Cargando…

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...

Descripción completa

Detalles Bibliográficos
Autores principales: Bae, Eun-Kyung, Kang, Min-Jeong, Lee, Seung-Jae, Park, Eung-Jun, Kim, Ki-Tae
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2023
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
_version_ 1785069341190914048
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
work_keys_str_mv AT baeeunkyung chromosomelevelgenomeassemblyoftheasianaspenpopulusdavidianadode
AT kangminjeong chromosomelevelgenomeassemblyoftheasianaspenpopulusdavidianadode
AT leeseungjae chromosomelevelgenomeassemblyoftheasianaspenpopulusdavidianadode
AT parkeungjun chromosomelevelgenomeassemblyoftheasianaspenpopulusdavidianadode
AT kimkitae chromosomelevelgenomeassemblyoftheasianaspenpopulusdavidianadode