Chromosome-level assemblies of the endemic Korean species Abeliophyllum distichum and Forsythia ovata
Abstract Abeliophyllum distichum and Forsythia ovata are closely related species endemic to Korea and are highly valued as ornamental shrubs in the Oleaceae family. A combination of PacBio and Illumina sequencing with Hi-C scaffolding technologies was employed to develop chromosome-level genome asse...
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Nature Portfolio
2024-12-01
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| Series: | Scientific Data |
| Online Access: | https://doi.org/10.1038/s41597-024-04252-6 |
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| author | Hoyeol Jang Ara Cho Hyuk-Jin Kim Haneul Kim Seung-Hoon Jeong Sun Mi Huh Hee-Ju Yu Dong-Kab Kim Joo-Hwan Kim Jeong-Hwan Mun |
| author_facet | Hoyeol Jang Ara Cho Hyuk-Jin Kim Haneul Kim Seung-Hoon Jeong Sun Mi Huh Hee-Ju Yu Dong-Kab Kim Joo-Hwan Kim Jeong-Hwan Mun |
| author_sort | Hoyeol Jang |
| collection | DOAJ |
| description | Abstract Abeliophyllum distichum and Forsythia ovata are closely related species endemic to Korea and are highly valued as ornamental shrubs in the Oleaceae family. A combination of PacBio and Illumina sequencing with Hi-C scaffolding technologies was employed to develop chromosome-level genome assemblies of these species. The assembled genome sizes are 795.72 Mb for A. distichum and 1,108.53 Mb for F. ovata. The assemblies exhibit scaffold N50 lengths of 53.12 Mb and 68.97 Mb, with minimal gaps measuring 323.40 kb and 149.00 kb, and 97.71% and 98.82% BUSCO scores for Embryophyta single-copy orthologs, respectively, indicating high contiguity and completeness. The genomes contain 485.24 Mb and 691.68 Mb of repetitive sequences, 4,926 and 7,175 full-length long terminal repeat retrotransposons, and 49,414 and 57,587 protein-coding genes, respectively. The 14 pseudochromosomes encompass 93.80% of the A. distichum genome and 89.11% of the F. ovata genome, thereby demonstrating one-to-one chromosome-level collinearity. These high-quality genome assemblies serve as invaluable resources for genetic and breeding studies, facilitating a deeper understanding of the evolutionary history of these distinctive species. |
| format | Article |
| id | doaj-art-26d6227b939b484ca09778737b15f6c9 |
| institution | Kabale University |
| issn | 2052-4463 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Nature Portfolio |
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| spelling | doaj-art-26d6227b939b484ca09778737b15f6c92024-12-22T12:14:28ZengNature PortfolioScientific Data2052-44632024-12-011111910.1038/s41597-024-04252-6Chromosome-level assemblies of the endemic Korean species Abeliophyllum distichum and Forsythia ovataHoyeol Jang0Ara Cho1Hyuk-Jin Kim2Haneul Kim3Seung-Hoon Jeong4Sun Mi Huh5Hee-Ju Yu6Dong-Kab Kim7Joo-Hwan Kim8Jeong-Hwan Mun9Department of Bioscience and Bioinformatics, Myongji UniversityDepartment of Bioscience and Bioinformatics, Myongji UniversityDivision of Forest Biodiversity, Korea National ArboretumDepartment of Bioscience and Bioinformatics, Myongji UniversityDepartment of Bioscience and Bioinformatics, Myongji UniversityDepartment of Medical and Biological Sciences, The Catholic University of KoreaDepartment of Medical and Biological Sciences, The Catholic University of KoreaDivision of Forest Biodiversity, Korea National ArboretumDepartment of Life Science, Gachon UniversityDepartment of Bioscience and Bioinformatics, Myongji UniversityAbstract Abeliophyllum distichum and Forsythia ovata are closely related species endemic to Korea and are highly valued as ornamental shrubs in the Oleaceae family. A combination of PacBio and Illumina sequencing with Hi-C scaffolding technologies was employed to develop chromosome-level genome assemblies of these species. The assembled genome sizes are 795.72 Mb for A. distichum and 1,108.53 Mb for F. ovata. The assemblies exhibit scaffold N50 lengths of 53.12 Mb and 68.97 Mb, with minimal gaps measuring 323.40 kb and 149.00 kb, and 97.71% and 98.82% BUSCO scores for Embryophyta single-copy orthologs, respectively, indicating high contiguity and completeness. The genomes contain 485.24 Mb and 691.68 Mb of repetitive sequences, 4,926 and 7,175 full-length long terminal repeat retrotransposons, and 49,414 and 57,587 protein-coding genes, respectively. The 14 pseudochromosomes encompass 93.80% of the A. distichum genome and 89.11% of the F. ovata genome, thereby demonstrating one-to-one chromosome-level collinearity. These high-quality genome assemblies serve as invaluable resources for genetic and breeding studies, facilitating a deeper understanding of the evolutionary history of these distinctive species.https://doi.org/10.1038/s41597-024-04252-6 |
| spellingShingle | Hoyeol Jang Ara Cho Hyuk-Jin Kim Haneul Kim Seung-Hoon Jeong Sun Mi Huh Hee-Ju Yu Dong-Kab Kim Joo-Hwan Kim Jeong-Hwan Mun Chromosome-level assemblies of the endemic Korean species Abeliophyllum distichum and Forsythia ovata Scientific Data |
| title | Chromosome-level assemblies of the endemic Korean species Abeliophyllum distichum and Forsythia ovata |
| title_full | Chromosome-level assemblies of the endemic Korean species Abeliophyllum distichum and Forsythia ovata |
| title_fullStr | Chromosome-level assemblies of the endemic Korean species Abeliophyllum distichum and Forsythia ovata |
| title_full_unstemmed | Chromosome-level assemblies of the endemic Korean species Abeliophyllum distichum and Forsythia ovata |
| title_short | Chromosome-level assemblies of the endemic Korean species Abeliophyllum distichum and Forsythia ovata |
| title_sort | chromosome level assemblies of the endemic korean species abeliophyllum distichum and forsythia ovata |
| url | https://doi.org/10.1038/s41597-024-04252-6 |
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