Chromosome-level genome assembly and annotation of Anthurium amnicola
Abstract Anthurium amnicola is in the monocot family Araceae, subfamily Pothoideae and is a contributing species in Hawaii floriculture industry hybrids. To support future genetic improvements to this commodity, we sequenced and assembled the A. amnicola genome to chromosome-scale using PacBio HiFi...
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Nature Portfolio
2025-04-01
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| Series: | Scientific Data |
| Online Access: | https://doi.org/10.1038/s41597-025-04939-4 |
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| author | Haomin Lyu Sheina B. Sim Scott M. Geib Joanne S. L. Imamura Briette L. Corpuz Renee L. Corpuz Angela N. Kauwe Tyler J. Simmonds Claire N. Arakawa Roxana Y. Myers Lisa M. Keith Qingyi Yu Tracie K. Matsumoto Teresita D. Amore Jon Y. Suzuki |
| author_facet | Haomin Lyu Sheina B. Sim Scott M. Geib Joanne S. L. Imamura Briette L. Corpuz Renee L. Corpuz Angela N. Kauwe Tyler J. Simmonds Claire N. Arakawa Roxana Y. Myers Lisa M. Keith Qingyi Yu Tracie K. Matsumoto Teresita D. Amore Jon Y. Suzuki |
| author_sort | Haomin Lyu |
| collection | DOAJ |
| description | Abstract Anthurium amnicola is in the monocot family Araceae, subfamily Pothoideae and is a contributing species in Hawaii floriculture industry hybrids. To support future genetic improvements to this commodity, we sequenced and assembled the A. amnicola genome to chromosome-scale using PacBio HiFi and short-read Hi-C sequencing. A total of 98.51% of the 4.79 Gb genome is anchored into 15 chromosomes, with 99.2% gene completeness and a high LTR assembly index (LAI) score of 21.73, indicative of a complete, high-quality assembly. Annotation reveals the presence of 20,380 protein-coding genes, with 78.52% of the genome composed of repetitive sequences, predominantly long terminal repeat retrotransposons (LTR-RT). Phylogenetic analysis identified evolutionary relationships between A. amnicola and representative species in the Araceae and other plant families. This study provides the first reference genome sequence for the neotropical genus Anthurium and insights into Araceae evolution, benefiting the floriculture industry and evolutionary studies. |
| format | Article |
| id | doaj-art-afd680c399e04fdd9cc388b31d1ea488 |
| institution | OA Journals |
| issn | 2052-4463 |
| language | English |
| publishDate | 2025-04-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Data |
| spelling | doaj-art-afd680c399e04fdd9cc388b31d1ea4882025-08-20T02:11:51ZengNature PortfolioScientific Data2052-44632025-04-011211810.1038/s41597-025-04939-4Chromosome-level genome assembly and annotation of Anthurium amnicolaHaomin Lyu0Sheina B. Sim1Scott M. Geib2Joanne S. L. Imamura3Briette L. Corpuz4Renee L. Corpuz5Angela N. Kauwe6Tyler J. Simmonds7Claire N. Arakawa8Roxana Y. Myers9Lisa M. Keith10Qingyi Yu11Tracie K. Matsumoto12Teresita D. Amore13Jon Y. Suzuki14USDA ARS Daniel K. Inouye, U.S. Pacific Basin Agricultural Research CenterUSDA ARS Daniel K. Inouye, U.S. Pacific Basin Agricultural Research CenterUSDA ARS Daniel K. Inouye, U.S. Pacific Basin Agricultural Research CenterDepartment of Tropical Plant and Soil Sciences, University of Hawaii at ManoaUSDA ARS Daniel K. Inouye, U.S. Pacific Basin Agricultural Research CenterUSDA ARS Daniel K. Inouye, U.S. Pacific Basin Agricultural Research CenterUSDA ARS Daniel K. Inouye, U.S. Pacific Basin Agricultural Research CenterUSDA ARS Daniel K. Inouye, U.S. Pacific Basin Agricultural Research CenterUSDA ARS Daniel K. Inouye, U.S. Pacific Basin Agricultural Research CenterUSDA ARS Daniel K. Inouye, U.S. Pacific Basin Agricultural Research CenterUSDA ARS Daniel K. Inouye, U.S. Pacific Basin Agricultural Research CenterUSDA ARS Daniel K. Inouye, U.S. Pacific Basin Agricultural Research CenterUSDA ARS Daniel K. Inouye, U.S. Pacific Basin Agricultural Research CenterDepartment of Tropical Plant and Soil Sciences, University of Hawaii at ManoaUSDA ARS Daniel K. Inouye, U.S. Pacific Basin Agricultural Research CenterAbstract Anthurium amnicola is in the monocot family Araceae, subfamily Pothoideae and is a contributing species in Hawaii floriculture industry hybrids. To support future genetic improvements to this commodity, we sequenced and assembled the A. amnicola genome to chromosome-scale using PacBio HiFi and short-read Hi-C sequencing. A total of 98.51% of the 4.79 Gb genome is anchored into 15 chromosomes, with 99.2% gene completeness and a high LTR assembly index (LAI) score of 21.73, indicative of a complete, high-quality assembly. Annotation reveals the presence of 20,380 protein-coding genes, with 78.52% of the genome composed of repetitive sequences, predominantly long terminal repeat retrotransposons (LTR-RT). Phylogenetic analysis identified evolutionary relationships between A. amnicola and representative species in the Araceae and other plant families. This study provides the first reference genome sequence for the neotropical genus Anthurium and insights into Araceae evolution, benefiting the floriculture industry and evolutionary studies.https://doi.org/10.1038/s41597-025-04939-4 |
| spellingShingle | Haomin Lyu Sheina B. Sim Scott M. Geib Joanne S. L. Imamura Briette L. Corpuz Renee L. Corpuz Angela N. Kauwe Tyler J. Simmonds Claire N. Arakawa Roxana Y. Myers Lisa M. Keith Qingyi Yu Tracie K. Matsumoto Teresita D. Amore Jon Y. Suzuki Chromosome-level genome assembly and annotation of Anthurium amnicola Scientific Data |
| title | Chromosome-level genome assembly and annotation of Anthurium amnicola |
| title_full | Chromosome-level genome assembly and annotation of Anthurium amnicola |
| title_fullStr | Chromosome-level genome assembly and annotation of Anthurium amnicola |
| title_full_unstemmed | Chromosome-level genome assembly and annotation of Anthurium amnicola |
| title_short | Chromosome-level genome assembly and annotation of Anthurium amnicola |
| title_sort | chromosome level genome assembly and annotation of anthurium amnicola |
| url | https://doi.org/10.1038/s41597-025-04939-4 |
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