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Chromosome-level genome assembly of the Asian aspen Populus davidiana Dode
The genome of Populus davidiana, a keystone aspen species, has been sequenced to improve our understanding of the evolutionary and functional genomics of the Populus genus. The Hi-C scaffolding genome assembly resulted in a 408.1 Mb genome with 19 pseudochromosomes. The BUSCO assessment revealed tha...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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Nature Publishing Group UK
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10326025/ https://www.ncbi.nlm.nih.gov/pubmed/37414813 http://dx.doi.org/10.1038/s41597-023-02350-5 |
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author | Bae, Eun-Kyung Kang, Min-Jeong Lee, Seung-Jae Park, Eung-Jun Kim, Ki-Tae |
author_facet | Bae, Eun-Kyung Kang, Min-Jeong Lee, Seung-Jae Park, Eung-Jun Kim, Ki-Tae |
author_sort | Bae, Eun-Kyung |
collection | PubMed |
description | The genome of Populus davidiana, a keystone aspen species, has been sequenced to improve our understanding of the evolutionary and functional genomics of the Populus genus. The Hi-C scaffolding genome assembly resulted in a 408.1 Mb genome with 19 pseudochromosomes. The BUSCO assessment revealed that 98.3% of the genome matched the embryophytes dataset. A total of 31,862 protein-coding sequences were predicted, of which 31,619 were functionally annotated. The assembled genome was composed of 44.9% transposable elements. These findings provide new knowledge about the characteristics of the P. davidiana genome and will facilitate comparative genomics and evolutionary research on the genus Populus. |
format | Online Article Text |
id | pubmed-10326025 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-103260252023-07-08 Chromosome-level genome assembly of the Asian aspen Populus davidiana Dode Bae, Eun-Kyung Kang, Min-Jeong Lee, Seung-Jae Park, Eung-Jun Kim, Ki-Tae Sci Data Data Descriptor The genome of Populus davidiana, a keystone aspen species, has been sequenced to improve our understanding of the evolutionary and functional genomics of the Populus genus. The Hi-C scaffolding genome assembly resulted in a 408.1 Mb genome with 19 pseudochromosomes. The BUSCO assessment revealed that 98.3% of the genome matched the embryophytes dataset. A total of 31,862 protein-coding sequences were predicted, of which 31,619 were functionally annotated. The assembled genome was composed of 44.9% transposable elements. These findings provide new knowledge about the characteristics of the P. davidiana genome and will facilitate comparative genomics and evolutionary research on the genus Populus. Nature Publishing Group UK 2023-07-06 /pmc/articles/PMC10326025/ /pubmed/37414813 http://dx.doi.org/10.1038/s41597-023-02350-5 Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/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/ (https://creativecommons.org/licenses/by/4.0/) . |
spellingShingle | Data Descriptor Bae, Eun-Kyung Kang, Min-Jeong Lee, Seung-Jae Park, Eung-Jun Kim, Ki-Tae Chromosome-level genome assembly of the Asian aspen Populus davidiana Dode |
title | Chromosome-level genome assembly of the Asian aspen Populus davidiana Dode |
title_full | Chromosome-level genome assembly of the Asian aspen Populus davidiana Dode |
title_fullStr | Chromosome-level genome assembly of the Asian aspen Populus davidiana Dode |
title_full_unstemmed | Chromosome-level genome assembly of the Asian aspen Populus davidiana Dode |
title_short | Chromosome-level genome assembly of the Asian aspen Populus davidiana Dode |
title_sort | chromosome-level genome assembly of the asian aspen populus davidiana dode |
topic | Data Descriptor |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10326025/ https://www.ncbi.nlm.nih.gov/pubmed/37414813 http://dx.doi.org/10.1038/s41597-023-02350-5 |
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