Did the modulation of expression noise shape the evolution of three dimensional genome organizations in eukaryotes?

Nucleus
Kuljeet Singh Sandhu

Abstract

The pervasive role of distant chromatin interactions in transcriptional regulation is increasingly becoming evident. There is a possibility that the greater diversity in chromatin interactions of a genomic locus could contribute to stochastic variation in its gene expression. However, this issue has not been addressed. Here, I present a few lines of evidence, which suggest that the variation in trans chromatin interactions might occur at the cost of expression noise. Genomic regions with nucleosome depletion, abundant and rapid transcription and with essential gene clusters exhibit relatively fewer trans chromatin interactions in the nucleus. Moreover, loci with greater number of interactions tend to show higher expression noise. Based on these observations, I hypothesize that the three dimensional organization of eukaryotic genomes might have evolved under a selective pressure to minimize the expression noise of essential gene clusters in the nucleus.

References

Jun 1, 1988·Proceedings of the National Academy of Sciences of the United States of America·A K NandiA I Skoultchi
Oct 6, 1999·The Journal of Cell Biology·P J VerschureR van Driel
Mar 23, 2002·Current Biology : CB·Jonathan R ChubbWendy A Bickmore
Aug 17, 2002·Science·Michael B ElowitzPeter S Swain
Jul 31, 2007·Nature Genetics·Nizar N Batada, Laurence D Hurst
May 3, 2008·Science·Ugrappa NagalakshmiMichael Snyder
Nov 15, 2008·Current Opinion in Genetics & Development·M Madan BabuAna Pombo
Dec 19, 2008·Nature·Noam KaplanEran Segal
Aug 20, 2009·Molecular Systems Biology·Zhihua ZhangJianzhi Zhang
Sep 11, 2009·Nature·Anita Göndör, Rolf Ohlsson
Nov 6, 2009·Nature·Melissa J FullwoodYijun Ruan
Mar 10, 2010·Current Opinion in Genetics & Development·Stefan SchoenfelderPeter Fraser
May 4, 2010·Nature·Zhijun DuanWilliam S Noble
May 22, 2010·Proceedings of the National Academy of Sciences of the United States of America·Jingjing LiZhaolei Zhang
Nov 26, 2010·PloS One·Vicent PelechanoJosé E Pérez-Ortín

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Citations

Aug 25, 2017·Molecular Systems Biology·Georg KustatscherJuri Rappsilber

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Methods Mentioned

BETA
proximity ligation
RNA-Seq

Software Mentioned

igraph
R package
R

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