A near-complete genome assembly of Cinchona calisaya
Abstract Rubiaceae plants are globally widespread and possess significant economic and medicinal value. Such as the globally important crop of coffee, and Cinchona calisaya Wedd., which is rich in alkaloids, is an important medicinal resource for treating malaria. In recent years, several genome res...
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2025-01-01
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| Series: | Scientific Data |
| Online Access: | https://doi.org/10.1038/s41597-025-04449-3 |
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| author | Cailian Du Yao Xiao Jin Liu Qiang He Wei Li Wenzhao Xie |
| author_facet | Cailian Du Yao Xiao Jin Liu Qiang He Wei Li Wenzhao Xie |
| author_sort | Cailian Du |
| collection | DOAJ |
| description | Abstract Rubiaceae plants are globally widespread and possess significant economic and medicinal value. Such as the globally important crop of coffee, and Cinchona calisaya Wedd., which is rich in alkaloids, is an important medicinal resource for treating malaria. In recent years, several genome resources of Rubiaceae have been reported. However, the comprehensive phylogenetic relationships of Rubiaceae are still unknown. In this study, we present a nearly complete diploid genome assembly of C. calisaya, characterized by a genome size of 869.93 Mb, and contig N50 length of 44.34 Mb. Notably, 99.75% of the sequences have been successfully anchored to 17 chromosomes, with only 12 gaps remaining. BUSCO assessment indicates that 97.40% of complete core genes are present in the assembly. We identified a total of 42,741 protein-coding genes, among which 38,022 (89.00%) have received functional annotation. The high continuity and integrity of the C. calisaya genome provide a robust foundation for functional genomics research, varietal improvement, and the conservation of genomic resources in medicinal plants. |
| format | Article |
| id | doaj-art-5615e487abac4d6aa2ad246af612a446 |
| institution | Kabale University |
| issn | 2052-4463 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Data |
| spelling | doaj-art-5615e487abac4d6aa2ad246af612a4462025-01-26T12:14:56ZengNature PortfolioScientific Data2052-44632025-01-011211610.1038/s41597-025-04449-3A near-complete genome assembly of Cinchona calisayaCailian Du0Yao Xiao1Jin Liu2Qiang He3Wei Li4Wenzhao Xie5College of Life Sciences, Institute of Life Sciences and Green Development, Hebei UniversityCollege of Life Sciences, Institute of Life Sciences and Green Development, Hebei UniversityYunnan Institute of Tropical CropsCollege of Life Sciences, Institute of Life Sciences and Green Development, Hebei UniversityCollege of Life Sciences, Institute of Life Sciences and Green Development, Hebei UniversityCollege of Life Sciences, Institute of Life Sciences and Green Development, Hebei UniversityAbstract Rubiaceae plants are globally widespread and possess significant economic and medicinal value. Such as the globally important crop of coffee, and Cinchona calisaya Wedd., which is rich in alkaloids, is an important medicinal resource for treating malaria. In recent years, several genome resources of Rubiaceae have been reported. However, the comprehensive phylogenetic relationships of Rubiaceae are still unknown. In this study, we present a nearly complete diploid genome assembly of C. calisaya, characterized by a genome size of 869.93 Mb, and contig N50 length of 44.34 Mb. Notably, 99.75% of the sequences have been successfully anchored to 17 chromosomes, with only 12 gaps remaining. BUSCO assessment indicates that 97.40% of complete core genes are present in the assembly. We identified a total of 42,741 protein-coding genes, among which 38,022 (89.00%) have received functional annotation. The high continuity and integrity of the C. calisaya genome provide a robust foundation for functional genomics research, varietal improvement, and the conservation of genomic resources in medicinal plants.https://doi.org/10.1038/s41597-025-04449-3 |
| spellingShingle | Cailian Du Yao Xiao Jin Liu Qiang He Wei Li Wenzhao Xie A near-complete genome assembly of Cinchona calisaya Scientific Data |
| title | A near-complete genome assembly of Cinchona calisaya |
| title_full | A near-complete genome assembly of Cinchona calisaya |
| title_fullStr | A near-complete genome assembly of Cinchona calisaya |
| title_full_unstemmed | A near-complete genome assembly of Cinchona calisaya |
| title_short | A near-complete genome assembly of Cinchona calisaya |
| title_sort | near complete genome assembly of cinchona calisaya |
| url | https://doi.org/10.1038/s41597-025-04449-3 |
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