Korean Journal of Medicinal Crop Science (한국약용작물학회지)

The Korean Society of Medicinal Crop Science (한국약용작물학회)
권호 표지
DOI QR코드

DOI QR Code

Analysis of Genetic Polymorphism and Relationship of Korean Ginseng Cultivars and Breeding Lines using EST-SSR Marker

EST-SSR 마커를 이용한 인삼 품종과 육성계통의 유전적 다형성 및 유연관계 분석

  • 방경환 (농촌진흥청 국립원예특작과학원 인삼특작부) ;
  • 서아연 (농촌진흥청 국립원예특작과학원 인삼특작부) ;
  • 정종욱 (농촌진흥청 농업유전자원센터) ;
  • 김영창 (농촌진흥청 국립원예특작과학원 인삼특작부) ;
  • 조익현 (농촌진흥청 국립원예특작과학원 인삼특작부) ;
  • 김장욱 (농촌진흥청 국립원예특작과학원 인삼특작부) ;
  • 김동휘 (농촌진흥청 국립원예특작과학원 인삼특작부) ;
  • 차선우 (농촌진흥청 국립원예특작과학원 인삼특작부) ;
  • 조용구 (충북대학교 식물자원학과) ;
  • 김홍식 (충북대학교 식물자원학과)
  • Received : 2012.08.02
  • Accepted : 2012.08.10
  • Published : 2012.08.30
Download PDF
⟨ Previous Next ⟩

Abstract

In this study, Expressed Sequence Tag-Simple Sequence Repeat (EST-SSR) analyses were used to clarify the genetic polymorphisms among Korean ginseng cultivars and breeding lines and to classify them into distinct genetic groups. Polymorphic and reproducible bands were produced by 14 primers out of total 30 primers used in this study. Fourteen EST-SSR loci generated a total of 123 bands. Amplified PCR products showed the highly reproducible banding patterns at 110~920 bp. The number of amplified bands for each EST-SSR primers ranged from 2 to 19 with a mean of 8.8 bands. P26 and P35 primers showed 13 and 12 banding patterns, respectively. The number of alleles for each EST-SSR locus ranged from 1.67 to 2.00 with a mean of 1.878 alleles. P34 and P60 primers showed the highest and the lowest genetic polymorphism, respectively. Cluster analysis based on genetic similarity estimated by EST-SSR markers classified Korean cultivars and breeding lines into 4 groups. Group included Gopoong and Chunpoong and 9 breeding lines (55%), group included 2 breeding lines (10%), group included 3 breeding lines (15%), group included Gumpoong and 3 breeding lines (20%). Consequently, the EST-SSR marker developed in this study may prove useful for the evaluation of genetic diversity and differentiation of Korean ginseng cultivars and breeding lines.

Keywords

References

  1. Bang KH, Chung JW, Kim YC, Lee JW, Jo IH, Seo AY, Kim OT, Hyun DY, Kim DH and Cha SW. (2011a). Development of SSR markers for identification of Korean ginseng (Panax ginseng C. A. Mey.) cultivars. Korean Journal of Medicinal Crop Science. 19:185-190. https://doi.org/10.7783/KJMCS.2011.19.3.185
  2. Bang KH, Jo IH, Chung JW, Kim YC, Lee JW, Seo AY, Park JH, Kim OT, Hyun DY, Kim DH and Cha SW. (2011b). Analysis of genetic polymorphism of Korean ginseng cultivars and foreign accessions using SSR markers. Korean Journal of Medicinal Crop Science. 19:347-353. https://doi.org/10.7783/KJMCS.2011.19.5.347
  3. Bang KH, Lee JW, Kim YC, Kim DH, Lee EH and Jeung JU. (2010). Construction of genomic DNA library of Korean ginseng (Panax ginseng C. A. Meyer) and development of sequence-tagged sites. Biological and Pharmaceutical Bulletin. 33:1579-1588. https://doi.org/10.1248/bpb.33.1579
  4. Botstein D, White RL, Skolnick M and Davis RW. (1980). Construction of a genetic linkage map in man using restriction fragment length polymorphism. American Journal of Human Genetics. 32:314-331.
  5. Chao S, Sharp PJ, Worland AJ, Warham EJ, Koebner RMD and Gale MD. (1989). RFLP-based genetic maps of wheat homoeologous group-7 chromosomes. Theoretical and Applied Genetics. 78:495-504. https://doi.org/10.1007/BF00290833
  6. Choi JE, Seo SD, Yuk JA, Cha SK, Kim HH, Seong BJ and Kim SL. (2003). Analysis of diversity of Panax ginseng collected in Korea by RAPD technique. Korean Journal of Medicinal Crop Science. 11:377-384.
  7. Dan NV, Ramchiary N, Choi SR, Uhm TS, Yang TJ, Ahn IO and Lim YP. (2009). Development and characterization of new microsatellite markers in Panax ginseng C. A. Meyer from BAC end sequences. Conserved Genetics. 11:1223-1225.
  8. Fushimi H, Komatsu K, Isobe M and Namba T. (1997). Application of PCR-RFLP and MASA analyses on 18S ribosomal RNA gene sequence for the identification of three Ginseng drugs. Biological and Pharmaceutical Bulletin. 20:765- 769. https://doi.org/10.1248/bpb.20.765
  9. Ha WY, Shaw PC, Liu J, Yau FC and Wang J. (2002). Authentication of Panax ginseng and Panax quinquefolius using amplified fragment length polymorphism (AFLP) and directed amplification of minisatellite region DNA (DAMD). Journal of Agricultural and Food Chemistry. 50:1871-1875. https://doi.org/10.1021/jf011365l
  10. Hamada SR, Petrino MG and Kakunaga T. (1982). A novel repeated element with Z-DNA-forming potential is widely found in evolutionarily diverse eukaryotic genomes. Proceedings of the National Academy of Sciences of the United States of America. 79:6465-6469. https://doi.org/10.1073/pnas.79.21.6465
  11. In DS, Kim YC, Bang KH, Chung JW, Kim OT, Hyun DY, Cha SW, Kim TS and Seong NS. (2005). Genetic relationships of Panax species by RAPD and ISSR analyses. Korean Journal of Medicinal Crop Science. 13:249-253.
  12. Kim BB, Jeong JH, Jung SJ, Yun DW, Yoon ES and Choi YE. (2005). Authentication of Korean Panax ginseng from Chinese Panax ginseng and Panax quinquefolius by AFLP analysis. Journal of Plant Biotechnology. 7:81-86.
  13. Kim CK and Choi HK. (2003). Genetic diversity and relationship in Korean ginseng (Panax ginseng) based on RAPD analysis. Korean Journal of Genetics. 25:181-188.
  14. Kim OT, Bang KH, In DS, Lee JW, Kim YC, Shin YS, Hyun DY, Lee SS, Cha SW and Seong NS. (2007). Molecular authentication of ginseng cultivars by comparison of internal transcribed spacer and 5.8S rDNA sequences. Plant Biotechnology Reports. 1:163-167. https://doi.org/10.1007/s11816-007-0019-2
  15. Komatsu K, Zhu S, Fushimi H, Qui TK, Cai S and Kadota S. (2001). Phylogenetic analysis based on 18S rRNA gene and matK gene sequence of Panax vietnamensis and five related species. Planta Medica. 67:461-465. https://doi.org/10.1055/s-2001-15821
  16. Lee JW. (2010). Development of DNA markers for identification of Korean ginseng cultivars (Panax ginseng C. A. Meyer). Doctoral Thesis. Dongguk University. Seoul, Korea. p. 20-81.
  17. Lim W, Mudge KW and Weston LA. (2007). Utilization of RAPD markers to assess genetic diversity of wild populations of North American ginseng (Panax quinquefolius). Planta Medica. 73:71-76. https://doi.org/10.1055/s-2006-951768
  18. Lim YP, Shin CS, Lee SJ, Yoon YN and Jo JS. (1993). Survey of proper primers and genetic analysis of Korean ginseng (Panax ginseng C. A. Meyer) variants using the RAPD technique. Journal of Ginseng Research. 17:153-158.
  19. McCouch SR, Kochert G, Yu ZH, Wang ZH, Khush GS, Coffman WR and Tanksley SD. (1988). Molecular mapping of rice chromosomes. Theoretical and Applied Genetics. 76:815-819. https://doi.org/10.1007/BF00273666
  20. Mullis K, Faloona F, Scharf S, Saiki R, Horn G and Erlich H. (1986). Specific enzymatic amplification of Dna in vitro: The polymerase chain reaction. Cold Spring Harbor Symposia on Quantitative Biology. 51:263-273. https://doi.org/10.1101/SQB.1986.051.01.032
  21. Ngan F, Shaw P, But P and Wang J. (1999). Molecular authentication of Panax species. Phytochemistry. 50:787-791. https://doi.org/10.1016/S0031-9422(98)00606-2
  22. Ogbonnaya FC, Imtiaz M, Ye G, Hearnden PR, Hemandez E, Eastwood RF, van Ginkel M, Shorter SC and Winchester JM. (2008). Genetic and QTL analyses of seed dormancy and preharvest sprouting resistance in the wheat germplasm CN10955. Theoretical and Applied Genetics. 116:891-902. https://doi.org/10.1007/s00122-008-0712-8
  23. Olsen M, Hood L, Cantor C and Botstein D. (1989). A common language for physical mapping of the human genome. Science. 245:1434-1435. https://doi.org/10.1126/science.2781285
  24. Paran I and Michelmore W. (1993). Development of reliable PCR-based markers linked to downy mildew resistance genes in lettuce. Theoretical and Applied Genetics. 85:985-993.
  25. Rongwen J, Akkaya MS, Bhagwat AA, Lavi U and Cregan PB. (1995). The use of microsatellite DNA markers for soybean genotype identification. Theoretical and Applied Genetics. 90:43-48.
  26. Rural Development Administration. (2009). Standard Cultivation Guidebook for Good Agricultural Practice. p. 47-117.
  27. Shaw PC and But PP. (1995). Authentication of Panax species and their adulterants by random-primed polymerase chain reaction. Planta Medica. 61:466-469. https://doi.org/10.1055/s-2006-958138
  28. Shim YH, Choi JH, Park CD, Lim CJ, Cho JH and Kim HJ. (2003). Molecular differentiation of Panax species by RAPD analysis. Archives of Pharmacal Research. 26:601-605. https://doi.org/10.1007/BF02976708
  29. Trautz D and Renz M. (1984). Simple sequence are ubiquitous repetitive components of eukaryotic genomes. Nucleic Acids Research. 12:4127-4138. https://doi.org/10.1093/nar/12.10.4127
  30. Um JY, Chung HS, Kim MS, Na HJ, Kwon HJ, Kim JJ, Lee KM, Lee SJ, Lim JP, Do KR, Hwang WJ, Lyu YS, An NH and Kim HM. (2001). Molecular authentication of Panax ginseng species by RAPD analysis and PCR-RFLP. Biological and Pharmaceutical Bulletin. 24:872-875. https://doi.org/10.1248/bpb.24.872
  31. Vos P, Hogers R, Bleeker M, Reijans M, van de Lee T, Hornes M, Frijters A, Pot J, Peleman J, Kuiper M and Zabeau M. (1995). AFLP: a new techniques for DNA fingerprinting. Nucleic Acids Research. 23:4407-4414. https://doi.org/10.1093/nar/23.21.4407
  32. Wen J and Zimmer EA. (1996). Phylogeny and biogeography of Panax L. (the ginseng genus, Araliaceae): inferences from ITS sequences of nuclear ribosomal DNA. Molecular Phylogenetics and Evolution. 6:167-177. https://doi.org/10.1006/mpev.1996.0069
  33. Williams JGK, Kubebelik AR, Licak AJ, Ratalski JA and Tingey SV. (1990). DNA Polymorphism amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Research. 18:6531-6535. https://doi.org/10.1093/nar/18.22.6531
  34. Wu KS and Tanksley SD. (1993). Abundance, polymorphism and genetic mapping of microsatellites in rice. Molecular and General Genetics. 241:225-235. https://doi.org/10.1007/BF00280220
  35. Yang CJ, Wang J, Mu LQ, Li SC, Liu GJ and Hu CQ. (2008). Development of an EST-SSR marker in Panax ginseng. Chinese Journal of Agricultural Biotechnology. 5:175-181
  36. Yang DC, Yang KJ and Yoon ES. (2001). Comparison of ITS (internal transcribed spacer) and 5.8S rDNA sequences among varieties and cultivars in Panax ginseng. Journal of Photoscience. 8:55-60.
  37. Yeh FC, Yang RC, Boyle TBJ, Ye ZH and Mao JX. (1997). POPGENE, the user-friendly shareware for population genetic analysis. Molecular Biology and Biotechnology Center. University of Alberta, Canada.

Cited by

  1. Proteomics Analysis of Early Salt-Responsive Proteins in Ginseng (Panax ginseng C. A. Meyer) Leaves vol.22, pp.5, 2014, https://doi.org/10.7783/KJMCS.2014.22.5.398
  2. Analysis of Mitochondrial DNA Sequence and Molecular Marker Development for Identification of Panax Species vol.21, pp.2, 2013, https://doi.org/10.7783/KJMCS.2013.21.2.91
  3. Comparative Genetic Characteristics of Korean Ginseng using DNA Markers vol.21, pp.6, 2013, https://doi.org/10.7783/KJMCS.2013.21.6.444