Cargando…
In-Depth Analysis Reveals Production of Circular RNAs from Non-Coding Sequences
The sequencing of total RNA depleted for ribosomal sequences remains the method of choice for the study of circRNAs. Our objective was to characterize non-canonical circRNAs, namely not originating from back splicing and circRNA produced by non-coding genes. To this end, we analyzed a dataset from p...
Autores principales: | , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2020
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7464727/ https://www.ncbi.nlm.nih.gov/pubmed/32751504 http://dx.doi.org/10.3390/cells9081806 |
_version_ | 1783577429982314496 |
---|---|
author | Robic, Annie Demars, Julie Kühn, Christa |
author_facet | Robic, Annie Demars, Julie Kühn, Christa |
author_sort | Robic, Annie |
collection | PubMed |
description | The sequencing of total RNA depleted for ribosomal sequences remains the method of choice for the study of circRNAs. Our objective was to characterize non-canonical circRNAs, namely not originating from back splicing and circRNA produced by non-coding genes. To this end, we analyzed a dataset from porcine testis known to contain about 100 intron-derived circRNAs. Labelling reads containing a circular junction and originating from back splicing provided information on the very small contribution of long non-coding genes to the production of canonical circRNAs. Analyses of the other reads revealed two origins for non-canonical circRNAs: (1) Intronic sequences for lariat-derived intronic circRNAs and intron circles, (2) Mono-exonic genes (mostly non-coding) for either a new type of circRNA (including only part of the exon: sub-exonic circRNAs) or, even more rarely, mono-exonic canonical circRNAs. The most complex set of sub-exonic circRNAs was produced by RNase_MRP (ribozyme RNA). We specifically investigated the intronic circRNA of ATXN2L, which is probably an independently transcribed sisRNA (stable intronic sequence RNA). We may be witnessing the emergence of a new non-coding gene in the porcine genome. Our results are evidence that most non-canonical circRNAs originate from non-coding sequences. |
format | Online Article Text |
id | pubmed-7464727 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-74647272020-09-04 In-Depth Analysis Reveals Production of Circular RNAs from Non-Coding Sequences Robic, Annie Demars, Julie Kühn, Christa Cells Article The sequencing of total RNA depleted for ribosomal sequences remains the method of choice for the study of circRNAs. Our objective was to characterize non-canonical circRNAs, namely not originating from back splicing and circRNA produced by non-coding genes. To this end, we analyzed a dataset from porcine testis known to contain about 100 intron-derived circRNAs. Labelling reads containing a circular junction and originating from back splicing provided information on the very small contribution of long non-coding genes to the production of canonical circRNAs. Analyses of the other reads revealed two origins for non-canonical circRNAs: (1) Intronic sequences for lariat-derived intronic circRNAs and intron circles, (2) Mono-exonic genes (mostly non-coding) for either a new type of circRNA (including only part of the exon: sub-exonic circRNAs) or, even more rarely, mono-exonic canonical circRNAs. The most complex set of sub-exonic circRNAs was produced by RNase_MRP (ribozyme RNA). We specifically investigated the intronic circRNA of ATXN2L, which is probably an independently transcribed sisRNA (stable intronic sequence RNA). We may be witnessing the emergence of a new non-coding gene in the porcine genome. Our results are evidence that most non-canonical circRNAs originate from non-coding sequences. MDPI 2020-07-30 /pmc/articles/PMC7464727/ /pubmed/32751504 http://dx.doi.org/10.3390/cells9081806 Text en © 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Robic, Annie Demars, Julie Kühn, Christa In-Depth Analysis Reveals Production of Circular RNAs from Non-Coding Sequences |
title | In-Depth Analysis Reveals Production of Circular RNAs from Non-Coding Sequences |
title_full | In-Depth Analysis Reveals Production of Circular RNAs from Non-Coding Sequences |
title_fullStr | In-Depth Analysis Reveals Production of Circular RNAs from Non-Coding Sequences |
title_full_unstemmed | In-Depth Analysis Reveals Production of Circular RNAs from Non-Coding Sequences |
title_short | In-Depth Analysis Reveals Production of Circular RNAs from Non-Coding Sequences |
title_sort | in-depth analysis reveals production of circular rnas from non-coding sequences |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7464727/ https://www.ncbi.nlm.nih.gov/pubmed/32751504 http://dx.doi.org/10.3390/cells9081806 |
work_keys_str_mv | AT robicannie indepthanalysisrevealsproductionofcircularrnasfromnoncodingsequences AT demarsjulie indepthanalysisrevealsproductionofcircularrnasfromnoncodingsequences AT kuhnchrista indepthanalysisrevealsproductionofcircularrnasfromnoncodingsequences |