Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2021 Nov 2;11(1):21452.
doi: 10.1038/s41598-021-01040-9.

A complete sequence of mitochondrial genome of Neolamarckia cadamba and its use for systematic analysis

Xi Wang  1   2 , Ling-Ling Li  1   2 , Yu Xiao  1   2 , Xiao-Yang Chen  1   2 , Jie-Hu Chen  3 , Xin-Sheng Hu  4   5
Affiliations

A complete sequence of mitochondrial genome of Neolamarckia cadamba and its use for systematic analysis

Xi Wang et al. Sci Rep. .

Abstract

Neolamarckia cadamba is an important tropical and subtropical tree for timber industry in southern China and is also a medicinal plant because of the secondary product cadambine. N. cadamba belongs to Rubiaceae family and its taxonomic relationships with other species are not fully evaluated based on genome sequences. Here, we report the complete sequences of mitochondrial genome of N. cadamba, which is 414,980 bp in length and successfully assembled in two genome circles (109,836 bp and 305,144 bp). The mtDNA harbors 83 genes in total, including 40 protein-coding genes (PCGs), 31 transfer RNA genes, 6 ribosomal RNA genes, and 6 other genes. The base composition of the whole genome is estimated as 27.26% for base A, 22.63% for C, 22.53% for G, and 27.56% for T, with the A + T content of 54.82% (54.45% in the small circle and 54.79% in the large circle). Repetitive sequences account for ~ 0.14% of the whole genome. A maximum likelihood (ML) tree based on DNA sequences of 24 PCGs supports that N. cadamba belongs to order Gentianales. A ML tree based on rps3 gene of 60 species in family Rubiaceae shows that N. cadamba is more related to Cephalanthus accidentalis and Hymenodictyon parvifolium and belongs to the Cinchonoideae subfamily. The result indicates that N. cadamba is genetically distant from the species and genera of Rubiaceae in systematic position. As the first sequence of mitochondrial genome of N. cadamba, it will provide a useful resource to investigate genetic variation and develop molecular markers for genetic breeding in the future.

PubMed Disclaimer

Conflict of interest statement

The authors declare no competing interests.

Figures

Figure 1
Figure 1
Two circular maps of the mitochondrial genome of Neolamarckia cadamba.
Figure 2
Figure 2
Amino acid frequency and RSCU value of protein-coding genes in mitochondrial genome of Neolamarckia cadamba.
Figure 3
Figure 3
Maximum likelihood tree based on the sequences of 24 PCGs from the mitochondrial genomes of 23 species. The values on branch nodes represent the supporting rates (percentages) derived from 1000 bootstrapping analyses.
Figure 4
Figure 4
The tree of Neolamarckia cadamba from which young leaves were sampled for mtDNA sequencing. The tree grows on campus of South China Agricultural University (23°16′N 113°35′E), Guangzhou, China. It is about 14.5 m in height and 49.04 cm in diameter at the breast height in eleven years.
See this image and copyright information in PMC

References

    1. Lo, H.S., Ko, W.C., Chen, W.C., Hsue, H.H. & Wu, H. Flora Reipublicae Popularis Sinicae: Tomus 71(1): Angiospermae Dictotyledoneae, Rubiaceae (1), 260–261. (Science Press, Beijing, 1999) (in Chinese).
    1. Mojiol, AR, Lintangah, W, Maid, M. & Julius, K, Neolamarckia cadamba (Roxb.) Bosser, 1984, 1–12 (2014).
    1. Ho, W.S., et al. Applications of genomics to plantation forestry with kelampayan in Sarawak in Sustaining Tropical Natural Resources Through Innovations, Technologies and Practices (eds. Wasli, M.E., et al.). 4th Regional Conference on Natural Resources in the Tropics, 103–111. (Universiti Malaysia Sarawak, 2012).
    1. Pandey A, Chauhan AS, Haware DJ, Negi PS. Proximate and mineral composition of Kadamba (Neolamarckia cadamba) fruit and its use in the development of nutraceutical enriched beverage. J. Food Sci. Technol. 2018;55(10):4330–4336. doi: 10.1007/s13197-018-3382-9. - DOI - PMC - PubMed
    1. He L, Zhou W, Wang Y, Wang C, Chen X, Zhang Q. Effect of applying lactic acid bacteria and cellulase on the fermentation quality, nutritive value, tannins profile and in vitro digestibility of Neolamarckia cadamba leaves silage. J. Anim. Physiol. Anim. Nutr. 2018;102:1429–1436. doi: 10.1111/jpn.12965. - DOI - PubMed

Publication types