ATTENTION: The software behind KU ScholarWorks is being upgraded to a new version. Starting July 15th, users will not be able to log in to the system, add items, nor make any changes until the new version is in place at the end of July. Searching for articles and opening files will continue to work while the system is being updated.
If you have any questions, please contact Marianne Reed at mreed@ku.edu .
Chromosome-level genome assembly of Hydractinia symbiolongicarpus
dc.contributor.author | Kon-Nanjo, Koto | |
dc.contributor.author | Kon, Tetsuo | |
dc.contributor.author | Horkan, Helen R. | |
dc.contributor.author | Steele, Robert E. | |
dc.contributor.author | Febrimarsa | |
dc.contributor.author | Cartwright, Paulyn | |
dc.contributor.author | Frank, Uri | |
dc.contributor.author | Simakov, Oleg | |
dc.date.accessioned | 2024-05-28T20:37:42Z | |
dc.date.available | 2024-05-28T20:37:42Z | |
dc.date.issued | 2023-05-18 | |
dc.identifier.citation | Kon-Nanjo K, Kon T, Horkan HR, Febrimarsa, Steele RE, Cartwright P, Frank U, Simakov O. Chromosome-level genome assembly of Hydractinia symbiolongicarpus. G3 (Bethesda). 2023 May 18;13(8):jkad107. doi: 10.1093/g3journal/jkad107. Epub ahead of print. PMID: 37294738; PMCID: PMC10411563 | en_US |
dc.identifier.uri | https://hdl.handle.net/1808/35076 | |
dc.description.abstract | Hydractinia symbiolongicarpus is a pioneering model organism for stem cell biology, being one of only a few animals with adult pluripotent stem cells (known as i-cells). However, the unavailability of a chromosome-level genome assembly has hindered a comprehensive understanding of global gene regulatory mechanisms underlying the function and evolution of i-cells. Here, we report the first chromosome-level genome assembly of H. symbiolongicarpus (HSymV2.0) using PacBio HiFi long-read sequencing and Hi-C scaffolding. The final assembly is 483 Mb in total length with 15 chromosomes representing 99.8% of the assembly. Repetitive sequences were found to account for 296 Mb (61%) of the total genome; we provide evidence for at least two periods of repeat expansion in the past. A total of 25,825 protein-coding genes were predicted in this assembly, which include 93.1% of the metazoan Benchmarking Universal Single-Copy Orthologs (BUSCO) gene set. 92.8% (23,971 genes) of the predicted proteins were functionally annotated. The H. symbiolongicarpus genome showed a high degree of macrosynteny conservation with the Hydra vulgaris genome. This chromosome-level genome assembly of H. symbiolongicarpus will be an invaluable resource for the research community that enhances broad biological studies on this unique model organism. | en_US |
dc.publisher | Oxford University Press | en_US |
dc.relation.isversionof | 10.1093/g3journal/jkad107 | en_US |
dc.rights | Copyright © The Author(s) 2023. Published by Oxford University Press on behalf of The Genetics Society of America. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. | en_US |
dc.rights.uri | https://creativecommons.org/licenses/by/4.0/ | en_US |
dc.subject | Hydractinia | en_US |
dc.subject | Chromosome-level genome assembly | en_US |
dc.subject | HSymV2.0 | en_US |
dc.subject | Stem cell | en_US |
dc.subject | Hydrozoa | en_US |
dc.title | Chromosome-level genome assembly of Hydractinia symbiolongicarpus | en_US |
dc.type | Article | en_US |
kusw.kuauthor | Cartwright, Paulyn | |
kusw.kudepartment | Ecology and Evolutionary Biology | en_US |
kusw.oaversion | Scholarly/refereed, publisher version | en_US |
kusw.oapolicy | This item meets KU Open Access policy criteria. | en_US |
dc.identifier.pmid | PMC10411563 | en_US |
dc.rights.accessrights | openAccess | en_US |
Files in this item
This item appears in the following Collection(s)
Except where otherwise noted, this item's license is described as: Copyright © The Author(s) 2023. Published by Oxford University Press on behalf of The Genetics Society of America.
This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.