Abstract
The complete chloroplast genome sequence of Korean Cymbidium goeringii acc. smg222 was analyzed. Based on a comparison with Chinese C. goeringii, losses of nine ndh subunits (ndhA, ndhB, ndhC, ndhD, ndhE, ndhF, ndhH, ndhJ, and ndhK), three protein-coding genes (ycf 1-like, ycf 15, and ycf 68), six transfer RNAs, and one conserved open reading frame (orf 42). In addition, 219 InDels (insertion or deletion) and 171 simple sequence repeats were observed. Twenty-Five of which InDel markers have been evaluated, that useful for distinguishing Korean and Chinese Cymbidium associations based on the polymorphisms of chloroplast genomes between Korean Cymbidium goeringii acc. smg222 and Chinese C. goeringii and evaluation of genetic diversity. Finally, the phylogenetic relationships of the 39 Korean and 22 Chinese species was constructed based on the five InDel markers of them and obtained high support, indicating that our data may be useful in resolving relationships in this genus. The information about chloroplast DNA structure and gene variants of C. goeringii acc. smg222 chloroplast genome will provide sufficient phylogenetic information for resolving evolutionary relationships. The molecular markers developed in here will contribute to further research of Cymbidium species and conservation of endemic Cymbidium species.
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Acknowledgements
Korea Institute of Planning and Evaluation for Technology in Food, Agriculture, Forestry and Fisheries (IPET) provided this research through Technology Commercialization Support Program. The finance was contributed by Ministry of Agriculture, Food and Rural Affairs (MAFRA) (815004–03).
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This work was supported by grants from Ministry of Agriculture, Food and Rural Affairs of Korea (MAFRA).
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HW, SYP and SWK developed ideas, designed and performed all experiments, and wrote the manuscript. YCK and DYK produced all cymbidium materials. THH, JL, and TSK analyzed the sequencing dates. SHS and SML analyzed the InDel markers for experiments. All authors read and approved the final manuscript.
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The complete chloroplast genome sequence of C. goeringii acc. smg222 has been deposited at GenBank under the accession number MF421552.
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Wang, H., Park, SY., Song, SH. et al. Analysis of complete chloroplast genome sequence of Korean landrace Cymbidium goeringii. 3 Biotech 10, 29 (2020). https://doi.org/10.1007/s13205-019-2020-1
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DOI: https://doi.org/10.1007/s13205-019-2020-1