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Experimental RNAi02:15

Experimental RNAi

RNA interference (RNAi) is a cellular mechanism that inhibits gene expression by suppressing its transcription or activating the RNA degradation process. The mechanism was discovered by Andrew Fire and Craig Mello in 1998 in plants. Today, it is observed in almost all eukaryotes, including protozoa, flies, nematodes, insects, parasites, and mammals. This precise cellular mechanism of gene silencing has been developed into a technique that provides an efficient way to identify and determine the...
siRNA - Small Interfering RNAs02:30

siRNA - Small Interfering RNAs

Small interfering RNAs, or siRNAs, are short regulatory RNA molecules that can silence genes post-transcriptionally, as well as the transcriptional level in some cases. siRNAs are important for protecting cells against viral infections and silencing transposable genetic elements.
In the cytoplasm, siRNA is processed from a double-stranded RNA, which comes from either endogenous DNA transcription or exogenous sources like a virus. This double-stranded RNA is then cleaved by the ATP-dependent...
MicroRNAs01:22

MicroRNAs

MicroRNA (miRNA) are short, regulatory RNA transcribed from introns (non-coding regions of a gene) or intergenic regions (stretches of DNA present between genes). Several processing steps are required to form biologically active, mature miRNA. The initial transcript, called primary miRNA (pri-mRNA), base-pairs with itself, forming a stem-loop structure. Within the nucleus, an endonuclease enzyme, called Drosha, shortens the stem-loop structure into hairpin-shaped pre-miRNA. After the pre-miRNA...
MicroRNAs01:22

MicroRNAs

MicroRNA (miRNA) are short, regulatory RNA transcribed from introns—non-coding regions of a gene—or intergenic regions—stretches of DNA present between genes. Several processing steps are required to form biologically active, mature miRNA. The initial transcript, called primary miRNA (pri-mRNA), base-pairs with itself forming a stem-loop structure. Within the nucleus, an endonuclease enzyme, called Drosha, shortens the stem-loop structure into hairpin-shaped pre-miRNA. After the pre-miRNA ends...
Eukaryotic Transcription Inhibitors01:52

Eukaryotic Transcription Inhibitors

Certain biochemical processes, such as embryonic development and cell growth regulation, depend on the repression of specific genes. DNA binding proteins known as eukaryotic transcription inhibitors regulate the repression of gene expression in eukaryotes. The presence of these inhibitors at the required location and time in the cell is triggered by the presence of hormones and additional signals from other cells.
Eukaryotic transcription inhibitors usually contain two distinct domains, a DNA...
Epigenetic Regulation01:37

Epigenetic Regulation

Epigenetic changes alter the physical structure of the DNA without changing the genetic sequence and often regulate whether genes are turned on or off. This regulation ensures that each cell produces only proteins necessary for its function. For example, proteins that promote bone growth are not produced in muscle cells. Epigenetic mechanisms play an essential role in healthy development. Conversely, precisely regulated epigenetic mechanisms are disrupted in diseases like cancer.
X-chromosome...

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Related Experiment Video

Updated: Jul 10, 2026

In Vitro Selection of Engineered Transcriptional Repressors for Targeted Epigenetic Silencing
10:44

In Vitro Selection of Engineered Transcriptional Repressors for Targeted Epigenetic Silencing

Published on: May 5, 2023

Gene silencing CUTs both ways.

Nick Proudfoot1, Monika Gullerova

  • 1Sir William Dunn School of Pathology, South Parks Rd., OX1 3RE, University of Oxford, Oxford, UK. nicholas.proudfoot@path.ox.ac.uk

Cell
|November 21, 2007
PubMed
Summary

Antisense transcripts in yeast can trigger gene silencing. Stabilizing these transcripts by impairing the exosome leads to histone deacetylase recruitment, demonstrating a novel gene regulation mechanism.

Area of Science:

  • Molecular Biology
  • Genetics
  • Epigenetics

Background:

  • Eukaryotic genomes extensively transcribe into various RNA molecules, including antisense transcripts and cryptic unstable transcripts (CUTs).
  • The role and regulation of these non-coding transcripts are not fully understood.

Purpose of the Study:

  • To investigate the functional role of antisense transcripts in gene regulation.
  • To determine the mechanism by which antisense transcripts might influence gene expression.

Main Methods:

  • Utilizing budding yeast (Saccharomyces cerevisiae) as a model organism.
  • Employing techniques to impair the exosome complex, leading to the stabilization of otherwise unstable transcripts.
  • Analyzing the recruitment of histone deacetylases (HDACs) in response to stabilized antisense transcripts.

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Analysis of Transgenerational Epigenetic Inheritance in C. elegans Using a Fluorescent Reporter and Chromatin Immunoprecipitation (ChIP)

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Dissection of Enhancer Function Using Multiplex CRISPR-based Enhancer Interference in Cell Lines
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Dissection of Enhancer Function Using Multiplex CRISPR-based Enhancer Interference in Cell Lines

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Last Updated: Jul 10, 2026

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Analysis of Transgenerational Epigenetic Inheritance in C. elegans Using a Fluorescent Reporter and Chromatin Immunoprecipitation (ChIP)
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10:46

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Main Results:

  • Demonstrated that stabilized antisense transcripts can mediate gene silencing in yeast.
  • Showed that this gene silencing occurs through the recruitment of histone deacetylases to target gene loci.
  • Provided evidence that exosome impairment is key to stabilizing antisense transcripts for regulatory functions.

Conclusions:

  • Antisense transcripts, when stabilized, can act as potent mediators of gene silencing.
  • Histone deacetylase recruitment is a critical component of the antisense-mediated gene silencing pathway.
  • This study reveals a novel layer of gene regulation involving non-coding RNA and epigenetic modifications.