Complete Mitochondrial Genome Sequence, Characteristics, and Phylogenetic Analysis of <i>Oenanthe javanica</i>
The plant mitochondria play a crucial role in various cellular energy synthesis and conversion processes and are essential for plant growth. Watercress (<i>Oenanthe javanica</i>) is a fast-growing vegetable with strong adaptability and wide cultivation range, and it possesses high nutrit...
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| Format: | Article |
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MDPI AG
2023-08-01
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| Series: | Agronomy |
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| Online Access: | https://www.mdpi.com/2073-4395/13/8/2103 |
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| author | Xiaoyan Li Qiuju Han Mengyao Li Qing Luo Shunhua Zhu Yangxia Zheng Guofei Tan |
| author_facet | Xiaoyan Li Qiuju Han Mengyao Li Qing Luo Shunhua Zhu Yangxia Zheng Guofei Tan |
| author_sort | Xiaoyan Li |
| collection | DOAJ |
| description | The plant mitochondria play a crucial role in various cellular energy synthesis and conversion processes and are essential for plant growth. Watercress (<i>Oenanthe javanica</i>) is a fast-growing vegetable with strong adaptability and wide cultivation range, and it possesses high nutritional value. In our study, we assembled the <i>O. javanica</i> mitochondrial genome using the Illumina and Nanopore sequencing platforms. The results revealed that the mitochondrial genome map of watercress has a circular structure of 384,074 bp, containing 28 tRNA genes, 3 rRNA genes, and 34 protein-coding genes. A total of 87 SSR (simple sequence repeat) loci were detected, with 99% composed of palindrome repeats and forward repeats, while no complementary repeats were identified. Codon preference analysis indicated that watercress prefers to use codons encoding leucine, isoleucine, and serine with a preference for A/U-ending codons. Phylogenetic analysis showed that watercress is closely related to species of <i>Bupleurum</i>, <i>Apium</i>, <i>Angelica</i>, and <i>Daucus</i>, with the closest evolutionary relationship observed with <i>Saposhnikovia divaricata</i> and <i>Apium graveolens</i>. This study provides a valuable resource for the study of the evolution and molecular breeding of watercress. |
| first_indexed | 2024-03-11T00:11:08Z |
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| id | doaj.art-0764812a404a4d4f8c7d7b80a3affe18 |
| institution | Directory Open Access Journal |
| issn | 2073-4395 |
| language | English |
| last_indexed | 2024-03-11T00:11:08Z |
| publishDate | 2023-08-01 |
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| record_format | Article |
| series | Agronomy |
| spelling | doaj.art-0764812a404a4d4f8c7d7b80a3affe182023-11-18T23:55:02ZengMDPI AGAgronomy2073-43952023-08-01138210310.3390/agronomy13082103Complete Mitochondrial Genome Sequence, Characteristics, and Phylogenetic Analysis of <i>Oenanthe javanica</i>Xiaoyan Li0Qiuju Han1Mengyao Li2Qing Luo3Shunhua Zhu4Yangxia Zheng5Guofei Tan6College of Horticulture, Sichuan Agricultural University, Chengdu 611130, ChinaCollege of Horticulture, Sichuan Agricultural University, Chengdu 611130, ChinaCollege of Horticulture, Sichuan Agricultural University, Chengdu 611130, ChinaCollege of Horticulture, Sichuan Agricultural University, Chengdu 611130, ChinaInstitute of Horticulture, Guizhou Academy of Agricultural Sciences, Guiyang 550006, ChinaCollege of Horticulture, Sichuan Agricultural University, Chengdu 611130, ChinaInstitute of Horticulture, Guizhou Academy of Agricultural Sciences, Guiyang 550006, ChinaThe plant mitochondria play a crucial role in various cellular energy synthesis and conversion processes and are essential for plant growth. Watercress (<i>Oenanthe javanica</i>) is a fast-growing vegetable with strong adaptability and wide cultivation range, and it possesses high nutritional value. In our study, we assembled the <i>O. javanica</i> mitochondrial genome using the Illumina and Nanopore sequencing platforms. The results revealed that the mitochondrial genome map of watercress has a circular structure of 384,074 bp, containing 28 tRNA genes, 3 rRNA genes, and 34 protein-coding genes. A total of 87 SSR (simple sequence repeat) loci were detected, with 99% composed of palindrome repeats and forward repeats, while no complementary repeats were identified. Codon preference analysis indicated that watercress prefers to use codons encoding leucine, isoleucine, and serine with a preference for A/U-ending codons. Phylogenetic analysis showed that watercress is closely related to species of <i>Bupleurum</i>, <i>Apium</i>, <i>Angelica</i>, and <i>Daucus</i>, with the closest evolutionary relationship observed with <i>Saposhnikovia divaricata</i> and <i>Apium graveolens</i>. This study provides a valuable resource for the study of the evolution and molecular breeding of watercress.https://www.mdpi.com/2073-4395/13/8/2103watercressmitochondrial genomerepetitive sequencephylogenetic analysis |
| spellingShingle | Xiaoyan Li Qiuju Han Mengyao Li Qing Luo Shunhua Zhu Yangxia Zheng Guofei Tan Complete Mitochondrial Genome Sequence, Characteristics, and Phylogenetic Analysis of <i>Oenanthe javanica</i> Agronomy watercress mitochondrial genome repetitive sequence phylogenetic analysis |
| title | Complete Mitochondrial Genome Sequence, Characteristics, and Phylogenetic Analysis of <i>Oenanthe javanica</i> |
| title_full | Complete Mitochondrial Genome Sequence, Characteristics, and Phylogenetic Analysis of <i>Oenanthe javanica</i> |
| title_fullStr | Complete Mitochondrial Genome Sequence, Characteristics, and Phylogenetic Analysis of <i>Oenanthe javanica</i> |
| title_full_unstemmed | Complete Mitochondrial Genome Sequence, Characteristics, and Phylogenetic Analysis of <i>Oenanthe javanica</i> |
| title_short | Complete Mitochondrial Genome Sequence, Characteristics, and Phylogenetic Analysis of <i>Oenanthe javanica</i> |
| title_sort | complete mitochondrial genome sequence characteristics and phylogenetic analysis of i oenanthe javanica i |
| topic | watercress mitochondrial genome repetitive sequence phylogenetic analysis |
| url | https://www.mdpi.com/2073-4395/13/8/2103 |
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