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Phylogenetic study of the Genus Suaeda(Chenopodiaceae) based on chloroplast and nuclear DNA sequences from Korea

엽록체 DNA 및 핵 DNA 염기서열에 근거한 한국산 나문재속(명아주과)의 분류학적 연구

  • Kim, Suk-Kyu (Tidal Flat Research Center-National Institute of Fisheries Science) ;
  • Chung, Sang Ok (Tidal Flat Research Center-National Institute of Fisheries Science)
  • 김석규 (국립수산과학원 서해수산연구소 갯벌연구센터) ;
  • 정상옥 (국립수산과학원 서해수산연구소 갯벌연구센터)
  • Received : 2018.10.01
  • Accepted : 2018.11.05
  • Published : 2018.12.31

Abstract

The purpose of this study was to identify the phylogenetic relationships of the plants in the Korean genus Suaeda and to find out the molecular markers that could confirm the interspecies relationships in the family tree through molecular phylogenetic studies. We used the nuclear ribosomal DNA ITS and the chloroplast DNA matK, psbA-trnH, and trnL-trnF as the molecular markers. We could not distinguish between S. japonica and S. maritima and between S. maritima and S. australis in the ITS region and could not distinguish between S. japonica and S. australis with the base sequence in the psbA-trnH and trnL-trnF region. However, we analyzed the combinations of four molecular marker regions and confirmed that each of five plant species of the genus Suaeda formed the independent line. Therefore, it is considered that combinations of molecular markers would be useful for the analysis of phylogenetic relationships in the genus Suaeda. Further investigations of the ecological and morphological characteristics would be needed to understand the phylogenetic relationship and lineage diversification in the genus Suaeda.

한국산 나문재속 식물에 대한 계통학적 유연관계를 밝히고, 분자계통학적 연구를 통해 나문재속 종간 유연관계를 확인할 수 있는 분자마커를 찾아내기 위해 연구를 수행하였다. 핵 리보솜 DNA ITS와 엽록체 DNA matK, psbA-trnH 그리고 trnL-trnF를 분자마커로 사용하였다. ITS 영역은 칠면초와 해홍나물 그리고 해홍나물과 방석나물을 구분하지 못하였다. psbA-trnH와 trnL-trnF 영역의 염기서열은 칠면초와 방석나물을 구분하지 못하였다. 그러나 4종의 분자마커 영역을 조합하여 분석한 결과 나문재속 식물 5종이 각각 독립적인 계통을 형성하는 것을 확인하였다. 따라서 나문재속 계통관계 분석을 위해서 여러 개의 분자마커 조합이 유용할 것으로 판단된다. 나문재속 내 분류군 간의 계통관계를 명확히 밝히기 위해 차후에 좀 더 많은 생태학적, 형태학적 자료를 조사해야 할 것으로 보인다.

Keywords

References

  1. Alvarado, R.E. and H. Flores-Olvera(2013) Suaeda pulvinata (Chenopodiaceae), a new species from saline lakes of central Mexico. Willdenowia 43: 309-314. https://doi.org/10.3372/wi.43.43211
  2. Brandt, R., M. Lomonosova, K. Weising, N. Wagner and H. Freitag(2015) Phylogeny and biogeography of Suaeda subg. Brezia Chenopodiaceae/Amaranthaceae) in the Americas. Plant System Evolution 301: 2351-2375. https://doi.org/10.1007/s00606-015-1233-y
  3. CBOL Plant Working Group(2009) A DNA barcode for land plants. Proc Natl Acad Sci USA 106:12794.12797. https://doi.org/10.1073/pnas.0905845106
  4. China Plant BOL Group1 (2011) Comparative analysis of a large dataset indicates that internal transcribed spacer (ITS) should be incorporated into the core barcode for seed plants. PNAS 108(49): 19641-19646.
  5. Chung, T.H.(1957) Korean Flora II. Sinjisa, Seoul. (in Korea)
  6. Chung, Y.J. and S.T. Lee(1995) Pollen morphology of some Korean Chenopodiaceae. Korean Journal of Plant Taxonomy 25: 255-276. (In Korean with English abstract) https://doi.org/10.11110/kjpt.1995.25.4.255
  7. Chung, Y.J.(1992) A Taxonomic Study of the Korean Chenopodiaceae. Ph.D. Thesis, Sungkyunkwan University, Korea. (In Korean with English abstract)
  8. Cuenoud, P., V. Savolainen, L.W. Chatrou, M. Powell, R.J. Grayer and M.W. Chase(2002) Molecular phylogenetics of Caryophyllales based on nuclear 18S rDNA and plastid rbcL, atpB, and matK DNA sequences. American Journal of Botany 89: 132-144. https://doi.org/10.3732/ajb.89.1.132
  9. Fazekas, A.J., K.S. Burgess, P.R. Kesanakurti, S.W. Graham and S.G. Newmaster(2008) Multiple multilocus DNA barcodes from the plastid genome discriminate plant species equally well. PLoS ONE 3:e2802. https://doi.org/10.1371/journal.pone.0002802
  10. Fisher, D.D., H.H. Schenk, A. Jennifer, Thorsch and W.R. Ferren JR(1997) Leaf anatomy and subgeneric affiliations of C3 and C4 species of Suaeda(Chenopodiaceae) in North America. American Journal of Botany 84(9): 1198-1210. https://doi.org/10.2307/2446043
  11. Freitag, H. and M. Lomonosova(2006) Typification and identity of Suaeda crassifolia, S. prostrata and S. salsa, three often confused species of Suaeda sect. Brezia (Chenopodiaceae, Suaedoideae). Willdenowia 36: 21-36. https://doi.org/10.3372/wi.36.36102
  12. Freitag, H., J. Walter and W. Wucherer(1996) Die Gattung Suaeda (Chenopodiaceae) in Osterreich, miteinem Ausblick auf die pannonischen Nachbarlander. Ann. Naturhist. Mus. Wien 98B (Suppl.): 343-367.
  13. Hebert, P.D.N., A. Cywinska, S.L. Ball and J.R. deWaard(2003) Biological identifications through DNA barcodes. Proc Biology Science 270: 313-321. https://doi.org/10.1098/rspb.2002.2218
  14. Hong, J.K., J.C. Yang, S.H. Oh and Y.M. Lee(2014) Molecular phylogenetic study of section Sabina (Genus Juniperus) in Korea based on chloroplast DNA matK and psbA-trnH sequences data. Korean Journal of Plant Taxonomy 44(1): 51-58. (in Korean with English abstract) https://doi.org/10.11110/kjpt.2014.44.1.51
  15. Iljin, M.(1936) Chenopodiaceae Less. pp. 2-353 in Flora SSSR: vol. 6, eds.V. L. Komarov and B. K. Shishkin. Moskva/Leningrad, USSR: Akademia Nauk. (English translation Flora of USSR. 1985. Singh/Koeltz, Dehra Dun).
  16. Kim, M.K., J. Baigalmaa, H. Sun and D.C. Yang(2008) Phylogenetic Analysis of Ji-Mo (Anemarrhena asphodeloides) on the Basis of trnL-F Sequences. Korean Journal of Medicinal Crop Science. 16(1): 1-7. (in Korean with English abstract)
  17. Kress, W.J. and D.L. Erickson(2007) A two-locus global DNA barcode for land plants: The coding rbcL gene complements the non-coding trnH-psbA spacer region. PLoS ONE 2: e508. https://doi.org/10.1371/journal.pone.0000508
  18. Lee, J.S., D.S. Park, B.S. Ihm and W.J. Lee(2007) Taxonomic Reappraisal on Suaeda australis (Chenopodiaceae)in Korea based on the Morphological and Molecular Characteristics. Journal of Plant Biology 50(6): 605-614. https://doi.org/10.1007/BF03030603
  19. Lomonosova, M.N. and H. Freitag(2003) A new species of Suaeda (Chenopodiaceae) from the Altai, Central Asia. Willdenowia 33: 139-147. https://doi.org/10.3372/wi.33.33113
  20. Park, M.K.(1974) Keys to the Herbaceous Plants in Korea (Dicotyledoneae). Chungeumsa, Seoul. (in Korea)
  21. Shim, H.B. and B.H. Choi(2004) RAPD marker variations between and within the species of Korean Suaeda. Korean Journal of Plant Taxonomy 34: 63-74 (in Korean with English abstract) https://doi.org/10.11110/kjpt.2004.34.1.063
  22. Shim, H.B.(2005) Systematics of Suaeda(Chenopodiaceae) and floristic Study of halophytes in Korea. Ph.D. Thesis, Inha University, Korea. (in Korean with English abstract)
  23. Shim, H.B., J.Y. Chung and B.H. Choi(2001) One unrecorded species from Korea: Suaeda malacosperma Hara. Korean Journal of Plant Taxonomy 31(4): 383-387. (in Korean with English abstract) https://doi.org/10.11110/kjpt.2001.31.4.383
  24. Tamura, K., G. Stecher, D. Peterson, A. Filipski and S. Kumar (2013) MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. Molecular Biology and Evolution. 30: 2725-2729. https://doi.org/10.1093/molbev/mst197
  25. Thompson, J.D., D.G. Higgins and J.J. Gibson(1994) CLUSTAL W. improving the sensitivity of progressive multiple alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Research11 : 4673-4680.
  26. White, T.J., T. Bruns, S. Lee and J.W. Taylor(1990) Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. PCR protocols: a guide to methods and applications 18: 315-322.
  27. Yao, H., J. Song, C. Liu, K. Luo, J. Han and Y. Li(2010) Use of ITS2 Region as the Universal DNA Barcode for Plants and Animals. PLoS ONE 5(10): e13102. https://doi.org/10.1371/journal.pone.0013102