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Expansion segments in bacterial and archaeal 5S ribosomal RNAs

The large ribosomal RNAs of eukaryotes frequently contain expansion sequences that add to the size of the rRNAs but do not affect their overall structural layout and are compatible with major ribosomal function as an mRNA translation machine. The expansion of prokaryotic ribosomal RNAs is much less...

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Autores principales: Stepanov, Victor G., Fox, George E.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Cold Spring Harbor Laboratory Press 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7812874/
https://www.ncbi.nlm.nih.gov/pubmed/33184227
http://dx.doi.org/10.1261/rna.077123.120
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author Stepanov, Victor G.
Fox, George E.
author_facet Stepanov, Victor G.
Fox, George E.
author_sort Stepanov, Victor G.
collection PubMed
description The large ribosomal RNAs of eukaryotes frequently contain expansion sequences that add to the size of the rRNAs but do not affect their overall structural layout and are compatible with major ribosomal function as an mRNA translation machine. The expansion of prokaryotic ribosomal RNAs is much less explored. In order to obtain more insight into the structural variability of these conserved molecules, we herein report the results of a comprehensive search for the expansion sequences in prokaryotic 5S rRNAs. Overall, 89 expanded 5S rRNAs of 15 structural types were identified in 15 archaeal and 36 bacterial genomes. Expansion segments ranging in length from 13 to 109 residues were found to be distributed among 17 insertion sites. The strains harboring the expanded 5S rRNAs belong to the bacterial orders Clostridiales, Halanaerobiales, Thermoanaerobacterales, and Alteromonadales as well as the archael order Halobacterales. When several copies of a 5S rRNA gene are present in a genome, the expanded versions may coexist with normal 5S rRNA genes. The insertion sequences are typically capable of forming extended helices, which do not seemingly interfere with folding of the conserved core. The expanded 5S rRNAs have largely been overlooked in 5S rRNA databases.
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spelling pubmed-78128742021-02-01 Expansion segments in bacterial and archaeal 5S ribosomal RNAs Stepanov, Victor G. Fox, George E. RNA Bioinformatics The large ribosomal RNAs of eukaryotes frequently contain expansion sequences that add to the size of the rRNAs but do not affect their overall structural layout and are compatible with major ribosomal function as an mRNA translation machine. The expansion of prokaryotic ribosomal RNAs is much less explored. In order to obtain more insight into the structural variability of these conserved molecules, we herein report the results of a comprehensive search for the expansion sequences in prokaryotic 5S rRNAs. Overall, 89 expanded 5S rRNAs of 15 structural types were identified in 15 archaeal and 36 bacterial genomes. Expansion segments ranging in length from 13 to 109 residues were found to be distributed among 17 insertion sites. The strains harboring the expanded 5S rRNAs belong to the bacterial orders Clostridiales, Halanaerobiales, Thermoanaerobacterales, and Alteromonadales as well as the archael order Halobacterales. When several copies of a 5S rRNA gene are present in a genome, the expanded versions may coexist with normal 5S rRNA genes. The insertion sequences are typically capable of forming extended helices, which do not seemingly interfere with folding of the conserved core. The expanded 5S rRNAs have largely been overlooked in 5S rRNA databases. Cold Spring Harbor Laboratory Press 2021-02 /pmc/articles/PMC7812874/ /pubmed/33184227 http://dx.doi.org/10.1261/rna.077123.120 Text en © 2021 Stepanov and Fox; Published by Cold Spring Harbor Laboratory Press for the RNA Society http://creativecommons.org/licenses/by/4.0/ This article, published in RNA, is available under a Creative Commons License (Attribution 4.0 International), as described at http://creativecommons.org/licenses/by/4.0/.
spellingShingle Bioinformatics
Stepanov, Victor G.
Fox, George E.
Expansion segments in bacterial and archaeal 5S ribosomal RNAs
title Expansion segments in bacterial and archaeal 5S ribosomal RNAs
title_full Expansion segments in bacterial and archaeal 5S ribosomal RNAs
title_fullStr Expansion segments in bacterial and archaeal 5S ribosomal RNAs
title_full_unstemmed Expansion segments in bacterial and archaeal 5S ribosomal RNAs
title_short Expansion segments in bacterial and archaeal 5S ribosomal RNAs
title_sort expansion segments in bacterial and archaeal 5s ribosomal rnas
topic Bioinformatics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7812874/
https://www.ncbi.nlm.nih.gov/pubmed/33184227
http://dx.doi.org/10.1261/rna.077123.120
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