Diverse Pathways Generate MicroRNA-like RNAs and Dicer-Independent Small Interfering RNAs in Fungi

Heng Chi Lee, Liande Li, Weifeng Gu, Zhihong Xue, Susan K. Crosthwaite, Alexander Pertsemlidis, Zachary A. Lewis, Michael Freitag, Eric U. Selker, Craig C. Mello, Yi Liu

Research output: Contribution to journalArticle

188 Citations (Scopus)

Abstract

A variety of small RNAs, including the Dicer-dependent miRNAs and the Dicer-independent Piwi-interacting RNAs, associate with Argonaute family proteins to regulate gene expression in diverse cellular processes. These two species of small RNA have not been found in fungi. Here, by analyzing small RNAs associated with the Neurospora Argonaute protein QDE-2, we show that diverse pathways generate miRNA-like small RNAs (milRNAs) and Dicer-independent small interfering RNAs (disiRNAs) in this filamentous fungus. Surprisingly, milRNAs are produced by at least four different mechanisms that use a distinct combination of factors, including Dicers, QDE-2, the exonuclease QIP, and an RNase III domain-containing protein, MRPL3. In contrast, disiRNAs originate from loci producing overlapping sense and antisense transcripts, and do not require the known RNAi components for their production. Taken together, these results uncover several pathways for small RNA production in filamentous fungi, shedding light on the diversity and evolutionary origins of eukaryotic small RNAs.

Original languageEnglish (US)
JournalMolecular Cell
DOIs
StateAccepted/In press - 1800

Fingerprint

MicroRNAs
Small Interfering RNA
Fungi
RNA
Argonaute Proteins
Ribonuclease III
Neurospora
Exonucleases
RNA Interference
Gene Expression

Keywords

  • PROTEINS
  • RNA

ASJC Scopus subject areas

  • Molecular Biology
  • Cell Biology

Cite this

Diverse Pathways Generate MicroRNA-like RNAs and Dicer-Independent Small Interfering RNAs in Fungi. / Lee, Heng Chi; Li, Liande; Gu, Weifeng; Xue, Zhihong; Crosthwaite, Susan K.; Pertsemlidis, Alexander; Lewis, Zachary A.; Freitag, Michael; Selker, Eric U.; Mello, Craig C.; Liu, Yi.

In: Molecular Cell, 1800.

Research output: Contribution to journalArticle

Lee, HC, Li, L, Gu, W, Xue, Z, Crosthwaite, SK, Pertsemlidis, A, Lewis, ZA, Freitag, M, Selker, EU, Mello, CC & Liu, Y 1800, 'Diverse Pathways Generate MicroRNA-like RNAs and Dicer-Independent Small Interfering RNAs in Fungi', Molecular Cell. https://doi.org/10.1016/j.molcel.2010.04.005
Lee, Heng Chi ; Li, Liande ; Gu, Weifeng ; Xue, Zhihong ; Crosthwaite, Susan K. ; Pertsemlidis, Alexander ; Lewis, Zachary A. ; Freitag, Michael ; Selker, Eric U. ; Mello, Craig C. ; Liu, Yi. / Diverse Pathways Generate MicroRNA-like RNAs and Dicer-Independent Small Interfering RNAs in Fungi. In: Molecular Cell. 1800.
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AU - Pertsemlidis, Alexander

AU - Lewis, Zachary A.

AU - Freitag, Michael

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