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De novo draft assembly of the Botrylloides leachii genome provides further insight into tunicate evolution

Tunicates are marine invertebrates that compose the closest phylogenetic group to the vertebrates. These chordates present a particularly diverse range of regenerative abilities and life-history strategies. Consequently, tunicates provide an extraordinary perspective into the emergence and diversity...

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Autores principales: Blanchoud, Simon, Rutherford, Kim, Zondag, Lisa, Gemmell, Neil J., Wilson, Megan J.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5882950/
https://www.ncbi.nlm.nih.gov/pubmed/29615780
http://dx.doi.org/10.1038/s41598-018-23749-w
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author Blanchoud, Simon
Rutherford, Kim
Zondag, Lisa
Gemmell, Neil J.
Wilson, Megan J.
author_facet Blanchoud, Simon
Rutherford, Kim
Zondag, Lisa
Gemmell, Neil J.
Wilson, Megan J.
author_sort Blanchoud, Simon
collection PubMed
description Tunicates are marine invertebrates that compose the closest phylogenetic group to the vertebrates. These chordates present a particularly diverse range of regenerative abilities and life-history strategies. Consequently, tunicates provide an extraordinary perspective into the emergence and diversity of these traits. Here we describe the genome sequencing, annotation and analysis of the Stolidobranchian Botrylloides leachii. We have produced a high-quality 159 Mb assembly, 82% of the predicted 194 Mb genome. Analysing genome size, gene number, repetitive elements, orthologs clustering and gene ontology terms show that B. leachii has a genomic architecture similar to that of most solitary tunicates, while other recently sequenced colonial ascidians have undergone genome expansion. In addition, ortholog clustering has identified groups of candidate genes for the study of colonialism and whole-body regeneration. By analysing the structure and composition of conserved gene linkages, we observed examples of cluster breaks and gene dispersions, suggesting that several lineage-specific genome rearrangements occurred during tunicate evolution. We also found lineage-specific gene gain and loss within conserved cell-signalling pathways. Such examples of genetic changes within conserved cell-signalling pathways commonly associated with regeneration and development that may underlie some of the diverse regenerative abilities observed in tunicates. Overall, these results provide a novel resource for the study of tunicates and of colonial ascidians.
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spelling pubmed-58829502018-04-09 De novo draft assembly of the Botrylloides leachii genome provides further insight into tunicate evolution Blanchoud, Simon Rutherford, Kim Zondag, Lisa Gemmell, Neil J. Wilson, Megan J. Sci Rep Article Tunicates are marine invertebrates that compose the closest phylogenetic group to the vertebrates. These chordates present a particularly diverse range of regenerative abilities and life-history strategies. Consequently, tunicates provide an extraordinary perspective into the emergence and diversity of these traits. Here we describe the genome sequencing, annotation and analysis of the Stolidobranchian Botrylloides leachii. We have produced a high-quality 159 Mb assembly, 82% of the predicted 194 Mb genome. Analysing genome size, gene number, repetitive elements, orthologs clustering and gene ontology terms show that B. leachii has a genomic architecture similar to that of most solitary tunicates, while other recently sequenced colonial ascidians have undergone genome expansion. In addition, ortholog clustering has identified groups of candidate genes for the study of colonialism and whole-body regeneration. By analysing the structure and composition of conserved gene linkages, we observed examples of cluster breaks and gene dispersions, suggesting that several lineage-specific genome rearrangements occurred during tunicate evolution. We also found lineage-specific gene gain and loss within conserved cell-signalling pathways. Such examples of genetic changes within conserved cell-signalling pathways commonly associated with regeneration and development that may underlie some of the diverse regenerative abilities observed in tunicates. Overall, these results provide a novel resource for the study of tunicates and of colonial ascidians. Nature Publishing Group UK 2018-04-03 /pmc/articles/PMC5882950/ /pubmed/29615780 http://dx.doi.org/10.1038/s41598-018-23749-w Text en © The Author(s) 2018 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Blanchoud, Simon
Rutherford, Kim
Zondag, Lisa
Gemmell, Neil J.
Wilson, Megan J.
De novo draft assembly of the Botrylloides leachii genome provides further insight into tunicate evolution
title De novo draft assembly of the Botrylloides leachii genome provides further insight into tunicate evolution
title_full De novo draft assembly of the Botrylloides leachii genome provides further insight into tunicate evolution
title_fullStr De novo draft assembly of the Botrylloides leachii genome provides further insight into tunicate evolution
title_full_unstemmed De novo draft assembly of the Botrylloides leachii genome provides further insight into tunicate evolution
title_short De novo draft assembly of the Botrylloides leachii genome provides further insight into tunicate evolution
title_sort de novo draft assembly of the botrylloides leachii genome provides further insight into tunicate evolution
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5882950/
https://www.ncbi.nlm.nih.gov/pubmed/29615780
http://dx.doi.org/10.1038/s41598-018-23749-w
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