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RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge

The Drosophila melanogaster gene Dscam1 potentially generates 38,016 distinct isoforms via mutually exclusive splicing, which are required for both nervous and immune functions. However, the mechanism underlying splicing regulation remains obscure. Here we show apparent evolutionary signatures chara...

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Detalles Bibliográficos
Autores principales: Hong, Weiling, Shi, Yang, Xu, Bingbing, Jin, Yongfeng
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Cold Spring Harbor Laboratory Press 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7430681/
https://www.ncbi.nlm.nih.gov/pubmed/32471818
http://dx.doi.org/10.1261/rna.075259.120
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author Hong, Weiling
Shi, Yang
Xu, Bingbing
Jin, Yongfeng
author_facet Hong, Weiling
Shi, Yang
Xu, Bingbing
Jin, Yongfeng
author_sort Hong, Weiling
collection PubMed
description The Drosophila melanogaster gene Dscam1 potentially generates 38,016 distinct isoforms via mutually exclusive splicing, which are required for both nervous and immune functions. However, the mechanism underlying splicing regulation remains obscure. Here we show apparent evolutionary signatures characteristic of competing RNA secondary structures in exon clusters 6 and 9 of Dscam1 in the two midge species (Belgica antarctica and Clunio marinus). Surprisingly, midge Dscam1 encodes only ∼6000 different isoforms through mutually exclusive splicing. Strikingly, the docking site of the exon 6 cluster is conserved in almost all insects and crustaceans but is specific in the midge; however, the docking site-selector base-pairings are conserved. Moreover, the docking site is complementary to all predicted selector sequences downstream from every variable exon 9 of the midge Dscam1, which is in accordance with the broad spectrum of their isoform expression. This suggests that these cis-elements mainly function through the formation of long-range base-pairings. This study provides a vital insight into the evolution and mechanism of Dscam1 alternative splicing.
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spelling pubmed-74306812021-09-01 RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge Hong, Weiling Shi, Yang Xu, Bingbing Jin, Yongfeng RNA Letter to the Editor The Drosophila melanogaster gene Dscam1 potentially generates 38,016 distinct isoforms via mutually exclusive splicing, which are required for both nervous and immune functions. However, the mechanism underlying splicing regulation remains obscure. Here we show apparent evolutionary signatures characteristic of competing RNA secondary structures in exon clusters 6 and 9 of Dscam1 in the two midge species (Belgica antarctica and Clunio marinus). Surprisingly, midge Dscam1 encodes only ∼6000 different isoforms through mutually exclusive splicing. Strikingly, the docking site of the exon 6 cluster is conserved in almost all insects and crustaceans but is specific in the midge; however, the docking site-selector base-pairings are conserved. Moreover, the docking site is complementary to all predicted selector sequences downstream from every variable exon 9 of the midge Dscam1, which is in accordance with the broad spectrum of their isoform expression. This suggests that these cis-elements mainly function through the formation of long-range base-pairings. This study provides a vital insight into the evolution and mechanism of Dscam1 alternative splicing. Cold Spring Harbor Laboratory Press 2020-09 /pmc/articles/PMC7430681/ /pubmed/32471818 http://dx.doi.org/10.1261/rna.075259.120 Text en © 2020 Hong et al.; Published by Cold Spring Harbor Laboratory Press for the RNA Society http://creativecommons.org/licenses/by-nc/4.0/ This article is distributed exclusively by the RNA Society for the first 12 months after the full-issue publication date (see http://rnajournal.cshlp.org/site/misc/terms.xhtml). After 12 months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.
spellingShingle Letter to the Editor
Hong, Weiling
Shi, Yang
Xu, Bingbing
Jin, Yongfeng
RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge
title RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge
title_full RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge
title_fullStr RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge
title_full_unstemmed RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge
title_short RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge
title_sort rna secondary structures in dscam1 mutually exclusive splicing: unique evolutionary signature from the midge
topic Letter to the Editor
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7430681/
https://www.ncbi.nlm.nih.gov/pubmed/32471818
http://dx.doi.org/10.1261/rna.075259.120
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