Roles for small noncoding RNAs in silencing of retrotransposons in the mammalian brain

Sayan Nandi, Dhruva Chandramohan, Luana Fioriti, Ari M. Melnick, Jean M. Hebert, Christopher E. Mason, Priyamvada Rajasethupathy, Eric R. Kandel

Research output: Contribution to journalArticle

18 Citations (Scopus)

Abstract

Piwi-interacting RNAs (piRNAs), long thought to be restricted to germline, have recently been discovered in neurons of Aplysia, with a role in the epigenetic regulation of gene expression underlying long-term memory. We here ask whether piwi/piRNAs are also expressed and have functional roles in the mammalian brain. Large-scale RNA sequencing and subsequent analysis of protein expression revealed the presence in brain of several piRNA biogenesis factors including a mouse piwi (Mili), as well as small RNAs, albeit at low levels, resembling conserved piRNAs in mouse testes [primarily LINE1 (long interspersed nuclear element1) retrotransposonderived]. Despite the seeming low expression of these putative piRNAs, single-base pair CpG methylation analyses across the genome of Mili/piRNA-deficient (Mili-/-) mice demonstrate that brain genomic DNA is preferentially hypomethylated within intergenic areas and LINE1 promoter areas of the genome. Furthermore, Mili mutant mice exhibit behavioral deficits such as hyperactivity and reduced anxiety. These results suggest that putative piRNAs exist in mammalian brain, and similar to the role of piRNAs in testes, they may be involved in the silencing of retrotransposons, which in brain have critical roles in contributing to genomic heterogeneity underlying adaptation, stress response, and brain pathology. We also describe the presence of another class of small RNAs in the brain,with features of endogenous siRNAs, which may have taken over the role of invertebrate piRNAs in their capacity to target both transposons, as well as protein-coding genes. Thus, RNA interference through gene and retrotransposon silencing previously encountered in Aplysia may also have potential roles in the mammalian brain.

Original languageEnglish (US)
Pages (from-to)12697-12707
Number of pages11
JournalProceedings of the National Academy of Sciences of the United States of America
Volume113
Issue number45
DOIs
StatePublished - Nov 8 2016

Fingerprint

Small Untranslated RNA
Retroelements
RNA Interference
Small Interfering RNA
Brain
Aplysia
Testis
Genome
RNA
RNA Sequence Analysis
Long-Term Memory
Gene Expression Regulation
Gene Silencing
Invertebrates
Epigenomics
Base Pairing
Methylation
Proteins
Anxiety
Pathology

Keywords

  • Behavior
  • DNA methylation
  • Endogenous siRNA
  • Piwi-interacting RNA
  • Transposon

ASJC Scopus subject areas

  • General

Cite this

Roles for small noncoding RNAs in silencing of retrotransposons in the mammalian brain. / Nandi, Sayan; Chandramohan, Dhruva; Fioriti, Luana; Melnick, Ari M.; Hebert, Jean M.; Mason, Christopher E.; Rajasethupathy, Priyamvada; Kandel, Eric R.

In: Proceedings of the National Academy of Sciences of the United States of America, Vol. 113, No. 45, 08.11.2016, p. 12697-12707.

Research output: Contribution to journalArticle

Nandi, Sayan ; Chandramohan, Dhruva ; Fioriti, Luana ; Melnick, Ari M. ; Hebert, Jean M. ; Mason, Christopher E. ; Rajasethupathy, Priyamvada ; Kandel, Eric R. / Roles for small noncoding RNAs in silencing of retrotransposons in the mammalian brain. In: Proceedings of the National Academy of Sciences of the United States of America. 2016 ; Vol. 113, No. 45. pp. 12697-12707.
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AU - Hebert, Jean M.

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