Characterization of the plastid genome of Cratoxylum species (Hypericaceae) and new insights into phylogenetic relationships
Abstract To expand the genomic information of Hypericaceae, particularly on Cratoxylum, we characterized seven novel complete plastid genomes (plastomes) of five Cratoxylum and two of its allied taxa, including C. arborescens, C. formosum subsp. formosum, C. formosum subsp. pruniflorum, C. maingayi,...
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2022-11-01
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| Series: | Scientific Reports |
| Online Access: | https://doi.org/10.1038/s41598-022-23639-2 |
| _version_ | 1811328853966061568 |
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| author | Runglawan Sudmoon Sanit Kaewdaungdee Tawatchai Tanee Pornnarong Siripiyasing Unchaleeporn Ameamsri Samsuddin Ahmad Syazwan Shiou Yih Lee Arunrat Chaveerach |
| author_facet | Runglawan Sudmoon Sanit Kaewdaungdee Tawatchai Tanee Pornnarong Siripiyasing Unchaleeporn Ameamsri Samsuddin Ahmad Syazwan Shiou Yih Lee Arunrat Chaveerach |
| author_sort | Runglawan Sudmoon |
| collection | DOAJ |
| description | Abstract To expand the genomic information of Hypericaceae, particularly on Cratoxylum, we characterized seven novel complete plastid genomes (plastomes) of five Cratoxylum and two of its allied taxa, including C. arborescens, C. formosum subsp. formosum, C. formosum subsp. pruniflorum, C. maingayi, C. sumatranum, Hypericum hookerianum, and Triadenum breviflorum. For Cratoxylum, the plastomes ranged from 156,962 to 157,792 bp in length. Genomic structure and gene contents were observed in the five plastomes, and were comprised of 128–129 genes, which includes 83–84 protein-coding (CDS), 37 tRNA, and eight rRNA genes. The plastomes of H. hookerianum and T. breviflorum were 138,260 bp and 167,693 bp, respectively. A total of 110 and 127 genes included 72 and 82 CDS, 34 and 37 tRNA, as well as four and eight rRNA genes. The reconstruction of the phylogenetic trees using maximum likelihood (ML) and Bayesian inference (BI) trees based on the concatenated CDS and internal transcribed spacer (ITS) sequences that were analyzed separately have revealed the same topology structure at genus level; Cratoxylum is monophyletic. However, C. formosum subsp. pruniflorum was not clustered together with its origin, raising doubt that it should be treated as a distinct species, C. pruniflorum based on molecular evidence that was supported by morphological descriptions. |
| first_indexed | 2024-04-13T15:33:29Z |
| format | Article |
| id | doaj.art-be117fb9d32c4f1a99be785eb79aa2db |
| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-04-13T15:33:29Z |
| publishDate | 2022-11-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj.art-be117fb9d32c4f1a99be785eb79aa2db2022-12-22T02:41:19ZengNature PortfolioScientific Reports2045-23222022-11-0112111110.1038/s41598-022-23639-2Characterization of the plastid genome of Cratoxylum species (Hypericaceae) and new insights into phylogenetic relationshipsRunglawan Sudmoon0Sanit Kaewdaungdee1Tawatchai Tanee2Pornnarong Siripiyasing3Unchaleeporn Ameamsri4Samsuddin Ahmad Syazwan5Shiou Yih Lee6Arunrat Chaveerach7Faculty of Law, Khon Kaen UniversityDepartment of Biology, Faculty of Science, Khon Kaen UniversityFaculty of Environment and Resource Studies, Mahasarakham UniversityFaculty of Science and Technology, Rajabhat Maha Sarakham UniversityDepartment of Biology, Faculty of Science, Khon Kaen UniversityMycology and Pathology Branch, Forest Biodiversity Division, Forest Research Institute Malaysia (FRIM)Faculty of Health and Life Sciences, INTI International UniversityDepartment of Biology, Faculty of Science, Khon Kaen UniversityAbstract To expand the genomic information of Hypericaceae, particularly on Cratoxylum, we characterized seven novel complete plastid genomes (plastomes) of five Cratoxylum and two of its allied taxa, including C. arborescens, C. formosum subsp. formosum, C. formosum subsp. pruniflorum, C. maingayi, C. sumatranum, Hypericum hookerianum, and Triadenum breviflorum. For Cratoxylum, the plastomes ranged from 156,962 to 157,792 bp in length. Genomic structure and gene contents were observed in the five plastomes, and were comprised of 128–129 genes, which includes 83–84 protein-coding (CDS), 37 tRNA, and eight rRNA genes. The plastomes of H. hookerianum and T. breviflorum were 138,260 bp and 167,693 bp, respectively. A total of 110 and 127 genes included 72 and 82 CDS, 34 and 37 tRNA, as well as four and eight rRNA genes. The reconstruction of the phylogenetic trees using maximum likelihood (ML) and Bayesian inference (BI) trees based on the concatenated CDS and internal transcribed spacer (ITS) sequences that were analyzed separately have revealed the same topology structure at genus level; Cratoxylum is monophyletic. However, C. formosum subsp. pruniflorum was not clustered together with its origin, raising doubt that it should be treated as a distinct species, C. pruniflorum based on molecular evidence that was supported by morphological descriptions.https://doi.org/10.1038/s41598-022-23639-2 |
| spellingShingle | Runglawan Sudmoon Sanit Kaewdaungdee Tawatchai Tanee Pornnarong Siripiyasing Unchaleeporn Ameamsri Samsuddin Ahmad Syazwan Shiou Yih Lee Arunrat Chaveerach Characterization of the plastid genome of Cratoxylum species (Hypericaceae) and new insights into phylogenetic relationships Scientific Reports |
| title | Characterization of the plastid genome of Cratoxylum species (Hypericaceae) and new insights into phylogenetic relationships |
| title_full | Characterization of the plastid genome of Cratoxylum species (Hypericaceae) and new insights into phylogenetic relationships |
| title_fullStr | Characterization of the plastid genome of Cratoxylum species (Hypericaceae) and new insights into phylogenetic relationships |
| title_full_unstemmed | Characterization of the plastid genome of Cratoxylum species (Hypericaceae) and new insights into phylogenetic relationships |
| title_short | Characterization of the plastid genome of Cratoxylum species (Hypericaceae) and new insights into phylogenetic relationships |
| title_sort | characterization of the plastid genome of cratoxylum species hypericaceae and new insights into phylogenetic relationships |
| url | https://doi.org/10.1038/s41598-022-23639-2 |
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