title: Small RNAs derived from structural non-coding RNAs.
abstract: It has been shown in small RNA sequencing-based studies that some small RNA fragments are specifically processed from known structural non-coding RNAs, either through Dicer-dependent or Dicer-independent pathways. Although these small RNAs are often less abundant compared to microRNAs in normal mammalian tissues, they are always present in all sequenced libraries. In this paper, we use the ncPRO-seq pipeline, to describe different profiles of these small RNA fragments, and to discuss their potential processing pathways and functions. To assess whether more small RNA fragments can be detected in small RNA sequencing datasets, we decided to focus on small nuclear RNAs, abbreviated as snRNAs, which are associated with Sm ribonucleoproteins to form functional RNA-protein complexes. Here, we describe a group of small RNA fragments derived from snRNAs, which are typically highly enriched in regions bound by Sm proteins. Based on this, we propose the existence of a potential novel small RNA family associated with Sm proteins.
authors.affiliation: Institut Curie, 26 rue d'Ulm, F-75248 Paris, France; CNRS UMR3215, Paris, France; INSERM U934, Paris, France; INSERM U900, Paris, France; Mines ParisTech, Fontainebleau, France. Electronic address: chongjian.chen@curie.fr.
authors.forename: Chong-Jian
authors.initials: CJ
authors.lastname: Chen
authors.forename: Edith
authors.initials: E
authors.lastname: Heard
mesh_terms: D000818:Animals; D053487:DEAD-box RNA Helicases / Q000235:genetics; D006801:Humans; D008322:Mammals; D012323:RNA Processing, Post-Transcriptional; D012342:RNA, Small Nuclear / Q000235:genetics* / Q000378:metabolism; D022661:RNA, Untranslated / Q000235:genetics / Q000302:isolation & purification*; D043244:Ribonuclease III / Q000235:genetics; D012261:Ribonucleoproteins / Q000737:chemistry / Q000235:genetics*; D017423:Sequence Analysis, RNA
chemical_list: D012342:RNA, Small Nuclear; D022661:RNA, Untranslated; D012261:Ribonucleoproteins; C408087:DICER1 protein, human; D043244:Ribonuclease III; D053487:DEAD-box RNA Helicases
keywords: Non-coding RNA; Small RNA sequencing; ncPRO-seq; snRNA