piRNA-like small RNAs target transposable elements in a Clade IV parasitic nematode

Mona Suleiman, Asuka Kounosu, Ben Murcott, Mehmet Dayi, Rebecca Pawluk, Akemi Yoshida, Mark Viney, Taisei Kikuchi, Vicky L Hunt

Research output: Contribution to journalArticlepeer-review

1 Citation (SciVal)

Abstract

The small RNA (sRNA) pathways identified in the model organism Caenorhabditis elegans are not widely conserved across nematodes. For example, the PIWI pathway and PIWI-interacting RNAs (piRNAs) are involved in regulating and silencing transposable elements (TE) in most animals but have been lost in nematodes outside of the C. elegans group (Clade V), and little is known about how nematodes regulate TEs in the absence of the PIWI pathway. Here, we investigated the role of sRNAs in the Clade IV parasitic nematode Strongyloides ratti by comparing two genetically identical adult stages (the parasitic female and free-living female). We identified putative small-interfering RNAs, microRNAs and tRNA-derived sRNA fragments that are differentially expressed between the two adult stages. Two classes of sRNAs were predicted to regulate TE activity including (i) a parasite-associated class of 21-22 nt long sRNAs with a 5' uridine (21-22Us) and a 5' monophosphate, and (ii) 27 nt long sRNAs with a 5' guanine/adenine (27GAs) and a 5' modification. The 21-22Us show striking resemblance to the 21U PIWI-interacting RNAs found in C. elegans, including an AT rich upstream sequence, overlapping loci and physical clustering in the genome. Overall, we have shown that an alternative class of sRNAs compensate for the loss of piRNAs and regulate TE activity in nematodes outside of Clade V.

Original languageEnglish
Article number10156
JournalScientific Reports
Volume12
Issue number1
Early online date16 Jun 2022
DOIs
Publication statusPublished - 31 Dec 2022

ASJC Scopus subject areas

  • General

Fingerprint

Dive into the research topics of 'piRNA-like small RNAs target transposable elements in a Clade IV parasitic nematode'. Together they form a unique fingerprint.

Cite this