Characterization of the Complete Mitochondrial Genome of Wintersweet (<i>Chimonanthus praecox</i>) and Comparative Analysis within Magnoliids
Mitochondrial genome sequencing is a valuable tool for investigating mitogenome evolution, species phylogeny, and population genetics. <i>Chimonanthus praecox</i> (L.) Link, also known as “La Mei” in Chinese, is a famous ornamental and medical shrub belonging to the order Laurales of the...
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MDPI AG
2024-01-01
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| Series: | Life |
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| Online Access: | https://www.mdpi.com/2075-1729/14/2/182 |
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| author | Xianxian Yu Yanlei Feng Jie Zhang |
| author_facet | Xianxian Yu Yanlei Feng Jie Zhang |
| author_sort | Xianxian Yu |
| collection | DOAJ |
| description | Mitochondrial genome sequencing is a valuable tool for investigating mitogenome evolution, species phylogeny, and population genetics. <i>Chimonanthus praecox</i> (L.) Link, also known as “La Mei” in Chinese, is a famous ornamental and medical shrub belonging to the order Laurales of the Calycanthaceae family. Although the nuclear genomes and chloroplast genomes of certain Laurales representatives, such as <i>Lindera glauca</i>, <i>Laurus nobilis</i>, and <i>Piper nigrum</i>, have been sequenced, the mitochondrial genome of Laurales members remains unknown. Here, we reported the first complete mitogenome of <i>C. praecox</i>. The mitogenome was 972,347 bp in length and comprised 60 unique coding genes, including 40 protein-coding genes (PCGs), 17 tRNA genes, and three rRNA genes. The skewness of the PCGs showed that the AT skew (−0.0096233) was negative, while the GC skew (0.031656) was positive, indicating higher contents of T’s and G’s in the mitochondrial genome of <i>C. praecox</i>. The Ka/Ks ratio analysis showed that the Ka/Ks values of most genes were less than one, suggesting that these genes were under purifying selection. Furthermore, there is a substantial abundance of dispersed repeats in <i>C. praecox</i>, constituting 16.98% of the total mitochondrial genome. A total of 731 SSR repeats were identified in the mitogenome, the highest number among the eleven available magnoliids mitogenomes. The mitochondrial phylogenetic analysis based on 29 conserved PCGs placed the <i>C. praecox</i> in Lauraceae, and supported the sister relationship of Laurales with Magnoliales, which was congruent with the nuclear genome evidence. The present study enriches the mitogenome data of <i>C. praecox</i> and promotes further studies on phylogeny and plastid evolution. |
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| language | English |
| last_indexed | 2024-03-07T22:25:08Z |
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| series | Life |
| spelling | doaj.art-d358048cb3154370af3c75de47f3a86a2024-02-23T15:24:33ZengMDPI AGLife2075-17292024-01-0114218210.3390/life14020182Characterization of the Complete Mitochondrial Genome of Wintersweet (<i>Chimonanthus praecox</i>) and Comparative Analysis within MagnoliidsXianxian Yu0Yanlei Feng1Jie Zhang2College of Urban and Environmental Sciences, Xuchang University, Xuchang 461000, ChinaHangzhou Global Scientific and Technological Innovation Center, Zhejiang University, Hangzhou 311200, ChinaLushan Botanical Garden, Chinese Academy of Sciences, Jiujiang 332900, ChinaMitochondrial genome sequencing is a valuable tool for investigating mitogenome evolution, species phylogeny, and population genetics. <i>Chimonanthus praecox</i> (L.) Link, also known as “La Mei” in Chinese, is a famous ornamental and medical shrub belonging to the order Laurales of the Calycanthaceae family. Although the nuclear genomes and chloroplast genomes of certain Laurales representatives, such as <i>Lindera glauca</i>, <i>Laurus nobilis</i>, and <i>Piper nigrum</i>, have been sequenced, the mitochondrial genome of Laurales members remains unknown. Here, we reported the first complete mitogenome of <i>C. praecox</i>. The mitogenome was 972,347 bp in length and comprised 60 unique coding genes, including 40 protein-coding genes (PCGs), 17 tRNA genes, and three rRNA genes. The skewness of the PCGs showed that the AT skew (−0.0096233) was negative, while the GC skew (0.031656) was positive, indicating higher contents of T’s and G’s in the mitochondrial genome of <i>C. praecox</i>. The Ka/Ks ratio analysis showed that the Ka/Ks values of most genes were less than one, suggesting that these genes were under purifying selection. Furthermore, there is a substantial abundance of dispersed repeats in <i>C. praecox</i>, constituting 16.98% of the total mitochondrial genome. A total of 731 SSR repeats were identified in the mitogenome, the highest number among the eleven available magnoliids mitogenomes. The mitochondrial phylogenetic analysis based on 29 conserved PCGs placed the <i>C. praecox</i> in Lauraceae, and supported the sister relationship of Laurales with Magnoliales, which was congruent with the nuclear genome evidence. The present study enriches the mitogenome data of <i>C. praecox</i> and promotes further studies on phylogeny and plastid evolution.https://www.mdpi.com/2075-1729/14/2/182mitogenome<i>Chimonanthus praecox</i>magnoliidscomparative analysis |
| spellingShingle | Xianxian Yu Yanlei Feng Jie Zhang Characterization of the Complete Mitochondrial Genome of Wintersweet (<i>Chimonanthus praecox</i>) and Comparative Analysis within Magnoliids Life mitogenome <i>Chimonanthus praecox</i> magnoliids comparative analysis |
| title | Characterization of the Complete Mitochondrial Genome of Wintersweet (<i>Chimonanthus praecox</i>) and Comparative Analysis within Magnoliids |
| title_full | Characterization of the Complete Mitochondrial Genome of Wintersweet (<i>Chimonanthus praecox</i>) and Comparative Analysis within Magnoliids |
| title_fullStr | Characterization of the Complete Mitochondrial Genome of Wintersweet (<i>Chimonanthus praecox</i>) and Comparative Analysis within Magnoliids |
| title_full_unstemmed | Characterization of the Complete Mitochondrial Genome of Wintersweet (<i>Chimonanthus praecox</i>) and Comparative Analysis within Magnoliids |
| title_short | Characterization of the Complete Mitochondrial Genome of Wintersweet (<i>Chimonanthus praecox</i>) and Comparative Analysis within Magnoliids |
| title_sort | characterization of the complete mitochondrial genome of wintersweet i chimonanthus praecox i and comparative analysis within magnoliids |
| topic | mitogenome <i>Chimonanthus praecox</i> magnoliids comparative analysis |
| url | https://www.mdpi.com/2075-1729/14/2/182 |
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