Cross-genome Comparison of Global Oikopleura dioica Populations
Larvaceans represent the second most abundant zooplankton in all the world’s oceans, with key roles in marine food chains and global carbon flux. Oikopleura dioica is a free-swimming planktonic tunicate from the group and possesses the smallest animal genome with extremely dynamic organization: mult...
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ftokinawainstst:oai:oist.repo.nii.ac.jp:00002880 2023-05-15T17:35:23+02:00 Cross-genome Comparison of Global Oikopleura dioica Populations Aleksandra Bliznina 2022-12-31 ETD http://id.nii.ac.jp/1394/00002605/ https://oist.repo.nii.ac.jp/?action=repository_uri&item_id=2880 https://oist.repo.nii.ac.jp/?action=repository_action_common_download&item_id=2880&item_no=1&attribute_id=20&file_no=1 https://oist.repo.nii.ac.jp/?action=repository_action_common_download&item_id=2880&item_no=1&attribute_id=20&file_no=2 en eng https://oist.repo.nii.ac.jp/?action=repository_uri&item_id=2880 http://id.nii.ac.jp/1394/00002605/ 38005甲第116号 https://oist.repo.nii.ac.jp/?action=repository_action_common_download&item_id=2880&item_no=1&attribute_id=20&file_no=1 https://oist.repo.nii.ac.jp/?action=repository_action_common_download&item_id=2880&item_no=1&attribute_id=20&file_no=2 © 2022 The Authors. Thesis or Dissertation Doctor of Philosophy 2022 ftokinawainstst 2023-01-20T00:24:03Z Larvaceans represent the second most abundant zooplankton in all the world’s oceans, with key roles in marine food chains and global carbon flux. Oikopleura dioica is a free-swimming planktonic tunicate from the group and possesses the smallest animal genome with extremely dynamic organization: multiple genomic features such as transposon diversity, intron repertoire, gene content and order are altered in Oikopleura compared with other metazoans. Intriguingly, such genome reorganization has not affected the preservation of their ancestral morphology, since O. dioica maintains a chordate-like body plan throughout its life. O. dioica can be easily distinguished from other larvaceans mainly based on separate sexes and the presence of two subchordal cells on its tail. My research is focused on the cross-genome comparison of three O. dioica populations sampled from the Northern hemisphere: one from North Atlantic (Barcelona/Bergen) and two from Pacific (Osaka/Aomori and Okinawa/Kume) Oceans. For each population, I generated high-quality genome assemblies using a combination of short- and long-read sequencing technologies, as well as chromatin conformation data, confirming preservation of three chromosome pairs. A pairwise comparison of populations revealed a striking degree of genome reshuffling that involves a vast number of synteny breaks and rearrangements. My research also shows that rearrangements mostly happen within individual chromosomes and generally preserve protein-coding features, such as genes and their constituent exons, although the gene order has been effectively randomized. O. dioica populations exhibit differences in repeats and gene content that affect even evolutionary conserved clusters, such as Hox genes. Consistent with an increased evolutionary rate, the accumulation of rearrangements in O. dioica appears to have happened much faster than in other animals and resulted in the divergence of multiple lineages of dioecious Oikopleura. The fact that their morphology stayed virtually identical makes ... Thesis North Atlantic OIST Institutional Repository Bergen Pacific |
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Open Polar |
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OIST Institutional Repository |
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ftokinawainstst |
language |
English |
description |
Larvaceans represent the second most abundant zooplankton in all the world’s oceans, with key roles in marine food chains and global carbon flux. Oikopleura dioica is a free-swimming planktonic tunicate from the group and possesses the smallest animal genome with extremely dynamic organization: multiple genomic features such as transposon diversity, intron repertoire, gene content and order are altered in Oikopleura compared with other metazoans. Intriguingly, such genome reorganization has not affected the preservation of their ancestral morphology, since O. dioica maintains a chordate-like body plan throughout its life. O. dioica can be easily distinguished from other larvaceans mainly based on separate sexes and the presence of two subchordal cells on its tail. My research is focused on the cross-genome comparison of three O. dioica populations sampled from the Northern hemisphere: one from North Atlantic (Barcelona/Bergen) and two from Pacific (Osaka/Aomori and Okinawa/Kume) Oceans. For each population, I generated high-quality genome assemblies using a combination of short- and long-read sequencing technologies, as well as chromatin conformation data, confirming preservation of three chromosome pairs. A pairwise comparison of populations revealed a striking degree of genome reshuffling that involves a vast number of synteny breaks and rearrangements. My research also shows that rearrangements mostly happen within individual chromosomes and generally preserve protein-coding features, such as genes and their constituent exons, although the gene order has been effectively randomized. O. dioica populations exhibit differences in repeats and gene content that affect even evolutionary conserved clusters, such as Hox genes. Consistent with an increased evolutionary rate, the accumulation of rearrangements in O. dioica appears to have happened much faster than in other animals and resulted in the divergence of multiple lineages of dioecious Oikopleura. The fact that their morphology stayed virtually identical makes ... |
format |
Thesis |
author |
Aleksandra Bliznina |
spellingShingle |
Aleksandra Bliznina Cross-genome Comparison of Global Oikopleura dioica Populations |
author_facet |
Aleksandra Bliznina |
author_sort |
Aleksandra Bliznina |
title |
Cross-genome Comparison of Global Oikopleura dioica Populations |
title_short |
Cross-genome Comparison of Global Oikopleura dioica Populations |
title_full |
Cross-genome Comparison of Global Oikopleura dioica Populations |
title_fullStr |
Cross-genome Comparison of Global Oikopleura dioica Populations |
title_full_unstemmed |
Cross-genome Comparison of Global Oikopleura dioica Populations |
title_sort |
cross-genome comparison of global oikopleura dioica populations |
publishDate |
2022 |
url |
http://id.nii.ac.jp/1394/00002605/ https://oist.repo.nii.ac.jp/?action=repository_uri&item_id=2880 https://oist.repo.nii.ac.jp/?action=repository_action_common_download&item_id=2880&item_no=1&attribute_id=20&file_no=1 https://oist.repo.nii.ac.jp/?action=repository_action_common_download&item_id=2880&item_no=1&attribute_id=20&file_no=2 |
geographic |
Bergen Pacific |
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Bergen Pacific |
genre |
North Atlantic |
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North Atlantic |
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https://oist.repo.nii.ac.jp/?action=repository_uri&item_id=2880 http://id.nii.ac.jp/1394/00002605/ 38005甲第116号 https://oist.repo.nii.ac.jp/?action=repository_action_common_download&item_id=2880&item_no=1&attribute_id=20&file_no=1 https://oist.repo.nii.ac.jp/?action=repository_action_common_download&item_id=2880&item_no=1&attribute_id=20&file_no=2 |
op_rights |
© 2022 The Authors. |
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