Data from: Diversity and evolution of the transposable element repertoire in arthropods with particular reference to insects
Background: Transposable elements (TEs) are a major component of metazoan genomes and are associated with a variety of mechanisms that shape genome architecture and evolution. Despite the ever-growing number of insect genomes sequenced to date, our understanding of the diversity and evolution of ins...
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ftzenodo:oai:zenodo.org:4991886 2023-06-06T11:45:32+02:00 Data from: Diversity and evolution of the transposable element repertoire in arthropods with particular reference to insects Petersen, Malte Armisén, David Gibbs, Richard Hering, Lars Khila, Abderrahman Mayer, Georg Richards, Stephen Niehuis, Oliver Misof, Bernhard 2022-07-01 https://zenodo.org/record/4991886 https://doi.org/10.5061/dryad.55p667b unknown doi:10.1186/s12862-018-1324-9 https://zenodo.org/communities/dryad https://zenodo.org/record/4991886 https://doi.org/10.5061/dryad.55p667b oai:zenodo.org:4991886 info:eu-repo/semantics/openAccess https://creativecommons.org/publicdomain/zero/1.0/legalcode repeat modeler transposable element Arthropods repeat library genome annotation RepeatMasker info:eu-repo/semantics/other dataset 2022 ftzenodo https://doi.org/10.5061/dryad.55p667b10.1186/s12862-018-1324-9 2023-04-13T21:27:24Z Background: Transposable elements (TEs) are a major component of metazoan genomes and are associated with a variety of mechanisms that shape genome architecture and evolution. Despite the ever-growing number of insect genomes sequenced to date, our understanding of the diversity and evolution of insect TEs remains poor. Results: Here, we present a standardized characterization and an order-level comparison of arthropod TE repertoires, encompassing 62 insect and 11 outgroup species. The insect TE repertoire contains TEs of almost every class previously described, and in some cases even TEs previously reported only from vertebrates and plants. Additionally, we identified a large fraction of unclassifiable TEs. We found high variation in TE content, ranging from less than 6 % in the antarctic midge (Diptera), the honey bee and the turnip sawfly (Hymenoptera) to more than 58 % in the malaria mosquito (Diptera) and the migratory locust (Orthoptera), and a possible relationship between the content and diversity of TEs and the genome size. Conclusion: While most insect orders exhibit a characteristic TE composition, we also observed intraordinal differences, e.g., in Diptera, Hymenoptera, and Hemiptera. Our findings shed light on common patterns and reveal lineage-specific differences in content and evolution of TEs in insects. We anticipate our study to provide the basis for future comparative research on the insect TE repertoire. Petersen_Insect_Mobilome_Repeat_Libraries.tarRepeat libraries including filter patterns and list of elements to be excluded. Dataset Antarc* Antarctic Antarctic midge Zenodo Antarctic The Antarctic |
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unknown |
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repeat modeler transposable element Arthropods repeat library genome annotation RepeatMasker |
spellingShingle |
repeat modeler transposable element Arthropods repeat library genome annotation RepeatMasker Petersen, Malte Armisén, David Gibbs, Richard Hering, Lars Khila, Abderrahman Mayer, Georg Richards, Stephen Niehuis, Oliver Misof, Bernhard Data from: Diversity and evolution of the transposable element repertoire in arthropods with particular reference to insects |
topic_facet |
repeat modeler transposable element Arthropods repeat library genome annotation RepeatMasker |
description |
Background: Transposable elements (TEs) are a major component of metazoan genomes and are associated with a variety of mechanisms that shape genome architecture and evolution. Despite the ever-growing number of insect genomes sequenced to date, our understanding of the diversity and evolution of insect TEs remains poor. Results: Here, we present a standardized characterization and an order-level comparison of arthropod TE repertoires, encompassing 62 insect and 11 outgroup species. The insect TE repertoire contains TEs of almost every class previously described, and in some cases even TEs previously reported only from vertebrates and plants. Additionally, we identified a large fraction of unclassifiable TEs. We found high variation in TE content, ranging from less than 6 % in the antarctic midge (Diptera), the honey bee and the turnip sawfly (Hymenoptera) to more than 58 % in the malaria mosquito (Diptera) and the migratory locust (Orthoptera), and a possible relationship between the content and diversity of TEs and the genome size. Conclusion: While most insect orders exhibit a characteristic TE composition, we also observed intraordinal differences, e.g., in Diptera, Hymenoptera, and Hemiptera. Our findings shed light on common patterns and reveal lineage-specific differences in content and evolution of TEs in insects. We anticipate our study to provide the basis for future comparative research on the insect TE repertoire. Petersen_Insect_Mobilome_Repeat_Libraries.tarRepeat libraries including filter patterns and list of elements to be excluded. |
format |
Dataset |
author |
Petersen, Malte Armisén, David Gibbs, Richard Hering, Lars Khila, Abderrahman Mayer, Georg Richards, Stephen Niehuis, Oliver Misof, Bernhard |
author_facet |
Petersen, Malte Armisén, David Gibbs, Richard Hering, Lars Khila, Abderrahman Mayer, Georg Richards, Stephen Niehuis, Oliver Misof, Bernhard |
author_sort |
Petersen, Malte |
title |
Data from: Diversity and evolution of the transposable element repertoire in arthropods with particular reference to insects |
title_short |
Data from: Diversity and evolution of the transposable element repertoire in arthropods with particular reference to insects |
title_full |
Data from: Diversity and evolution of the transposable element repertoire in arthropods with particular reference to insects |
title_fullStr |
Data from: Diversity and evolution of the transposable element repertoire in arthropods with particular reference to insects |
title_full_unstemmed |
Data from: Diversity and evolution of the transposable element repertoire in arthropods with particular reference to insects |
title_sort |
data from: diversity and evolution of the transposable element repertoire in arthropods with particular reference to insects |
publishDate |
2022 |
url |
https://zenodo.org/record/4991886 https://doi.org/10.5061/dryad.55p667b |
geographic |
Antarctic The Antarctic |
geographic_facet |
Antarctic The Antarctic |
genre |
Antarc* Antarctic Antarctic midge |
genre_facet |
Antarc* Antarctic Antarctic midge |
op_relation |
doi:10.1186/s12862-018-1324-9 https://zenodo.org/communities/dryad https://zenodo.org/record/4991886 https://doi.org/10.5061/dryad.55p667b oai:zenodo.org:4991886 |
op_rights |
info:eu-repo/semantics/openAccess https://creativecommons.org/publicdomain/zero/1.0/legalcode |
op_doi |
https://doi.org/10.5061/dryad.55p667b10.1186/s12862-018-1324-9 |
_version_ |
1767948788380467200 |