Korean Journal of Plant Taxonomy (식물분류학회지)

The Korean Society of Plant Taxonomists (한국식물분류학회)
권호 표지
DOI QR코드

DOI QR Code

Phylogenetic analysis of Neottia japonica (Orchidaceae) based on ITS and matK regions

  • SO, Ji-Hyeon (Interdisciplinary Program of EcoCreative, Ewha Womans University) ;
  • LEE, Nam-Sook (Department of Life Science, College of Natural Science, Ewha Womans University)
  • Received : 2020.09.07
  • Accepted : 2020.12.22
  • Published : 2020.12.31
Download PDF
⟨ Previous Next ⟩

Abstract

To elucidate the molecular phylogeny of Neottia japonica, which is a terrestrial orchid distributed in East Asia, the internal transcribed spacer (ITS) of nuclear DNA and the matK of chloroplast DNA were used. A total 22 species of 69 accessions for ITS and 21 species of 114 accessions for matK phylogeny were analyzed with the maximum parsimony and Bayesian methods. In addition, we sought to establish a correlation between the distribution, morphology of the auricles and genetic association of N. japonica with phylogenetic data. The phylogenetic results suggest that N. japonica is monophyletic and a sister to N. suzukii in terms of the ITS phylogeny, while it is paraphyletic with N. suzukii in terms of the matK phylogeny. N. japonica and N. suzukii show similar morphologies of the lip and column, they both flower in April, and they are both distributed sympatrically in Taiwan. Therefore, it appears to be clear that N. japonica and N. suzukii are close taxa within Neottia, although there is incongruence between the nrDNA and cpDNA phylogenies of N. japonica. The incongruence between the two datasets may have various causes, meaning that further studies are needed to confirm the evolutionary process of N. japonica. The phylogenetic status of N. kiusiana, which was not included in previous studies, was as a sister to N. nidus-avis. Meanwhile, the ITS and matK phylogenies are unsuitable for identifying genetic associations with the characteristic of auricles. The phylogenetic topologies of Korean, Taiwanese and mainland Chinese individuals suggest that the populations of N. japonica in Korea originated from China's mainland and island areas. The characterization of regional gene differences could provide useful preliminary data for future studies.

Keywords

References

  1. Bateman, R. M., P. M. Hollingsworth, J. Squirrel and M. Hollingsworth. 2005. Tribe Neottieae. In Genera Orchidacearum, Vol. 4. Epidendroideae, Pt. 1. Pridgeon, A., P. J. Cribb, M. W. Chase and F. N. Rasmussen (eds.), Oxford University Press, Oxford. Pp. 487-515.
  2. Bentham, G. 1881. Notes on Orchideae. Journal of the Linnean Society of London, Botany 18: 281-360. https://doi.org/10.1111/j.1095-8339.1881.tb01258.x
  3. Brieger, F. G. 1974. Unterfamilie: Neottioideae. In Rudolf Schlechter. Die Orchideen; ihre Beschreibung, Kultur und Ziichtung. 3. Auflage. Brieger, F. G., R. Hfaatsch and K. Senghas (eds.), Paul Parey, Berlin. Pp. 284-358.
  4. Cameron, K. M., M. W. Chase, W. M. Whitten, P. J. Kores, D. C. Jarrell, V. A. Albert, T. Yukawa, H. G. Hills and D. H. Goldman. 1999. A phylogenetic analysis of the Orchidaceae: evidence from rbcL nucleotide. American Journal of Botany 86: 208-224. https://doi.org/10.2307/2656938
  5. Catling, P. M. 1976. On the Geographical distribution, ecology and distinctive features of Listera × veltmanii case. New England Botanical Club, Inc. 78:261-269.
  6. Chase, M. W., Cameron, K. M., Barrett, R. L., & Freudenstein, J. V. 2003. DNA data and Orchidaceae systematics: a new phylogenetic classification. Orchid Conservation 69: 32.
  7. Chen, S. C., S. W. Gale and P. J. Cribb. 2009. Neottia. In Flora of China, Vol. 25. Orchidaceae. Wu, Z. Y., P. H. Raven and D. Y. Hong (eds.), Science Press, Beijing and Missouri Botanical Garden Press, St. Louis, MO. Pp. 184-195.
  8. Dressler, R. L. 1981. The Orchids: Natural History and Classification. Harvard University Press, Cambridge, 332 pp.
  9. Dressler, R. L. 1993. Phylogeny and Classification of the Orchid Family. Dioscorides Press, Portland, OR, 330 pp.
  10. Edgar, R. C. 2004. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research 32: 1792-1797. https://doi.org/10.1093/nar/gkh340
  11. Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783-791. https://doi.org/10.2307/2408678
  12. Feng, Y.-L., S. Wicke, J.-W. Li, Y. Han, C.-S. Lin, Li, D.-Z. Li, T.-T. Zhou, W.-C. Huang and X.-H. Jin. 2016. Lineage-specific reductions of plastid genomes in an orchid tribe with partially and fully mycoheterotrophic species. Genome Biology and Evolution 8: 2164-2175. https://doi.org/10.1093/gbe/evw144
  13. Hidayat, T., T. Yukawa and M. Ito. 2005. Molecular phylogenetics of subtribe Aeridinae (Orchidaceae): insights from plastid matK and nuclear ribosomal ITS sequences. Journal of Plant Research 118: 271-284. https://doi.org/10.1007/s10265-005-0217-3
  14. Lee, N. S. 2011. Illustrated Flora of Korean Orchids. Ewha Womans University Press, Seoul. Pp. 290-299. (in Korean)
  15. Liu, R. L., Z. H. Mei, F. Y. Zhang, W. Y. Xie and F. Chen. 2014. Listera: a newly recorded genus of Orchidaceae from Zhejiang Province. Subtropical Plant Science 43: 236-237.
  16. Nishimoto, Y., O. Ohnishi and M. Hasegawa. 2003. Topological incongruence between nuclear and chloroplast DNA trees suggesting hybridization in the urophyllum group of the genus Fagopyrum (Polygonaceae). Genes and Genetic Systems 78: 139-153. https://doi.org/10.1266/ggs.78.139
  17. Ohashi, H. 2015.Orchidaceae. In Wild Flowers of Japan, Vol. 1. Cycadaceae-Cyperaceae. Ohhashi, H., Y. Kadota, H. Murata, K. Yonekura and H. Kihara (eds.), Heibonsha, Tokyo. Pp. 178-231. (In Japanese)
  18. Pelser, P. B., A. H. Kennedy, E. J. Tepe, J. B. Shidler, B. Nordenstam, J. W. Kadereit and L. E. Watson 2010. Patterns and causes of incongruence between plastid and nuclear Senecioneae (Asteraceae) phylogenies. American Journal of Botany 97: 856-873. https://doi.org/10.3732/ajb.0900287
  19. Pfitzer, E. H. H. 1887. Entwurf einer naturlichen Anordnung der Orchideen. Winter's Universitatsbuchhandlung, Heidelberg, 108 pp.
  20. Pridgeon, A. M., Cribb, P. J., Chase, M. W. and Rasmussen, F. N. 2005. Genera orchidacearum, 4. Oxford University Press, Oxford, 672 pp.
  21. Rambaut, A. 2016. FigTree ver. 1.4.4. Retrieved Oct. 15, 2019, available from http://tree.bio.ed.ac.uk/software/figtree/.
  22. Rasmussen F. N. 1982. The gynostemium of the neottioid orchids. Opera Botanica 65: 1-96.
  23. Schlechter, R. 1926. Das System der Orchidaceen. Notizblatt des Botanischen Gartens und Museums zu Berlin?Dahlem 9: 563-591. https://doi.org/10.2307/3994326
  24. So, J. H., M. S. Chung, Y. S. Chung and N. S. Lee. 2013. First record of Neottia japonica (Orchidaceae) from Korea. Korean Journal of Plant Taxonomy, 43: 161-164. https://doi.org/10.11110/kjpt.2013.43.3.161
  25. Su, H. J. 2000. Orchidaceae. In Flora of Taiwan. 2nd ed. Vol. 5. Hu, C. Y. (ed.), Editorial Committee of the Flora of Taiwan, Taipei. Pp. 952-953.
  26. Sun, Y., H. Yang, Q. Zhang, L. Qin, P. Li, J. Lee, S. Chen, K. Rahman, T. Kang and M. Jia. 2019. Genetic diversity and its conservation implications of Vitex rotundifolia (Lamiaceae) populations in East Asia. PeerJ 7: e6194. https://doi.org/10.7717/peerj.6194
  27. Xiang, X.-G., D.-Z. Li, W.-T. Jin, H.-L., Zhou, J.-W. Li and X.-H. Jin. 2012. Phylogenetic placement of the enigmatic orchid genera Thaia and Tangtsinia: evidence from molecular and morphological characters. Taxon 61: 45-54. https://doi.org/10.1002/tax.611003
  28. Xie, X.-F., H.-F. Yan, F.-Y. Wang, X.-J. Ge, C.-M. Hu and G. Hao 2012. Chloroplast DNA phylogeography of Primula ovalifolia in central and adjacent southwestern China: past gradual expansion and geographical isolation. Journal of Systematics and Evolution 50: 284-294. https://doi.org/10.1111/j.1759-6831.2012.00204.x
  29. Yu, X.-L. and J.-F. Xiang. 2009. A new record of Listerafrom Mainland China-Listera japonica. Journal of Wuhan Botanical Research 27: 489-490. https://doi.org/10.3969/j.issn.2095-0837.2009.05.006
  30. White, T. J., T. Bruns, S. Lee and J. Taylor. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In PCR Protocols: A Guide to Methods and Applications. Innis, M. A., D. H. Gelfand, J. J. Sninsky and T. J. White (eds.), Academic Press, San Diego, CA. Pp. 315-322.
  31. Zhou, T. and X.-H. Jin. 2018. Molecular systematics and the evolution of mycoheterotrophy of tribe Neottieae (Orchidaceae, Epidendroideae). PhytoKeys 94: 39-49. https://doi.org/10.3897/phytokeys.94.21346
  32. Zhu, Z.-X., J.-H. Wang, S. Sakaguchi, K.-K. Zhao, M. J. Moore and H.-F. Wang. 2019. Complete plastome sequences of two Neottia species and comparative analysis with other Neottieae species (Orchidaceae). Folia Geobotanica 54: 257-266. https://doi.org/10.1007/s12224-019-09356-1
  33. Zou, C. Y., Y. Qin, S. W. Li and T. Meng. 2018. Six new records of Orchidaceae from Guangxi. Guihaia 38: 1106-1110.