An RNA aptamer to HP1/Swi6 facilitates heterochromatin formation at an ectopic locus in S.pombe

RNA Biology
Rita RaniAarti Sevilimedu

Abstract

In the fission yeast Schizosaccharomyces pombe (S.pombe), heterochromatin domains are established and maintained by protein complexes that contain numerous RNA binding domains among their components. The fission yeast HP1 protein Swi6 is one such component and contains an unstructured RNA-binding hinge, which is important for the integrity and silencing of heterochromatin. In this study, we have used an RNA aptamer that likely binds to the Swi6 hinge with high affinity, as a tool to perturb the natural interactions mediated by this domain. When the hinge is blocked by the aptamer RNA, Swi6 appears to become less restricted to the pericentromeres and is enriched at specific euchromatic loci. This suggests a role for the Swi6 hinge, along with the chromoshadow domain (previously shown) in controlling the spread of heterochromatin in S.pombe. The study also highlights the potential of using a synthetic aptamer RNA as a tool to perturb nucleic acid - protein interaction in vivo with the objective of understanding the functional relevance of such an interaction.

References

May 25, 1990·Nucleic Acids Research·M E SchmittB L Trumpower
Mar 14, 1998·Nucleic Acids Research·R F Ryan, M K Darby
Oct 3, 2000·Nature·A AkhtarP B Becker
Jan 10, 2002·Nature Cell Biology·Nobuhiro NonakaYoshinori Watanabe
Feb 25, 2003·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Takanori WatanabeHiroshi Nojima
May 21, 2003·The Journal of Cell Biology·Lucia PiacentiniSergio Pimpinelli
Aug 9, 2006·Nucleic Acids Research·Xiaoching ZhaoJohn T Lis
Mar 16, 2007·Proceedings of the National Academy of Sciences of the United States of America·Hua ShiJohn T Lis
Apr 12, 2008·Nucleic Acids Research·Aarti SevilimeduJohn T Lis
Jul 22, 2008·Nature Genetics·Natalie DutrowBradley R Cairns
Jan 24, 2009·Proceedings of the National Academy of Sciences of the United States of America·Richard J Lawrence, Thomas A Volpe
May 22, 2009·Nucleic Acids Research·Timothy L BaileyWilliam S Noble
Dec 15, 2010·Nature Structural & Molecular Biology·Katrina J WoolcockMarc Bühler
Feb 19, 2011·Bioinformatics·Charles E GrantWilliam Stafford Noble
Apr 23, 2011·Science·Nicholas RhindChad Nusbaum
May 18, 2011·Nucleic Acids Research·H Hans SalamancaJohn T Lis
Oct 13, 2011·Molecular Systems Biology·Fabian SieversDesmond G Higgins
Nov 26, 2011·Algorithms for Molecular Biology : AMB·Ronny LorenzIvo L Hofacker
Dec 8, 2011·Journal of Computer-aided Molecular Design·C SantiagoM Schapira
Jun 6, 2012·Annual Review of Biochemistry·John L Rinn, Howard Y Chang
Jan 1, 2014·Molecular Cell·Ruby YuDanesh Moazed
Apr 30, 2014·BioMed Research International·Rico BeierDirk Labudde
Oct 30, 2014·Nature Communications·Jake Z JacobsMikel Zaratiegui
Apr 22, 2015·Methods in Molecular Biology·Chen QiuYong-Zhen Xu
Aug 13, 2015·Biochimica Et Biophysica Acta·Akira YamashitaMasayuki Yamamoto
Dec 10, 2015·Biochemistry·Natalia Milosevich, Fraser Hof
Jun 15, 2017·Current Opinion in Cell Biology·Whitney L Johnson, Aaron F Straight
Dec 8, 2017·Genes & Development·Scott BerryCaroline Dean

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Datasets Mentioned

BETA
GSE36956

Methods Mentioned

BETA
SELEX
in vitro transcription
PCR
electrophoretic mobility shift assay
filter binding
ChIP
RIP
NMR
electrophoresis
immunoprecipitation

Software Mentioned

ClustalW
FIMO
Clustal Omega
RNAfold
MEME Suite
MEME
GOTERMMAPPER

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