The complete chloroplast genome of Atractylodes japonica Koidz. ex Kitam. and its phylogenetic inference
Atractylodes japonica Koidz. ex Kitam. is a perennial herbal plant, and its dried rhizomes have been widely used as traditional medicine in China and Japan. In this study, we assembled and annotated the complete chloroplast (cp) genome sequence of A. japonica using the high-throughput sequencing app...
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| Format: | Article |
| Language: | English |
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Taylor & Francis Group
2021-07-01
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| Series: | Mitochondrial DNA. Part B. Resources |
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| Online Access: | http://dx.doi.org/10.1080/23802359.2021.1927217 |
| _version_ | 1797638891359961088 |
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| author | Mengmeng Shi Hongbo Xie Chunying Zhao Linchun Shi Jinxin Liu Zhongsi Li |
| author_facet | Mengmeng Shi Hongbo Xie Chunying Zhao Linchun Shi Jinxin Liu Zhongsi Li |
| author_sort | Mengmeng Shi |
| collection | DOAJ |
| description | Atractylodes japonica Koidz. ex Kitam. is a perennial herbal plant, and its dried rhizomes have been widely used as traditional medicine in China and Japan. In this study, we assembled and annotated the complete chloroplast (cp) genome sequence of A. japonica using the high-throughput sequencing approach. The cp genome of A. japonica is 153,208 bp in length with the overall GC content of 37.7%, including two inverted repeat (IR) regions of 25,147 bp, which was separated by a large single-copy (LSC) region of 84,255 bp and a small single-copy (SSC) region of 18,659 bp. 113 unique genes were annotated in the genome, including 80 protein-coding genes, 29 represented tRNA genes, and four denoted rRNA genes. A maximum-likelihood phylogenetic analysis with 38 complete cp sequences showed that Atractylodes formed a monophyletic clade, and A. japonica and A. koreana formed a subclade in Atractylodes. This study provides the chloroplast genome structure features and phylogenetic relationship of A. japonica. |
| first_indexed | 2024-03-11T13:09:57Z |
| format | Article |
| id | doaj.art-b6f9f6c2088742c28a260ac35c660dbd |
| institution | Directory Open Access Journal |
| issn | 2380-2359 |
| language | English |
| last_indexed | 2024-03-11T13:09:57Z |
| publishDate | 2021-07-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | Mitochondrial DNA. Part B. Resources |
| spelling | doaj.art-b6f9f6c2088742c28a260ac35c660dbd2023-11-03T14:16:10ZengTaylor & Francis GroupMitochondrial DNA. Part B. Resources2380-23592021-07-01672038204010.1080/23802359.2021.19272171927217The complete chloroplast genome of Atractylodes japonica Koidz. ex Kitam. and its phylogenetic inferenceMengmeng Shi0Hongbo Xie1Chunying Zhao2Linchun Shi3Jinxin Liu4Zhongsi Li5Hebei Key Laboratory of Study and Exploitation of Chinese Medicine, Chengde Medical UniversityHebei Key Laboratory of Study and Exploitation of Chinese Medicine, Chengde Medical UniversityHebei Key Laboratory of Study and Exploitation of Chinese Medicine, Chengde Medical UniversityChinese Academy of Medical Sciences and Peking Union Medical College, Institute of Medicinal Plant DevelopmentHebei Key Laboratory of Study and Exploitation of Chinese Medicine, Chengde Medical UniversityHebei Key Laboratory of Study and Exploitation of Chinese Medicine, Chengde Medical UniversityAtractylodes japonica Koidz. ex Kitam. is a perennial herbal plant, and its dried rhizomes have been widely used as traditional medicine in China and Japan. In this study, we assembled and annotated the complete chloroplast (cp) genome sequence of A. japonica using the high-throughput sequencing approach. The cp genome of A. japonica is 153,208 bp in length with the overall GC content of 37.7%, including two inverted repeat (IR) regions of 25,147 bp, which was separated by a large single-copy (LSC) region of 84,255 bp and a small single-copy (SSC) region of 18,659 bp. 113 unique genes were annotated in the genome, including 80 protein-coding genes, 29 represented tRNA genes, and four denoted rRNA genes. A maximum-likelihood phylogenetic analysis with 38 complete cp sequences showed that Atractylodes formed a monophyletic clade, and A. japonica and A. koreana formed a subclade in Atractylodes. This study provides the chloroplast genome structure features and phylogenetic relationship of A. japonica.http://dx.doi.org/10.1080/23802359.2021.1927217atractylodes japonicachloroplast genomephylogenetic relationshipasteraceaemaximum likelihood |
| spellingShingle | Mengmeng Shi Hongbo Xie Chunying Zhao Linchun Shi Jinxin Liu Zhongsi Li The complete chloroplast genome of Atractylodes japonica Koidz. ex Kitam. and its phylogenetic inference Mitochondrial DNA. Part B. Resources atractylodes japonica chloroplast genome phylogenetic relationship asteraceae maximum likelihood |
| title | The complete chloroplast genome of Atractylodes japonica Koidz. ex Kitam. and its phylogenetic inference |
| title_full | The complete chloroplast genome of Atractylodes japonica Koidz. ex Kitam. and its phylogenetic inference |
| title_fullStr | The complete chloroplast genome of Atractylodes japonica Koidz. ex Kitam. and its phylogenetic inference |
| title_full_unstemmed | The complete chloroplast genome of Atractylodes japonica Koidz. ex Kitam. and its phylogenetic inference |
| title_short | The complete chloroplast genome of Atractylodes japonica Koidz. ex Kitam. and its phylogenetic inference |
| title_sort | complete chloroplast genome of atractylodes japonica koidz ex kitam and its phylogenetic inference |
| topic | atractylodes japonica chloroplast genome phylogenetic relationship asteraceae maximum likelihood |
| url | http://dx.doi.org/10.1080/23802359.2021.1927217 |
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