Chromosome-level genome assembly of Salvia sclarea
Abstract Salvia sclarea is a medicinal herb from the Lamiaceae family, valued for its essential oil which contains sclareol, linalool, linalyl acetate, and other compounds. Despite its extensive use, the genetic mechanisms of S. sclarea are not well understood. This study presents a chromosome-level...
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Nature Portfolio
2025-01-01
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| Series: | Scientific Data |
| Online Access: | https://doi.org/10.1038/s41597-024-04347-0 |
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| author | Sehyun Choi Yuna Kang Changsoo Kim |
| author_facet | Sehyun Choi Yuna Kang Changsoo Kim |
| author_sort | Sehyun Choi |
| collection | DOAJ |
| description | Abstract Salvia sclarea is a medicinal herb from the Lamiaceae family, valued for its essential oil which contains sclareol, linalool, linalyl acetate, and other compounds. Despite its extensive use, the genetic mechanisms of S. sclarea are not well understood. This study presents a chromosome-level genome assembly of S. sclarea using the Oxford Nanopore Technology, Illumina short reads, and Pore-C technology. The assembled genome spans 499.03 Mbp with a scaffold N50 of 50.5 Mbp, forming 11 pseudochromosomes. The genome assembly was validated by BUSCO analysis, which indicated a high completeness marked at 98.7%. The genome contains 68.73% repetitive sequences, with long terminal repeats (LTRs) accounting for 33.01%. A total of 17,202 protein-coding genes were predicted. Among them, 16,846 genes were annotated in the NCBI NR database, the highest among all databases, covering 97.93% of the predicted genes. The phylogenetic analysis revealed that S. sclarea shares a close evolutionary relationship with S. officinalis within the Salvia genus, while species in the genus have evolved independently within the Lamiaceae family. This high-resolution genome assembly offers fresh insights into the biosynthesis of essential oils and other aromatic compounds in S. sclarea, establishing a basis for genetic preservation. |
| format | Article |
| id | doaj-art-b9113d406f2f4aa7a47f35f4a3f1368a |
| institution | Kabale University |
| issn | 2052-4463 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Nature Portfolio |
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| series | Scientific Data |
| spelling | doaj-art-b9113d406f2f4aa7a47f35f4a3f1368a2025-01-05T12:08:25ZengNature PortfolioScientific Data2052-44632025-01-0112111010.1038/s41597-024-04347-0Chromosome-level genome assembly of Salvia sclareaSehyun Choi0Yuna Kang1Changsoo Kim2Department of Crop Science, Chungnam National UniversityDepartment of Crop Science, Chungnam National UniversityDepartment of Crop Science, Chungnam National UniversityAbstract Salvia sclarea is a medicinal herb from the Lamiaceae family, valued for its essential oil which contains sclareol, linalool, linalyl acetate, and other compounds. Despite its extensive use, the genetic mechanisms of S. sclarea are not well understood. This study presents a chromosome-level genome assembly of S. sclarea using the Oxford Nanopore Technology, Illumina short reads, and Pore-C technology. The assembled genome spans 499.03 Mbp with a scaffold N50 of 50.5 Mbp, forming 11 pseudochromosomes. The genome assembly was validated by BUSCO analysis, which indicated a high completeness marked at 98.7%. The genome contains 68.73% repetitive sequences, with long terminal repeats (LTRs) accounting for 33.01%. A total of 17,202 protein-coding genes were predicted. Among them, 16,846 genes were annotated in the NCBI NR database, the highest among all databases, covering 97.93% of the predicted genes. The phylogenetic analysis revealed that S. sclarea shares a close evolutionary relationship with S. officinalis within the Salvia genus, while species in the genus have evolved independently within the Lamiaceae family. This high-resolution genome assembly offers fresh insights into the biosynthesis of essential oils and other aromatic compounds in S. sclarea, establishing a basis for genetic preservation.https://doi.org/10.1038/s41597-024-04347-0 |
| spellingShingle | Sehyun Choi Yuna Kang Changsoo Kim Chromosome-level genome assembly of Salvia sclarea Scientific Data |
| title | Chromosome-level genome assembly of Salvia sclarea |
| title_full | Chromosome-level genome assembly of Salvia sclarea |
| title_fullStr | Chromosome-level genome assembly of Salvia sclarea |
| title_full_unstemmed | Chromosome-level genome assembly of Salvia sclarea |
| title_short | Chromosome-level genome assembly of Salvia sclarea |
| title_sort | chromosome level genome assembly of salvia sclarea |
| url | https://doi.org/10.1038/s41597-024-04347-0 |
| work_keys_str_mv | AT sehyunchoi chromosomelevelgenomeassemblyofsalviasclarea AT yunakang chromosomelevelgenomeassemblyofsalviasclarea AT changsookim chromosomelevelgenomeassemblyofsalviasclarea |