Polypurine-repeat-containing RNAs: A novel class of long non-coding RNA in mammalian cells

Ruiping Zheng, Zhen Shen, Vidisha Tripathi, Zhenyu Xuan, Susan M. Freier, C. Frank Bennett, Supriya G. Prasanth, Kannanganattu V. Prasanth

Research output: Contribution to journalArticle

Abstract

In higher eukaryotic cells, long non-protein-coding RNAs (lncRNAs) have been implicated in a wide array of cellular functions. Cell-or tissue-specific expression of lncRNA genes encoded in the mammalian genome is thought to contribute to the complex gene networks needed to regulate cellular function. Here, we have identified a novel species of polypurine triplet repeat-rich lncRNAs, designated as GAA repeat-containing RNAs (GRC-RNAs), that localize to numerous punctate foci in the mammalian interphase nuclei. GRC-RNAs consist of a heterogeneous population of RNAs, ranging in size from ∼1.5 kb to ∼4 kb and localize to subnuclear domains, several of which associate with GAA.TTC-repeat-containing genomic regions. GRC-RNAs are components of the nuclear matrix and interact with various nuclear matrix-associated proteins. In mitotic cells, GRC-RNAs form distinct cytoplasmic foci and, in telophase and G1 cells, localize to the midbody, a structure involved in accurate cell division. Differentiation of tissue culture cells leads to a decrease in the number of GRC-RNA nuclear foci, albeit with an increase in size as compared with proliferating cells. Conversely, the number of GRC-RNA foci increases during cellular transformation. We propose that nuclear GRC-RNAs represent a novel family of mammalian lncRNAs that might play crucial roles in the cell nucleus.

Original languageEnglish (US)
Pages (from-to)3734-3744
Number of pages11
JournalJournal of cell science
Volume123
Issue number21
DOIs
StatePublished - Nov 1 2010

Fingerprint

Long Noncoding RNA
RNA
Nuclear Matrix-Associated Proteins
Telophase
Trinucleotide Repeats
Nuclear Matrix
Nuclear RNA
Gene Regulatory Networks
Interphase
Eukaryotic Cells
Cell Nucleus
Cell Division
Cell Culture Techniques
Genome
Gene Expression

Keywords

  • Midbody
  • Non-coding RNAs
  • Nuclear domains
  • Nuclear matrix
  • Triplex repeats

ASJC Scopus subject areas

  • Cell Biology

Cite this

Polypurine-repeat-containing RNAs : A novel class of long non-coding RNA in mammalian cells. / Zheng, Ruiping; Shen, Zhen; Tripathi, Vidisha; Xuan, Zhenyu; Freier, Susan M.; Bennett, C. Frank; Prasanth, Supriya G.; Prasanth, Kannanganattu V.

In: Journal of cell science, Vol. 123, No. 21, 01.11.2010, p. 3734-3744.

Research output: Contribution to journalArticle

Zheng R, Shen Z, Tripathi V, Xuan Z, Freier SM, Bennett CF et al. Polypurine-repeat-containing RNAs: A novel class of long non-coding RNA in mammalian cells. Journal of cell science. 2010 Nov 1;123(21):3734-3744. https://doi.org/10.1242/jcs.070466
Zheng, Ruiping ; Shen, Zhen ; Tripathi, Vidisha ; Xuan, Zhenyu ; Freier, Susan M. ; Bennett, C. Frank ; Prasanth, Supriya G. ; Prasanth, Kannanganattu V. / Polypurine-repeat-containing RNAs : A novel class of long non-coding RNA in mammalian cells. In: Journal of cell science. 2010 ; Vol. 123, No. 21. pp. 3734-3744.
@article{a6514f90c8c44807b6914f07f1d94303,
title = "Polypurine-repeat-containing RNAs: A novel class of long non-coding RNA in mammalian cells",
abstract = "In higher eukaryotic cells, long non-protein-coding RNAs (lncRNAs) have been implicated in a wide array of cellular functions. Cell-or tissue-specific expression of lncRNA genes encoded in the mammalian genome is thought to contribute to the complex gene networks needed to regulate cellular function. Here, we have identified a novel species of polypurine triplet repeat-rich lncRNAs, designated as GAA repeat-containing RNAs (GRC-RNAs), that localize to numerous punctate foci in the mammalian interphase nuclei. GRC-RNAs consist of a heterogeneous population of RNAs, ranging in size from ∼1.5 kb to ∼4 kb and localize to subnuclear domains, several of which associate with GAA.TTC-repeat-containing genomic regions. GRC-RNAs are components of the nuclear matrix and interact with various nuclear matrix-associated proteins. In mitotic cells, GRC-RNAs form distinct cytoplasmic foci and, in telophase and G1 cells, localize to the midbody, a structure involved in accurate cell division. Differentiation of tissue culture cells leads to a decrease in the number of GRC-RNA nuclear foci, albeit with an increase in size as compared with proliferating cells. Conversely, the number of GRC-RNA foci increases during cellular transformation. We propose that nuclear GRC-RNAs represent a novel family of mammalian lncRNAs that might play crucial roles in the cell nucleus.",
keywords = "Midbody, Non-coding RNAs, Nuclear domains, Nuclear matrix, Triplex repeats",
author = "Ruiping Zheng and Zhen Shen and Vidisha Tripathi and Zhenyu Xuan and Freier, {Susan M.} and Bennett, {C. Frank} and Prasanth, {Supriya G.} and Prasanth, {Kannanganattu V.}",
year = "2010",
month = "11",
day = "1",
doi = "10.1242/jcs.070466",
language = "English (US)",
volume = "123",
pages = "3734--3744",
journal = "Journal of Cell Science",
issn = "0021-9533",
publisher = "Company of Biologists Ltd",
number = "21",

}

TY - JOUR

T1 - Polypurine-repeat-containing RNAs

T2 - A novel class of long non-coding RNA in mammalian cells

AU - Zheng, Ruiping

AU - Shen, Zhen

AU - Tripathi, Vidisha

AU - Xuan, Zhenyu

AU - Freier, Susan M.

AU - Bennett, C. Frank

AU - Prasanth, Supriya G.

AU - Prasanth, Kannanganattu V.

PY - 2010/11/1

Y1 - 2010/11/1

N2 - In higher eukaryotic cells, long non-protein-coding RNAs (lncRNAs) have been implicated in a wide array of cellular functions. Cell-or tissue-specific expression of lncRNA genes encoded in the mammalian genome is thought to contribute to the complex gene networks needed to regulate cellular function. Here, we have identified a novel species of polypurine triplet repeat-rich lncRNAs, designated as GAA repeat-containing RNAs (GRC-RNAs), that localize to numerous punctate foci in the mammalian interphase nuclei. GRC-RNAs consist of a heterogeneous population of RNAs, ranging in size from ∼1.5 kb to ∼4 kb and localize to subnuclear domains, several of which associate with GAA.TTC-repeat-containing genomic regions. GRC-RNAs are components of the nuclear matrix and interact with various nuclear matrix-associated proteins. In mitotic cells, GRC-RNAs form distinct cytoplasmic foci and, in telophase and G1 cells, localize to the midbody, a structure involved in accurate cell division. Differentiation of tissue culture cells leads to a decrease in the number of GRC-RNA nuclear foci, albeit with an increase in size as compared with proliferating cells. Conversely, the number of GRC-RNA foci increases during cellular transformation. We propose that nuclear GRC-RNAs represent a novel family of mammalian lncRNAs that might play crucial roles in the cell nucleus.

AB - In higher eukaryotic cells, long non-protein-coding RNAs (lncRNAs) have been implicated in a wide array of cellular functions. Cell-or tissue-specific expression of lncRNA genes encoded in the mammalian genome is thought to contribute to the complex gene networks needed to regulate cellular function. Here, we have identified a novel species of polypurine triplet repeat-rich lncRNAs, designated as GAA repeat-containing RNAs (GRC-RNAs), that localize to numerous punctate foci in the mammalian interphase nuclei. GRC-RNAs consist of a heterogeneous population of RNAs, ranging in size from ∼1.5 kb to ∼4 kb and localize to subnuclear domains, several of which associate with GAA.TTC-repeat-containing genomic regions. GRC-RNAs are components of the nuclear matrix and interact with various nuclear matrix-associated proteins. In mitotic cells, GRC-RNAs form distinct cytoplasmic foci and, in telophase and G1 cells, localize to the midbody, a structure involved in accurate cell division. Differentiation of tissue culture cells leads to a decrease in the number of GRC-RNA nuclear foci, albeit with an increase in size as compared with proliferating cells. Conversely, the number of GRC-RNA foci increases during cellular transformation. We propose that nuclear GRC-RNAs represent a novel family of mammalian lncRNAs that might play crucial roles in the cell nucleus.

KW - Midbody

KW - Non-coding RNAs

KW - Nuclear domains

KW - Nuclear matrix

KW - Triplex repeats

UR - http://www.scopus.com/inward/record.url?scp=78149321674&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=78149321674&partnerID=8YFLogxK

U2 - 10.1242/jcs.070466

DO - 10.1242/jcs.070466

M3 - Article

C2 - 20940252

AN - SCOPUS:78149321674

VL - 123

SP - 3734

EP - 3744

JO - Journal of Cell Science

JF - Journal of Cell Science

SN - 0021-9533

IS - 21

ER -