RNA silencing in plants
NaturePublished 15 September 2004
David C. Baulcombe
Citations2,501
SJR quartileQ1
SJR score18.29
SNIP10.16
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TL;DR
Diverse biological roles of these pathways have been established, including defence against viruses, regulation of gene expression and the condensation of chromatin into heterochromatin, and the full extent of this functional diversity in genetic and epigenetic mechanisms of genome control is investigated.
Abstract
There are at least three RNA silencing pathways for silencing specific genes in plants. In these pathways, silencing signals can be amplified and transmitted between cells, and may even be self-regulated by feedback mechanisms. Diverse biological roles of these pathways have been established, including defence against viruses, regulation of gene expression and the condensation of chromatin into heterochromatin. We are now in a good position to investigate the full extent of this functional diversity in genetic and epigenetic mechanisms of genome control.
Keywords
Agricultural and Biological SciencesBiochemistry, Genetics and Molecular Biology
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ScienceRNAi-Mediated Targeting of Heterochromatin by the RITS Complex
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ScienceSystemic RNAi in <i>C. elegans</i> Requires the Putative Transmembrane Protein SID-1
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This strain was constructed to identify systemic RNA interference–deficient (sid) loci required to spread gene-silencing information between tissues but not to initiate or maintain an RNAi response, and encodes a conserved protein with predicted transmembrane domains.
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ScienceA Similarity Between Viral Defense and Gene Silencing in Plants
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Tandem repeats are prone to epigenetic silencing regulated by RNA interference, but siRNAs from single-copy sequences are exhausted by sequential use of downstream primers by RdRP, which could account for the formation of heterochromatin from tandem repeats.
Molecular CellCellular RNA-Dependent RNA Polymerase Involved in Posttranscriptional Gene Silencing Has Two Distinct Activity Modes
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The presumed mode of action of some silencing suppressors is examined, and their value as molecular probes of the RNA silencing mechanism is discussed, and the biotechnological applications of silencing suppression are considered.
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