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Towards a comprehensive picture of alloacceptor tRNA remolding in metazoan mitochondrial genomes

Remolding of tRNAs is a well-documented process in mitochondrial genomes that changes the identity of a tRNA. It involves a duplication of a tRNA gene, a mutation that changes the anticodon and the loss of the ancestral tRNA gene. The net effect is a functional tRNA that is more closely related to t...

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Autores principales: Sahyoun, Abdullah H., Hölzer, Martin, Jühling, Frank, Höner zu Siederdissen, Christian, Al-Arab, Marwa, Tout, Kifah, Marz, Manja, Middendorf, Martin, Stadler, Peter F., Bernt, Matthias
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2015
Materias:
RNA
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4783518/
https://www.ncbi.nlm.nih.gov/pubmed/26227972
http://dx.doi.org/10.1093/nar/gkv746
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author Sahyoun, Abdullah H.
Hölzer, Martin
Jühling, Frank
Höner zu Siederdissen, Christian
Al-Arab, Marwa
Tout, Kifah
Marz, Manja
Middendorf, Martin
Stadler, Peter F.
Bernt, Matthias
author_facet Sahyoun, Abdullah H.
Hölzer, Martin
Jühling, Frank
Höner zu Siederdissen, Christian
Al-Arab, Marwa
Tout, Kifah
Marz, Manja
Middendorf, Martin
Stadler, Peter F.
Bernt, Matthias
author_sort Sahyoun, Abdullah H.
collection PubMed
description Remolding of tRNAs is a well-documented process in mitochondrial genomes that changes the identity of a tRNA. It involves a duplication of a tRNA gene, a mutation that changes the anticodon and the loss of the ancestral tRNA gene. The net effect is a functional tRNA that is more closely related to tRNAs of a different alloacceptor family than to tRNAs with the same anticodon in related species. Beyond being of interest for understanding mitochondrial tRNA function and evolution, tRNA remolding events can lead to artifacts in the annotation of mitogenomes and thus in studies of mitogenomic evolution. Therefore, it is important to identify and catalog these events. Here we describe novel methods to detect tRNA remolding in large-scale data sets and apply them to survey tRNA remolding throughout animal evolution. We identify several novel remolding events in addition to the ones previously mentioned in the literature. A detailed analysis of these remoldings showed that many of them are derived from ancestral events.
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spelling pubmed-47835182016-03-10 Towards a comprehensive picture of alloacceptor tRNA remolding in metazoan mitochondrial genomes Sahyoun, Abdullah H. Hölzer, Martin Jühling, Frank Höner zu Siederdissen, Christian Al-Arab, Marwa Tout, Kifah Marz, Manja Middendorf, Martin Stadler, Peter F. Bernt, Matthias Nucleic Acids Res RNA Remolding of tRNAs is a well-documented process in mitochondrial genomes that changes the identity of a tRNA. It involves a duplication of a tRNA gene, a mutation that changes the anticodon and the loss of the ancestral tRNA gene. The net effect is a functional tRNA that is more closely related to tRNAs of a different alloacceptor family than to tRNAs with the same anticodon in related species. Beyond being of interest for understanding mitochondrial tRNA function and evolution, tRNA remolding events can lead to artifacts in the annotation of mitogenomes and thus in studies of mitogenomic evolution. Therefore, it is important to identify and catalog these events. Here we describe novel methods to detect tRNA remolding in large-scale data sets and apply them to survey tRNA remolding throughout animal evolution. We identify several novel remolding events in addition to the ones previously mentioned in the literature. A detailed analysis of these remoldings showed that many of them are derived from ancestral events. Oxford University Press 2015-09-18 2015-07-30 /pmc/articles/PMC4783518/ /pubmed/26227972 http://dx.doi.org/10.1093/nar/gkv746 Text en © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle RNA
Sahyoun, Abdullah H.
Hölzer, Martin
Jühling, Frank
Höner zu Siederdissen, Christian
Al-Arab, Marwa
Tout, Kifah
Marz, Manja
Middendorf, Martin
Stadler, Peter F.
Bernt, Matthias
Towards a comprehensive picture of alloacceptor tRNA remolding in metazoan mitochondrial genomes
title Towards a comprehensive picture of alloacceptor tRNA remolding in metazoan mitochondrial genomes
title_full Towards a comprehensive picture of alloacceptor tRNA remolding in metazoan mitochondrial genomes
title_fullStr Towards a comprehensive picture of alloacceptor tRNA remolding in metazoan mitochondrial genomes
title_full_unstemmed Towards a comprehensive picture of alloacceptor tRNA remolding in metazoan mitochondrial genomes
title_short Towards a comprehensive picture of alloacceptor tRNA remolding in metazoan mitochondrial genomes
title_sort towards a comprehensive picture of alloacceptor trna remolding in metazoan mitochondrial genomes
topic RNA
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4783518/
https://www.ncbi.nlm.nih.gov/pubmed/26227972
http://dx.doi.org/10.1093/nar/gkv746
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