July 12, 2021

Homing in on how cells keep gene silencing in check

Long considered ‘junk’, non-coding RNAs have emerged as important regulators of diverse cellular processes, including the silencing of genes. Working in yeast, researchers from the Bühler group have identified more than 20 mutations that enable RNA-mediated gene silencing. The findings could improve our understanding of the factors that keep gene silencing in check.

Instead of being the basis for a protein, non-coding RNA molecules perform specific activities within cells: together with other factors, some non-coding RNAs can recruit enzymes that add specific chemical groups — or epigenetic tags — to the DNA molecule. These epigenetic modifications typically result in the silencing of target genes.

Using data obtained by a combination of genetic screens and whole-genome sequencing, Yukiko Shimada, a researcher in the group of Marc Bühler, and her colleagues identified more than 20 mutations in yeast genes involved in various processes, including the regulation of DNA transcription and the post-translational modification of proteins. The mutations appear to enable RNA-mediated epigenetic gene silencing in the fission yeast Schizosaccharomyces pombe.

The findings, published in PLOS Genetics, suggest that genetic changes usually precede RNA-mediated epigenetic gene silencing in fission yeast. This would be consistent with the process of biological ‘bet-hedging’, in which organisms increase their fitness in unpredictable or stressful conditions by sacrificing their fitness in normal conditions. S. pombe might “hedge its bets” by acquiring a silencing-enabling mutation to adapt to an ever-changing environment, the researchers say.

Original publication:
Yukiko Shimada, Sarah H. Carl, Merle Skribbe, Valentin Flury, Tahsin Kuzdere, Georg Kempf, Marc Bühler An enhancer screen identifies new suppressors of small-RNA-mediated epigenetic gene silencing. PLOS Genetics (2021). Advance online publication

FMI By studying colonies of fission yeast (pictured), FMI researchers identified more than 20 mutations that enable RNA-mediated epigenetic gene silencing.

About the first author:
Yukiko Shimada was born in Aichi, Japan, and completed a PhD at the Swiss Institute for Experimental Cancer Research in Épalinges, where she studied the establishment of cell polarity in budding yeast. Yukiko joined the FMI in 2006, and since 2008 she has been a lab manager in the group of Marc Bühler. A mother of two boys, in her spare time she enjoys reading, baking, and going for long walks.