A High-Quality Genome Assembly of the Mitochondrial Genome of the Oil-Tea Tree <i>Camellia gigantocarpa</i> (Theaceae)
<i>Camellia gigantocarpa</i> is one of the oil-tea trees whose seeds can be used to extract high-quality vegetable oil. To date, there are no data on the mitochondrial genome of the oil-tea tree, in contrast to the tea-tree <i>C. sinensis</i>, which belongs to the same genus....
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MDPI AG
2022-10-01
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| Online Access: | https://www.mdpi.com/1424-2818/14/10/850 |
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| author | Cui Lu Li-Zhi Gao Qun-Jie Zhang |
| author_facet | Cui Lu Li-Zhi Gao Qun-Jie Zhang |
| author_sort | Cui Lu |
| collection | DOAJ |
| description | <i>Camellia gigantocarpa</i> is one of the oil-tea trees whose seeds can be used to extract high-quality vegetable oil. To date, there are no data on the mitochondrial genome of the oil-tea tree, in contrast to the tea-tree <i>C. sinensis</i>, which belongs to the same genus. In this paper, we present the first complete mitochondrial genomes of <i>C. gigantocarpa</i> obtained using PacBio Hi-Fi (high-fidelity) and Hi-C sequencing technologies to anchor the 970,410 bp genome assembly into a single sequence. A set of 44 protein-coding genes, 22 non-coding genes, 746 simple sequence repeats (SSRs), and more than 201 kb of repetitive sequences were annotated in the genome assembly. The high percentage of repetitive sequences in the mitochondrial genome of <i>C. gigantocarpa</i> (20.81%) and <i>C.</i><i>sinensis</i> (22.15%, tea tree) compared to <i>Arabidopsis thaliana</i> (4.96%) significantly increased the mitogenome size in the genus <i>Camellia</i>. The comparison of the mitochondrial genomes between <i>C. gigantocarpa</i> and <i>C</i><i>. sinensis</i> revealed genes exhibit high variance in gene order and low substitution rate within the genus <i>Camellia</i>. Information on the mitochondrial genome provides a better understanding of the structure and evolution of the genome in <i>Camellia</i> and may contribute to further study of the after-ripening process of oil-tea trees. |
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| issn | 1424-2818 |
| language | English |
| last_indexed | 2024-03-09T20:21:01Z |
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| spelling | doaj.art-106d117ed1f44620a3e19a850785c1032023-11-23T23:48:48ZengMDPI AGDiversity1424-28182022-10-01141085010.3390/d14100850A High-Quality Genome Assembly of the Mitochondrial Genome of the Oil-Tea Tree <i>Camellia gigantocarpa</i> (Theaceae)Cui Lu0Li-Zhi Gao1Qun-Jie Zhang2Institution of Genomics and Bioinformatics, South China Agricultural University, Guangzhou 510642, ChinaInstitution of Genomics and Bioinformatics, South China Agricultural University, Guangzhou 510642, ChinaInstitution of Genomics and Bioinformatics, South China Agricultural University, Guangzhou 510642, China<i>Camellia gigantocarpa</i> is one of the oil-tea trees whose seeds can be used to extract high-quality vegetable oil. To date, there are no data on the mitochondrial genome of the oil-tea tree, in contrast to the tea-tree <i>C. sinensis</i>, which belongs to the same genus. In this paper, we present the first complete mitochondrial genomes of <i>C. gigantocarpa</i> obtained using PacBio Hi-Fi (high-fidelity) and Hi-C sequencing technologies to anchor the 970,410 bp genome assembly into a single sequence. A set of 44 protein-coding genes, 22 non-coding genes, 746 simple sequence repeats (SSRs), and more than 201 kb of repetitive sequences were annotated in the genome assembly. The high percentage of repetitive sequences in the mitochondrial genome of <i>C. gigantocarpa</i> (20.81%) and <i>C.</i><i>sinensis</i> (22.15%, tea tree) compared to <i>Arabidopsis thaliana</i> (4.96%) significantly increased the mitogenome size in the genus <i>Camellia</i>. The comparison of the mitochondrial genomes between <i>C. gigantocarpa</i> and <i>C</i><i>. sinensis</i> revealed genes exhibit high variance in gene order and low substitution rate within the genus <i>Camellia</i>. Information on the mitochondrial genome provides a better understanding of the structure and evolution of the genome in <i>Camellia</i> and may contribute to further study of the after-ripening process of oil-tea trees.https://www.mdpi.com/1424-2818/14/10/850mitochondrial genome<i>Camellia</i><i>Camellia gigantocarpa</i>PacBio Hi-Fi |
| spellingShingle | Cui Lu Li-Zhi Gao Qun-Jie Zhang A High-Quality Genome Assembly of the Mitochondrial Genome of the Oil-Tea Tree <i>Camellia gigantocarpa</i> (Theaceae) Diversity mitochondrial genome <i>Camellia</i> <i>Camellia gigantocarpa</i> PacBio Hi-Fi |
| title | A High-Quality Genome Assembly of the Mitochondrial Genome of the Oil-Tea Tree <i>Camellia gigantocarpa</i> (Theaceae) |
| title_full | A High-Quality Genome Assembly of the Mitochondrial Genome of the Oil-Tea Tree <i>Camellia gigantocarpa</i> (Theaceae) |
| title_fullStr | A High-Quality Genome Assembly of the Mitochondrial Genome of the Oil-Tea Tree <i>Camellia gigantocarpa</i> (Theaceae) |
| title_full_unstemmed | A High-Quality Genome Assembly of the Mitochondrial Genome of the Oil-Tea Tree <i>Camellia gigantocarpa</i> (Theaceae) |
| title_short | A High-Quality Genome Assembly of the Mitochondrial Genome of the Oil-Tea Tree <i>Camellia gigantocarpa</i> (Theaceae) |
| title_sort | high quality genome assembly of the mitochondrial genome of the oil tea tree i camellia gigantocarpa i theaceae |
| topic | mitochondrial genome <i>Camellia</i> <i>Camellia gigantocarpa</i> PacBio Hi-Fi |
| url | https://www.mdpi.com/1424-2818/14/10/850 |
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