its wild-type homologue in Antirrhinum majus. EMBO J. 1988; 7(4):877-83. PMC: 454411. DOI: 10.1002/j.1460-2075.1988.tb02891.x. View

19.

Verdel A, Jia S, Gerber S, Sugiyama T, Gygi S, Grewal S . RNAi-mediated targeting of heterochromatin by the RITS complex. Science. 2004; 303(5658):672-6. PMC: 3244756. DOI: 10.1126/science.1093686. View

20.

Sijen T, Fleenor J, Simmer F, Thijssen K, Parrish S, Timmons L . On the role of RNA amplification in dsRNA-triggered gene silencing. Cell. 2001; 107(4):465-76. DOI: 10.1016/s0092-8674(01)00576-1. View