Transposable elements and the epigenetic regulation of the genome

@article{Slotkin2007TransposableEA,
  title={Transposable elements and the epigenetic regulation of the genome},
  author={R. Keith Slotkin and Robert A. Martienssen},
  journal={Nature Reviews Genetics},
  year={2007},
  volume={8},
  pages={272-285}
}
Overlapping epigenetic mechanisms have evolved in eukaryotic cells to silence the expression and mobility of transposable elements (TEs). Owing to their ability to recruit the silencing machinery, TEs have served as building blocks for epigenetic phenomena, both at the level of single genes and across larger chromosomal regions. Important progress has been made recently in understanding these silencing mechanisms. In addition, new insights have been gained into how this silencing has been co… 

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References

SHOWING 1-10 OF 156 REFERENCES

The role of RNA interference in heterochromatic silencing

TLDR
Heterochromatin has emerged as a key factor in epigenetic regulation of gene expression, chromosome behaviour and evolution.

Insulators: exploiting transcriptional and epigenetic mechanisms

TLDR
New insights suggest that the mechanisms of action of both enhancer blockers and barriers might not be unique to these types of element, but instead are adaptations of other gene-regulatory mechanisms.

Stress and transposable elements: co-evolution or useful parasites?

The activity of transposable elements can be induced by environmental and population factors and in particular by stresses in various organisms. A consequence of the increase in transposable element

RNAi-mediated pathways in the nucleus

TLDR
RNA interference is an evolutionarily conserved mechanism that uses short antisense RNAs that are generated by 'dicing' dsRNA precursors to target corresponding mRNAs for cleavage to facilitate the directed silencing of specific genomic regions.

Evolutionary dynamics of transposable elements at the centromere.

Transposable elements and host genome evolution.

Epigenetic Control of CACTA Transposon Mobility in Arabidopsis thaliana

TLDR
It is reported that CACTA activated by the ddm1 mutation remains mobile in the presence of the wild-type DDM1 gene, suggesting that de novo silencing is not efficient for the defense of the genome against CACta movement.

Initiation, Establishment, and Maintenance of Heritable MuDR Transposon Silencing in Maize Are Mediated by Distinct Factors

TLDR
It is shown that this gene, Mop1 (Mediator of paramutation1) codes for a putative RNA-dependent RNA polymerase, whose activity is required for the production of small RNAs that correspond to the MuDR transposon sequence, suggesting that the establishment and maintenance of MuDR silencing have distinct requirements.

Mobile elements and mammalian genome evolution.

...