An evolutionary preserved intergenic spacer in gadiform mitogenomes generates a long noncoding RNA
The electronic version of this article is the complete one and can be found online at: http://www.biomedcentral.com/1471-2148/14/182 Background: Vertebrate mitogenomes are economically organized and usually lack intergenic sequences other than the control region. Intergenic spacers located between t...
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ftntnutrondheimi:oai:ntnuopen.ntnu.no:11250/275754 2023-05-15T15:27:28+02:00 An evolutionary preserved intergenic spacer in gadiform mitogenomes generates a long noncoding RNA Jørgensen, Tor Erik Bakke, Ingrid Ursvik, anita Andreassen, morten Moum, Truls Johansen, Steinar Daae 2015-01-19T13:54:22Z http://hdl.handle.net/11250/275754 https://doi.org/10.1186/s12862-014-0182-3 eng eng BioMed Central BMC Evolutionary Biology 2014, 14:182 urn:issn:1471-2148 http://hdl.handle.net/11250/275754 https://doi.org/10.1186/s12862-014-0182-3 cristin:1157303 14 BMC Evolutionary Biology Journal article Peer reviewed 2015 ftntnutrondheimi https://doi.org/10.1186/s12862-014-0182-3 2019-09-17T06:50:35Z The electronic version of this article is the complete one and can be found online at: http://www.biomedcentral.com/1471-2148/14/182 Background: Vertebrate mitogenomes are economically organized and usually lack intergenic sequences other than the control region. Intergenic spacers located between the tRNAThr and tRNAPro genes (“T-P spacers”) have been observed in several taxa, including gadiform species, but information about their biological roles and putative functions is still lacking. Results: Sequence characterization of the complete European hake Merluccius merluccius mitogenome identified a complex T-P spacer ranging in size from 223–532 bp. Further analyses of 32 gadiform species, representing 8 families and 28 genera, revealed the evolutionary preserved presence of T-P spacers across all taxa. Molecular complexity of the T-P spacers was found to be coherent with the phylogenetic relationships, supporting a common ancestral origin and gain of function during codfish evolution. Intraspecific variation of T-P spacer sequences was assessed in 225 Atlantic cod specimens and revealed 26 haplotypes. Pyrosequencing data representing the mito-transcriptome poly (A) fraction in Atlantic cod identified an abundant H-strand specific long noncoding RNA of about 375 nt. The T-P spacer corresponded to the 5’ part of this transcript, which terminated within the control region in a tail-to-tail configuration with the L-strand specific transcript (the 7S RNA). Conclusions: The T-P spacer is inferred to be evolutionary preserved in gadiform mitogenomes due to gain of function through a long noncoding RNA. We suggest that the T-P spacer adds stability to the H-strand specific long noncoding RNA by forming stable hairpin structures and additional protein binding sites. Forlagets publiserte versjon. Open access. © 2014 Jørgensen et al.; licensee BioMed Central Ltd.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 use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. Article in Journal/Newspaper atlantic cod NTNU Open Archive (Norwegian University of Science and Technology) Hake ENVELOPE(15.612,15.612,66.797,66.797) BMC Evolutionary Biology 14 1 |
institution |
Open Polar |
collection |
NTNU Open Archive (Norwegian University of Science and Technology) |
op_collection_id |
ftntnutrondheimi |
language |
English |
description |
The electronic version of this article is the complete one and can be found online at: http://www.biomedcentral.com/1471-2148/14/182 Background: Vertebrate mitogenomes are economically organized and usually lack intergenic sequences other than the control region. Intergenic spacers located between the tRNAThr and tRNAPro genes (“T-P spacers”) have been observed in several taxa, including gadiform species, but information about their biological roles and putative functions is still lacking. Results: Sequence characterization of the complete European hake Merluccius merluccius mitogenome identified a complex T-P spacer ranging in size from 223–532 bp. Further analyses of 32 gadiform species, representing 8 families and 28 genera, revealed the evolutionary preserved presence of T-P spacers across all taxa. Molecular complexity of the T-P spacers was found to be coherent with the phylogenetic relationships, supporting a common ancestral origin and gain of function during codfish evolution. Intraspecific variation of T-P spacer sequences was assessed in 225 Atlantic cod specimens and revealed 26 haplotypes. Pyrosequencing data representing the mito-transcriptome poly (A) fraction in Atlantic cod identified an abundant H-strand specific long noncoding RNA of about 375 nt. The T-P spacer corresponded to the 5’ part of this transcript, which terminated within the control region in a tail-to-tail configuration with the L-strand specific transcript (the 7S RNA). Conclusions: The T-P spacer is inferred to be evolutionary preserved in gadiform mitogenomes due to gain of function through a long noncoding RNA. We suggest that the T-P spacer adds stability to the H-strand specific long noncoding RNA by forming stable hairpin structures and additional protein binding sites. Forlagets publiserte versjon. Open access. © 2014 Jørgensen et al.; licensee BioMed Central Ltd.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 use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. |
format |
Article in Journal/Newspaper |
author |
Jørgensen, Tor Erik Bakke, Ingrid Ursvik, anita Andreassen, morten Moum, Truls Johansen, Steinar Daae |
spellingShingle |
Jørgensen, Tor Erik Bakke, Ingrid Ursvik, anita Andreassen, morten Moum, Truls Johansen, Steinar Daae An evolutionary preserved intergenic spacer in gadiform mitogenomes generates a long noncoding RNA |
author_facet |
Jørgensen, Tor Erik Bakke, Ingrid Ursvik, anita Andreassen, morten Moum, Truls Johansen, Steinar Daae |
author_sort |
Jørgensen, Tor Erik |
title |
An evolutionary preserved intergenic spacer in gadiform mitogenomes generates a long noncoding RNA |
title_short |
An evolutionary preserved intergenic spacer in gadiform mitogenomes generates a long noncoding RNA |
title_full |
An evolutionary preserved intergenic spacer in gadiform mitogenomes generates a long noncoding RNA |
title_fullStr |
An evolutionary preserved intergenic spacer in gadiform mitogenomes generates a long noncoding RNA |
title_full_unstemmed |
An evolutionary preserved intergenic spacer in gadiform mitogenomes generates a long noncoding RNA |
title_sort |
evolutionary preserved intergenic spacer in gadiform mitogenomes generates a long noncoding rna |
publisher |
BioMed Central |
publishDate |
2015 |
url |
http://hdl.handle.net/11250/275754 https://doi.org/10.1186/s12862-014-0182-3 |
long_lat |
ENVELOPE(15.612,15.612,66.797,66.797) |
geographic |
Hake |
geographic_facet |
Hake |
genre |
atlantic cod |
genre_facet |
atlantic cod |
op_source |
14 BMC Evolutionary Biology |
op_relation |
BMC Evolutionary Biology 2014, 14:182 urn:issn:1471-2148 http://hdl.handle.net/11250/275754 https://doi.org/10.1186/s12862-014-0182-3 cristin:1157303 |
op_doi |
https://doi.org/10.1186/s12862-014-0182-3 |
container_title |
BMC Evolutionary Biology |
container_volume |
14 |
container_issue |
1 |
_version_ |
1766357907414188032 |