Adaptation of A-to-I RNA editing in Drosophila.
Adenosine-to-inosine (A-to-I) editing is hypothesized to facilitate adaptive evolution by expanding proteomic diversity through an epigenetic approach. However, it is challenging to provide evidences to support this hypothesis at the whole editome level. In this study, we systematically characterize...
| Main Authors: | , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Public Library of Science (PLoS)
2017-03-01
|
| Series: | PLoS Genetics |
| Online Access: | http://europepmc.org/articles/PMC5365144?pdf=render |
| _version_ | 1818159359530631168 |
|---|---|
| author | Yuange Duan Shengqian Dou Shiqi Luo Hong Zhang Jian Lu |
| author_facet | Yuange Duan Shengqian Dou Shiqi Luo Hong Zhang Jian Lu |
| author_sort | Yuange Duan |
| collection | DOAJ |
| description | Adenosine-to-inosine (A-to-I) editing is hypothesized to facilitate adaptive evolution by expanding proteomic diversity through an epigenetic approach. However, it is challenging to provide evidences to support this hypothesis at the whole editome level. In this study, we systematically characterized 2,114 A-to-I RNA editing sites in female and male brains of D. melanogaster, and nearly half of these sites had events evolutionarily conserved across Drosophila species. We detected strong signatures of positive selection on the nonsynonymous editing sites in Drosophila brains, and the beneficial editing sites were significantly enriched in genes related to chemical and electrical neurotransmission. The signal of adaptation was even more pronounced for the editing sites located in X chromosome or for those commonly observed across Drosophila species. We identified a set of gene candidates (termed "PSEB" genes) that had nonsynonymous editing events favored by natural selection. We presented evidence that editing preferentially increased mutation sequence space of evolutionarily conserved genes, which supported the adaptive evolution hypothesis of editing. We found prevalent nonsynonymous editing sites that were favored by natural selection in female and male adults from five strains of D. melanogaster. We showed that temperature played a more important role than gender effect in shaping the editing levels, although the effect of temperature is relatively weaker compared to that of species effect. We also explored the relevant factors that shape the selective patterns of the global editomes. Altogether we demonstrated that abundant nonsynonymous editing sites in Drosophila brains were adaptive and maintained by natural selection during evolution. Our results shed new light on the evolutionary principles and functional consequences of RNA editing. |
| first_indexed | 2024-12-11T15:44:44Z |
| format | Article |
| id | doaj.art-8d511d9233f845c3a12479e7c113dd9d |
| institution | Directory Open Access Journal |
| issn | 1553-7390 1553-7404 |
| language | English |
| last_indexed | 2024-12-11T15:44:44Z |
| publishDate | 2017-03-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS Genetics |
| spelling | doaj.art-8d511d9233f845c3a12479e7c113dd9d2022-12-22T00:59:44ZengPublic Library of Science (PLoS)PLoS Genetics1553-73901553-74042017-03-01133e100664810.1371/journal.pgen.1006648Adaptation of A-to-I RNA editing in Drosophila.Yuange DuanShengqian DouShiqi LuoHong ZhangJian LuAdenosine-to-inosine (A-to-I) editing is hypothesized to facilitate adaptive evolution by expanding proteomic diversity through an epigenetic approach. However, it is challenging to provide evidences to support this hypothesis at the whole editome level. In this study, we systematically characterized 2,114 A-to-I RNA editing sites in female and male brains of D. melanogaster, and nearly half of these sites had events evolutionarily conserved across Drosophila species. We detected strong signatures of positive selection on the nonsynonymous editing sites in Drosophila brains, and the beneficial editing sites were significantly enriched in genes related to chemical and electrical neurotransmission. The signal of adaptation was even more pronounced for the editing sites located in X chromosome or for those commonly observed across Drosophila species. We identified a set of gene candidates (termed "PSEB" genes) that had nonsynonymous editing events favored by natural selection. We presented evidence that editing preferentially increased mutation sequence space of evolutionarily conserved genes, which supported the adaptive evolution hypothesis of editing. We found prevalent nonsynonymous editing sites that were favored by natural selection in female and male adults from five strains of D. melanogaster. We showed that temperature played a more important role than gender effect in shaping the editing levels, although the effect of temperature is relatively weaker compared to that of species effect. We also explored the relevant factors that shape the selective patterns of the global editomes. Altogether we demonstrated that abundant nonsynonymous editing sites in Drosophila brains were adaptive and maintained by natural selection during evolution. Our results shed new light on the evolutionary principles and functional consequences of RNA editing.http://europepmc.org/articles/PMC5365144?pdf=render |
| spellingShingle | Yuange Duan Shengqian Dou Shiqi Luo Hong Zhang Jian Lu Adaptation of A-to-I RNA editing in Drosophila. PLoS Genetics |
| title | Adaptation of A-to-I RNA editing in Drosophila. |
| title_full | Adaptation of A-to-I RNA editing in Drosophila. |
| title_fullStr | Adaptation of A-to-I RNA editing in Drosophila. |
| title_full_unstemmed | Adaptation of A-to-I RNA editing in Drosophila. |
| title_short | Adaptation of A-to-I RNA editing in Drosophila. |
| title_sort | adaptation of a to i rna editing in drosophila |
| url | http://europepmc.org/articles/PMC5365144?pdf=render |
| work_keys_str_mv | AT yuangeduan adaptationofatoirnaeditingindrosophila AT shengqiandou adaptationofatoirnaeditingindrosophila AT shiqiluo adaptationofatoirnaeditingindrosophila AT hongzhang adaptationofatoirnaeditingindrosophila AT jianlu adaptationofatoirnaeditingindrosophila |