Systematic identification of edited microRNAs in the human brain
Adenosine-to-inosine (A-to-I) editing modifies RNA transcripts from their genomic blueprint. A prerequisite for this process is a double-stranded RNA (dsRNA) structure. Such dsRNAs are formed as part of the microRNA (miRNA) maturation process, and it is therefore expected that miRNAs are affected by...
| Main Authors: | , , , , , , , , |
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| Other Authors: | |
| Format: | Article |
| Language: | en_US |
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Cold Spring Harbor Laboratory Press
2013
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| Online Access: | http://hdl.handle.net/1721.1/77148 |
| _version_ | 1826205551984377856 |
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| author | Alon, Shahar Mor, Eyal Vigneault, Francois Church, George M. Locatelli, Franco Galeano, Federica Gallo, Angela Shomron, Noam Eisenberg, Eli |
| author2 | Ragon Institute of MGH, MIT and Harvard |
| author_facet | Ragon Institute of MGH, MIT and Harvard Alon, Shahar Mor, Eyal Vigneault, Francois Church, George M. Locatelli, Franco Galeano, Federica Gallo, Angela Shomron, Noam Eisenberg, Eli |
| author_sort | Alon, Shahar |
| collection | MIT |
| description | Adenosine-to-inosine (A-to-I) editing modifies RNA transcripts from their genomic blueprint. A prerequisite for this process is a double-stranded RNA (dsRNA) structure. Such dsRNAs are formed as part of the microRNA (miRNA) maturation process, and it is therefore expected that miRNAs are affected by A-to-I editing. Editing of miRNAs has the potential to add another layer of complexity to gene regulation pathways, especially if editing occurs within the miRNA–mRNA recognition site. Thus, it is of interest to study the extent of this phenomenon. Current reports in the literature disagree on its extent; while some reports claim that it may be widespread, others deem the reported events as rare. Utilizing a next-generation sequencing (NGS) approach supplemented by an extensive bioinformatic analysis, we were able to systematically identify A-to-I editing events in mature miRNAs derived from human brain tissues. Our algorithm successfully identified many of the known editing sites in mature miRNAs and revealed 17 novel human sites, 12 of which are in the recognition sites of the miRNAs. We confirmed most of the editing events using in vitro ADAR overexpression assays. The editing efficiency of most sites identified is very low. Similar results are obtained for publicly available data sets of mouse brain-regions tissues. Thus, we find that A-to-I editing does alter several miRNAs, but it is not widespread. |
| first_indexed | 2024-09-23T13:14:57Z |
| format | Article |
| id | mit-1721.1/77148 |
| institution | Massachusetts Institute of Technology |
| language | en_US |
| last_indexed | 2024-09-23T13:14:57Z |
| publishDate | 2013 |
| publisher | Cold Spring Harbor Laboratory Press |
| record_format | dspace |
| spelling | mit-1721.1/771482022-10-01T13:59:28Z Systematic identification of edited microRNAs in the human brain Alon, Shahar Mor, Eyal Vigneault, Francois Church, George M. Locatelli, Franco Galeano, Federica Gallo, Angela Shomron, Noam Eisenberg, Eli Ragon Institute of MGH, MIT and Harvard Vigneault, Francois Adenosine-to-inosine (A-to-I) editing modifies RNA transcripts from their genomic blueprint. A prerequisite for this process is a double-stranded RNA (dsRNA) structure. Such dsRNAs are formed as part of the microRNA (miRNA) maturation process, and it is therefore expected that miRNAs are affected by A-to-I editing. Editing of miRNAs has the potential to add another layer of complexity to gene regulation pathways, especially if editing occurs within the miRNA–mRNA recognition site. Thus, it is of interest to study the extent of this phenomenon. Current reports in the literature disagree on its extent; while some reports claim that it may be widespread, others deem the reported events as rare. Utilizing a next-generation sequencing (NGS) approach supplemented by an extensive bioinformatic analysis, we were able to systematically identify A-to-I editing events in mature miRNAs derived from human brain tissues. Our algorithm successfully identified many of the known editing sites in mature miRNAs and revealed 17 novel human sites, 12 of which are in the recognition sites of the miRNAs. We confirmed most of the editing events using in vitro ADAR overexpression assays. The editing efficiency of most sites identified is very low. Similar results are obtained for publicly available data sets of mouse brain-regions tissues. Thus, we find that A-to-I editing does alter several miRNAs, but it is not widespread. 2013-02-15T16:48:31Z 2013-02-15T16:48:31Z 2012-04 Article http://purl.org/eprint/type/JournalArticle 1088-9051 http://hdl.handle.net/1721.1/77148 Alon, S. et al. “Systematic Identification of Edited microRNAs in the Human Brain.” Genome Research 22.8 (2012): 1533–1540. © 2012, Published by Cold Spring Harbor Laboratory Press en_US http://dx.doi.org/10.1101/gr.131573.111 Genome Research Creative Commons Attribution Non-Commercial http://creativecommons.org/licenses/by-nc/3.0 application/pdf Cold Spring Harbor Laboratory Press Genome Research |
| spellingShingle | Alon, Shahar Mor, Eyal Vigneault, Francois Church, George M. Locatelli, Franco Galeano, Federica Gallo, Angela Shomron, Noam Eisenberg, Eli Systematic identification of edited microRNAs in the human brain |
| title | Systematic identification of edited microRNAs in the human brain |
| title_full | Systematic identification of edited microRNAs in the human brain |
| title_fullStr | Systematic identification of edited microRNAs in the human brain |
| title_full_unstemmed | Systematic identification of edited microRNAs in the human brain |
| title_short | Systematic identification of edited microRNAs in the human brain |
| title_sort | systematic identification of edited micrornas in the human brain |
| url | http://hdl.handle.net/1721.1/77148 |
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