Genomewide analysis of sperm whale E2 ubiquitin conjugating enzyme genes
Marine mammals are exposed to the oxidative stress induced by hypoxia/reoxygenation cycles yet resist cellular damage. The availability of high-quality genomes promises to provide insights on how this is achieved. In this study, we considered the ubiquitin-conjugating enzymes (E2) gene family, UBE2...
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ftqueensland:oai:eprints.qut.edu.au:230809 2024-02-04T10:04:47+01:00 Genomewide analysis of sperm whale E2 ubiquitin conjugating enzyme genes Tian, Ran Yang, Chen Geng, Yuepan Seim, Inge Yang, Guang 2021-10 https://eprints.qut.edu.au/230809/ unknown Springer India doi:10.1007/s12041-021-01333-y Tian, Ran, Yang, Chen, Geng, Yuepan, Seim, Inge, & Yang, Guang (2021) Genomewide analysis of sperm whale E2 ubiquitin conjugating enzyme genes. Journal of Genetics, 100(2), Article number: 78. https://eprints.qut.edu.au/230809/ Faculty of Science; School of Biology & Environmental Science © 2021, Indian Academy of Sciences. This work is covered by copyright. Unless the document is being made available under a Creative Commons Licence, you must assume that re-use is limited to personal use and that permission from the copyright owner must be obtained for all other uses. If the document is available under a Creative Commons License (or other specified license) then refer to the Licence for details of permitted re-use. It is a condition of access that users recognise and abide by the legal requirements associated with these rights. If you believe that this work infringes copyright please provide details by email to qut.copyright@qut.edu.au Journal of Genetics evolution oxidative stress sperm whale ubiquitin-conjugating enzymes Contribution to Journal 2021 ftqueensland https://doi.org/10.1007/s12041-021-01333-y 2024-01-09T00:07:10Z Marine mammals are exposed to the oxidative stress induced by hypoxia/reoxygenation cycles yet resist cellular damage. The availability of high-quality genomes promises to provide insights on how this is achieved. In this study, we considered the ubiquitin-conjugating enzymes (E2) gene family, UBE2 genes, which encodes enzymes with critical roles in cellular physiology, including the oxidative stress response. The sperm whale was the first marine mammal with a chromosome-level genome, allowing the study of gene family repertories, phylogenetic relationships, chromosome gene organization, and other evolutionary patterns on a genomewide basis. Here, 39 UBE2 genes (similar to human, including 32 intact genes, one partial gene, six pseudogenes) were identified in sperm whale genome. These genes were found on 17 chromosomes and were assigned into 23 subfamilies, 16 subgroups, and four classes based on structural characteristics and functions, phylogeny and conserved domains, respectively. Although the gene structure and motif distribution of sperm whale UBE2 genes are conserved in each subfamily, motif variation and intron gain/loss may contribute to functional divergence. Segmental duplications were detected in six gene pairs, which could drive UBE2 gene innovation in the sperm whale. Contrasting seven cetaceans and five terrestrial taxa, we found that cetaceans have experienced shifts in selective constraint on UBE2 genes, which may contribute to oxidative stress tolerance during the adaptation to aquatic life. Our results provide the first comprehensive survey of cetacean UBE2 genes. Article in Journal/Newspaper Sperm whale Queensland University of Technology: QUT ePrints Journal of Genetics 100 2 |
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Queensland University of Technology: QUT ePrints |
op_collection_id |
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language |
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topic |
evolution oxidative stress sperm whale ubiquitin-conjugating enzymes |
spellingShingle |
evolution oxidative stress sperm whale ubiquitin-conjugating enzymes Tian, Ran Yang, Chen Geng, Yuepan Seim, Inge Yang, Guang Genomewide analysis of sperm whale E2 ubiquitin conjugating enzyme genes |
topic_facet |
evolution oxidative stress sperm whale ubiquitin-conjugating enzymes |
description |
Marine mammals are exposed to the oxidative stress induced by hypoxia/reoxygenation cycles yet resist cellular damage. The availability of high-quality genomes promises to provide insights on how this is achieved. In this study, we considered the ubiquitin-conjugating enzymes (E2) gene family, UBE2 genes, which encodes enzymes with critical roles in cellular physiology, including the oxidative stress response. The sperm whale was the first marine mammal with a chromosome-level genome, allowing the study of gene family repertories, phylogenetic relationships, chromosome gene organization, and other evolutionary patterns on a genomewide basis. Here, 39 UBE2 genes (similar to human, including 32 intact genes, one partial gene, six pseudogenes) were identified in sperm whale genome. These genes were found on 17 chromosomes and were assigned into 23 subfamilies, 16 subgroups, and four classes based on structural characteristics and functions, phylogeny and conserved domains, respectively. Although the gene structure and motif distribution of sperm whale UBE2 genes are conserved in each subfamily, motif variation and intron gain/loss may contribute to functional divergence. Segmental duplications were detected in six gene pairs, which could drive UBE2 gene innovation in the sperm whale. Contrasting seven cetaceans and five terrestrial taxa, we found that cetaceans have experienced shifts in selective constraint on UBE2 genes, which may contribute to oxidative stress tolerance during the adaptation to aquatic life. Our results provide the first comprehensive survey of cetacean UBE2 genes. |
format |
Article in Journal/Newspaper |
author |
Tian, Ran Yang, Chen Geng, Yuepan Seim, Inge Yang, Guang |
author_facet |
Tian, Ran Yang, Chen Geng, Yuepan Seim, Inge Yang, Guang |
author_sort |
Tian, Ran |
title |
Genomewide analysis of sperm whale E2 ubiquitin conjugating enzyme genes |
title_short |
Genomewide analysis of sperm whale E2 ubiquitin conjugating enzyme genes |
title_full |
Genomewide analysis of sperm whale E2 ubiquitin conjugating enzyme genes |
title_fullStr |
Genomewide analysis of sperm whale E2 ubiquitin conjugating enzyme genes |
title_full_unstemmed |
Genomewide analysis of sperm whale E2 ubiquitin conjugating enzyme genes |
title_sort |
genomewide analysis of sperm whale e2 ubiquitin conjugating enzyme genes |
publisher |
Springer India |
publishDate |
2021 |
url |
https://eprints.qut.edu.au/230809/ |
genre |
Sperm whale |
genre_facet |
Sperm whale |
op_source |
Journal of Genetics |
op_relation |
doi:10.1007/s12041-021-01333-y Tian, Ran, Yang, Chen, Geng, Yuepan, Seim, Inge, & Yang, Guang (2021) Genomewide analysis of sperm whale E2 ubiquitin conjugating enzyme genes. Journal of Genetics, 100(2), Article number: 78. https://eprints.qut.edu.au/230809/ Faculty of Science; School of Biology & Environmental Science |
op_rights |
© 2021, Indian Academy of Sciences. This work is covered by copyright. Unless the document is being made available under a Creative Commons Licence, you must assume that re-use is limited to personal use and that permission from the copyright owner must be obtained for all other uses. If the document is available under a Creative Commons License (or other specified license) then refer to the Licence for details of permitted re-use. It is a condition of access that users recognise and abide by the legal requirements associated with these rights. If you believe that this work infringes copyright please provide details by email to qut.copyright@qut.edu.au |
op_doi |
https://doi.org/10.1007/s12041-021-01333-y |
container_title |
Journal of Genetics |
container_volume |
100 |
container_issue |
2 |
_version_ |
1789973488683974656 |