Visualizing the structure and motion of the long noncoding RNA HOTAIR

Rachel Spokoini-Stern; Dimitar Stamov; Hadass Jessel; Lior Aharoni; Heiko Haschke; Jonathan Giron; Ron Unger; Eran Segal; Almogit Abu-Horowitz; Ido Bachelet

doi:10.1261/rna.074633.120

Visualizing the structure and motion of the long noncoding RNA HOTAIR

Rachel Spokoini-Stern, Dimitar Stamov, Hadass Jessel, Lior Aharoni, Heiko Haschke, Jonathan Giron, Ron Unger, Eran Segal, Almogit Abu-Horowitz, Ido Bachelet

The Mina and Everard Goodman Faculty of Life Sciences

Research output: Contribution to journal › Article › peer-review

29 Scopus citations

Abstract

Long noncoding RNA molecules (lncRNAs) are estimated to account for the majority of eukaryotic genomic transcripts, and have been associated with multiple diseases in humans. However, our understanding of their structure-function relationships is scarce, with structural evidence coming mostly from indirect biochemical approaches or computational predictions. Here we describe direct visualization of the lncRNA HOTAIR (HOx Transcript AntIsense RNA) using atomic force microscopy (AFM) in nucleus-like conditions at 37°. Our observations reveal that HOTAIR has a discernible, although flexible, shape. Fast AFM scanning enabled the quantification of the motion of HOTAIR, and provided visual evidence of physical interactions with genomic DNA segments. Our report provides a biologically plausible description of the anatomy and intrinsic properties of HOTAIR, and presents a framework for studying the structural biology of lncRNAs.

Original language	English
Pages (from-to)	629-636
Number of pages	8
Journal	RNA
Volume	26
Issue number	5
DOIs	https://doi.org/10.1261/rna.074633.120
State	Published - May 2020

Bibliographical note

Publisher Copyright:
© 2020 Spokoini-Stern et al. This article is distributed exclusively by the RNA Society for the first 12 months after the full-issue publication date (see http://rnajournal.cshlp.org/site/misc/terms.xhtml). After 12 months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.

Keywords

Atomic force microscopy
HOTAIR
Long noncoding RNA

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10.1261/rna.074633.120

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title = "Visualizing the structure and motion of the long noncoding RNA HOTAIR",

abstract = "Long noncoding RNA molecules (lncRNAs) are estimated to account for the majority of eukaryotic genomic transcripts, and have been associated with multiple diseases in humans. However, our understanding of their structure-function relationships is scarce, with structural evidence coming mostly from indirect biochemical approaches or computational predictions. Here we describe direct visualization of the lncRNA HOTAIR (HOx Transcript AntIsense RNA) using atomic force microscopy (AFM) in nucleus-like conditions at 37°. Our observations reveal that HOTAIR has a discernible, although flexible, shape. Fast AFM scanning enabled the quantification of the motion of HOTAIR, and provided visual evidence of physical interactions with genomic DNA segments. Our report provides a biologically plausible description of the anatomy and intrinsic properties of HOTAIR, and presents a framework for studying the structural biology of lncRNAs.",

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note = "Publisher Copyright: {\textcopyright} 2020 Spokoini-Stern et al. This article is distributed exclusively by the RNA Society for the first 12 months after the full-issue publication date (see http://rnajournal.cshlp.org/site/misc/terms.xhtml). After 12 months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.",

year = "2020",

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doi = "10.1261/rna.074633.120",

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AU - Haschke, Heiko

AU - Giron, Jonathan

AU - Unger, Ron

AU - Segal, Eran

AU - Abu-Horowitz, Almogit

AU - Bachelet, Ido

N1 - Publisher Copyright: © 2020 Spokoini-Stern et al. This article is distributed exclusively by the RNA Society for the first 12 months after the full-issue publication date (see http://rnajournal.cshlp.org/site/misc/terms.xhtml). After 12 months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.

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AB - Long noncoding RNA molecules (lncRNAs) are estimated to account for the majority of eukaryotic genomic transcripts, and have been associated with multiple diseases in humans. However, our understanding of their structure-function relationships is scarce, with structural evidence coming mostly from indirect biochemical approaches or computational predictions. Here we describe direct visualization of the lncRNA HOTAIR (HOx Transcript AntIsense RNA) using atomic force microscopy (AFM) in nucleus-like conditions at 37°. Our observations reveal that HOTAIR has a discernible, although flexible, shape. Fast AFM scanning enabled the quantification of the motion of HOTAIR, and provided visual evidence of physical interactions with genomic DNA segments. Our report provides a biologically plausible description of the anatomy and intrinsic properties of HOTAIR, and presents a framework for studying the structural biology of lncRNAs.

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Visualizing the structure and motion of the long noncoding RNA HOTAIR

Abstract

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Keywords

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