DNA transposon expansion is associated with genome size increase in mudminnows
Genome sizes of eukaryotic organisms vary substantially, with whole genome duplications (WGD) and transposable element expansion acting as main drivers for rapid genome size increase. The two North American mudminnows, Umbra limi and U. pygmaea , feature genomes about twice the size of their sister...
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ftdatacite:10.5281/zenodo.5166943 2023-05-15T13:08:48+02:00 DNA transposon expansion is associated with genome size increase in mudminnows Lehmann, Robert Aleš Kovařík Ocalewicz, Konrad Kirtiklis, Lech Zuccolo, Andrea Tegner, Jesper N. Wanzenböck, Josef Bernatchez, Louis Lamatsch, Dunja K. Symonová, Radka 2021 https://dx.doi.org/10.5281/zenodo.5166943 https://zenodo.org/record/5166943 en eng Zenodo https://dx.doi.org/10.5281/zenodo.5166944 Open Access Creative Commons Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/legalcode cc-by-4.0 info:eu-repo/semantics/openAccess CC-BY Text Journal article article-journal ScholarlyArticle 2021 ftdatacite https://doi.org/10.5281/zenodo.5166943 https://doi.org/10.5281/zenodo.5166944 2021-11-05T12:55:41Z Genome sizes of eukaryotic organisms vary substantially, with whole genome duplications (WGD) and transposable element expansion acting as main drivers for rapid genome size increase. The two North American mudminnows, Umbra limi and U. pygmaea , feature genomes about twice the size of their sister lineage Esocidae (e.g., pikes and pickerels). However, it is unknown whether all Umbra species share this genome expansion and which causal mechanisms drive this expansion. Using flow cytometry, we find that the genome of the European mudminnow is expanded similarly to both North American species, ranging between 4.5-5.4 pg per diploid nucleus. Observed blocks of interstitially located telomeric repeats in Umbra limi suggest frequent Robertsonian rearrangements in its history. Comparative analyses of transcriptome and genome assemblies show that the genome expansion in Umbra is driven by extensive DNA transposon expansion without WGD. Furthermore, we find a substantial ongoing expansion of repeat sequences in the Alaska blackfish Dallia pectoralis , the closest relative to the family Umbridae, which might mark the beginning of a similar genome expansion. Our study suggests that the genome expansion in mudminnows, driven mainly by transposon expansion, but not WGD, occurred before the separation into the American and European lineage. Text Alaska blackfish Dallia pectoralis Alaska DataCite Metadata Store (German National Library of Science and Technology) |
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DataCite Metadata Store (German National Library of Science and Technology) |
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English |
description |
Genome sizes of eukaryotic organisms vary substantially, with whole genome duplications (WGD) and transposable element expansion acting as main drivers for rapid genome size increase. The two North American mudminnows, Umbra limi and U. pygmaea , feature genomes about twice the size of their sister lineage Esocidae (e.g., pikes and pickerels). However, it is unknown whether all Umbra species share this genome expansion and which causal mechanisms drive this expansion. Using flow cytometry, we find that the genome of the European mudminnow is expanded similarly to both North American species, ranging between 4.5-5.4 pg per diploid nucleus. Observed blocks of interstitially located telomeric repeats in Umbra limi suggest frequent Robertsonian rearrangements in its history. Comparative analyses of transcriptome and genome assemblies show that the genome expansion in Umbra is driven by extensive DNA transposon expansion without WGD. Furthermore, we find a substantial ongoing expansion of repeat sequences in the Alaska blackfish Dallia pectoralis , the closest relative to the family Umbridae, which might mark the beginning of a similar genome expansion. Our study suggests that the genome expansion in mudminnows, driven mainly by transposon expansion, but not WGD, occurred before the separation into the American and European lineage. |
format |
Text |
author |
Lehmann, Robert Aleš Kovařík Ocalewicz, Konrad Kirtiklis, Lech Zuccolo, Andrea Tegner, Jesper N. Wanzenböck, Josef Bernatchez, Louis Lamatsch, Dunja K. Symonová, Radka |
spellingShingle |
Lehmann, Robert Aleš Kovařík Ocalewicz, Konrad Kirtiklis, Lech Zuccolo, Andrea Tegner, Jesper N. Wanzenböck, Josef Bernatchez, Louis Lamatsch, Dunja K. Symonová, Radka DNA transposon expansion is associated with genome size increase in mudminnows |
author_facet |
Lehmann, Robert Aleš Kovařík Ocalewicz, Konrad Kirtiklis, Lech Zuccolo, Andrea Tegner, Jesper N. Wanzenböck, Josef Bernatchez, Louis Lamatsch, Dunja K. Symonová, Radka |
author_sort |
Lehmann, Robert |
title |
DNA transposon expansion is associated with genome size increase in mudminnows |
title_short |
DNA transposon expansion is associated with genome size increase in mudminnows |
title_full |
DNA transposon expansion is associated with genome size increase in mudminnows |
title_fullStr |
DNA transposon expansion is associated with genome size increase in mudminnows |
title_full_unstemmed |
DNA transposon expansion is associated with genome size increase in mudminnows |
title_sort |
dna transposon expansion is associated with genome size increase in mudminnows |
publisher |
Zenodo |
publishDate |
2021 |
url |
https://dx.doi.org/10.5281/zenodo.5166943 https://zenodo.org/record/5166943 |
genre |
Alaska blackfish Dallia pectoralis Alaska |
genre_facet |
Alaska blackfish Dallia pectoralis Alaska |
op_relation |
https://dx.doi.org/10.5281/zenodo.5166944 |
op_rights |
Open Access Creative Commons Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/legalcode cc-by-4.0 info:eu-repo/semantics/openAccess |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.5281/zenodo.5166943 https://doi.org/10.5281/zenodo.5166944 |
_version_ |
1766124762855112704 |