한국자원식물학회지 (Korean Journal of Plant Resources)

  • 제24권6호
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  • Pages.702-711
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  • 2011
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  • 1226-3591(pISSN)
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  • 2287-8203(eISSN)
한국자원식물학회 (The Plant Resources Society of Korea)
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Analysis of Genetic Diversity and Population Structure of Buckwheat (Fagopyrum esculentum Moench) Landraces of Korea Using SSR Markers

  • 투고 : 2011.08.19
  • 심사 : 2011.12.02
  • 발행 : 2011.12.31
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초록

Buckwheat (Fagopyrum esculentum Moench), one of the minor crops grown in Korea belonging to the Polygonaceae family, is an annual crop widely cultivated in Asia, Europe, and America and has a character of outcrossing and self-incompatibility. The objective of this study was to analyze the genetic variability, phylogenetic relationships and population structure of buckwheat landraces of Korea using SSR markers. Ten microsatellite markers have been detected from a total of 79 alleles among the 179 buckwheat accessions were collected from Korea. The number of allele per marker locus ($N_A$) ranged from 2 (GB-FE-001, GB-FE-043 and GB-FE-055) to 31 (GB-FE-035) with an average of 7.9 alleles. GB-FE-035 was the most polymorphic with the highest PIC value 0.93. Major allele frequencies ($M_{AF}$) for the 10 polymorphic loci varied from 0.12 to 0.97 with a mean allele frequency of 0.57. The expected heterozygosity ($H_E$) values ranged from 0.05 to 0.94 with an average of 0.53. The observed heterozygosity ($H_O$) ranged from 0.06 to 0.92 with an average of 0.42. The overall polymorphic information contents (PIC) values ranged from 0.05 to 0.93 with an average of 0.48. The landrace accessions of buckwheat used in the present study were not distinctly grouped according to geographic distribution. The study concludes that the results revealed genetic differentiation was low according to the geographic region because of outcrossing and self-incompatibility. We reported that our analyses on the genetic diversity of common buckwheat cultivars of Korea were performed by using of microsatellite markers.

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참고문헌

  1. Alekseeva, E.S. 1986. Selection, cultivation and utilization of buckwheat. Proceedings of the Third International Symposium on Buckwheat, Pulawy, Poland. pp. 18-36.
  2. Cho, Y.I., J.H. Park, C.W. Lee, W.-H. Ra, J.-W. Chung, J-R. Lee, K.H. Ma, S.-Y. Lee, K.-S. Lee, M.-C. Lee and Y.-J. Park. 2011. Evaluation of the genetic diversity and population structure of sesame (Sesamum indicum L.) using microsatellite marker. Genes Genom. 33:187-195. https://doi.org/10.1007/s13258-010-0130-6
  3. Evanno, G., S. Regnaut and J. Goudet. 2005. Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol. Ecol. 14:2611-2620. https://doi.org/10.1111/j.1365-294X.2005.02553.x
  4. Gao, X,-D., J.-H. Kim, C.-H. Park and S.-K. Hong. 2010. Studies on genetic diversity of buckwheat germplasms. Korean J. Plant Res. 23(3):214-222.
  5. Goldstein, D.B. and C. Schlotterer. 1999. Microsatellites. Evolution and application. Oxford University Press, New York.
  6. Hallauer, A.R. and J.B.F. Miranda. 1988. Quantitative Genetics in Maize Breeding. 2nd ed., Iowa State University Press, Ames, USA.
  7. Iwata, H., K. Imon, Y. Tsumura and R. Ohsawa. 2005. Genetic diversity among Japanese indigenous common buckwheat (Fagopyrum esculentum) cultivars as determined from amplified fragment length polymorphism and simple sequence repeat markers and quantitative agronomic traits. Genome 48:367-377. https://doi.org/10.1139/g04-121
  8. Javomik, B., B.O. Eggum and I. Kreft. 1981. Studies on protein fractions and protein quality of buckwheat. Genetika 13(2): 115-121.
  9. Konishi, T., H. Iwata, K. Yashiro, Y. Tsumura, R. Ohsawa, Y. Yasui and O. Ohnishi. 2006. Development and characterization of microsatellite markers for common buckwheat. Breed. Sci. 56:277-285. https://doi.org/10.1270/jsbbs.56.277
  10. Kump, B. and B. Javornik. 1996. Evaluation of genetic variability among common buckwheat (Fagopyrum esculentum Moench) populations by RAPD markers. Plant Sci. 114:149-158. https://doi.org/10.1016/0168-9452(95)04321-7
  11. Litt, M. and J.A. Luty. 1989. A hypervariable microsatellite revealed by in vitro amplification of a dinucleotide repeat within the cardiac muscle actin gene. American J. Hum. Genet. 44:397-401.
  12. Liu, K. and S.V. Muse. 2005. Power Marker: an integrated analysis environment for genetic marker analysis. Bioinformatics 21:2128-2129. https://doi.org/10.1093/bioinformatics/bti282
  13. Li, X., W. Yan, H. Agrama, B. Hu, L. Jia, M. Jia, A. Jackson, K. Moldenhauer, A. McClung and D. Wu. 2010. Genotypic and phenotypic characterization of genetic differentiation and diversity in the USDA rice mini-core collection. Genetica 138:1221-1230. https://doi.org/10.1007/s10709-010-9521-5
  14. Ma, K.H., N.S. Kim, G.-A. Lee, S.-Y. Lee, J.K. Lee, J.Y. Yi, Y.-J. Park, T.-S. Kim, J.-G. Gwag and S.-J. Kwon. 2009. Development of SSR markers for studies of diversity in the genus Fagopyrum. Theor. Appl. Genet. 119:1247-1254. https://doi.org/10.1007/s00122-009-1129-8
  15. Masud, M.A.T., M.A. Chowdhury, M.A. Hossain and S.M.M. Hossain. 1995. Multivariate analysis of pumpkin. Bangladesh J. Plant Breed. Genet. 8(1):45-50.
  16. Murai, M. and O. Ohnishi. 1996. Population genetics of cultivated common buckwheat, Fagopyrum esculentum Moench. X. DiVusion routes revealed by RAPD markers. Genes Genet. Syst. 71:211-218. https://doi.org/10.1266/ggs.71.211
  17. Nei, M. and N. Takezaki. 1983. Estimation of genetic distances and phylogenetic trees from DNA analysis. Proc. 5th World Cong. Genet Appl Livstock Prod. 21:405-412.
  18. Ohnishi, O. 1993. Population genetics of cultivated common buckwheat, Fagopyrum esculentwn Moench, VIII. Local differentiation of land races in Europe and the silk road. Japanese J. Genet. 68:317-326. https://doi.org/10.1266/jjg.68.317
  19. Ohnishi, O. 1998. Search for the wild ancestor of buckwheat III. The wild ancestor of cultivated common buckwheat, and of tatary buckwheat. Econ. Bot. 52:123-133. https://doi.org/10.1007/BF02861199
  20. Park, M.-H., D.-H. Shin, M.-H. Han, Y.-H. Yun, J.-S. Bae, Y.-S. Lee, K.-Y. Chung, M.-S. Lee and S.-H. Woo. 2009. Proteomic approach of the protein profiles during seed maturation in common buckwheat (Fagopyrum esculentum Moench.). Korean J. Plant Res. 22(3):227-235.
  21. Pritchard, J.K., X. Wen and D. Falush. 2007 Documentation for structure software: Version 2.2. Department of Human Genetics, University of Chicago; Department of Statistics, University of Oxford. Available at http://pritch.bsd.uchicago.edu/software
  22. Schuelke, M. 2000. An economic method for the fluorescent labelling of PCR fragments. Nat. Biotechnol. 18:233-234. https://doi.org/10.1038/72708
  23. Sharma, K.D. and J.D. Boyes. 1961. Modified incompatibility of common buckwheat following irradiation. Canadian J. Bot. 39:1241-1246. https://doi.org/10.1139/b61-108
  24. Sinha, P.K., V.S. Chauhan, K. Prasad and J.S. Chauhan. 1991. Genetic divergence in indigenous upland rice varieties. Indian J. Genet. Plant Br. 51(1):47-50.
  25. Smith, J.S.C., D.S. Ertl and B.A. Orman. 1995. Identification of maize varieties. In Wrigley, C.W. (ed.), Identification of Food Grain Varieties, American Assoc. Cereal Chemists, St. Paul, USA. pp. 253-264.
  26. Tamura, K., J. Dudley, M. Nei and S. Kumar. 2007. MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol. Biol. Evol. 24:1596-1599. https://doi.org/10.1093/molbev/msm092
  27. Tautz, D. 1989. Hypervariability of simple sequences as general source for polymorphic DNA markers. Nucleic Acids Res. 17:6463-6471. https://doi.org/10.1093/nar/17.16.6463
  28. Thuillet, A.-C., T. Bataillon, S. Poirier, S. Santoni and J.L. David. 2005. Estimation of long-term effective population sizes through the history of durum wheat using microsatellite data. Genetics 169:1589-1599. https://doi.org/10.1534/genetics.104.029553
  29. Vigouroux, Y., S. Mitchell, Y. Matsuoka, M. Hamblin, S. Kresovich, J. Stephen, C. Smith, J. Jaqueth, O.S. Smith and J. Doebley. 2005. An analysis of genetic diversity across the maize genome using microsatellites. Genetics 169:1617-1630. https://doi.org/10.1534/genetics.104.032086
  30. Vos, P., R. Horgers, M. Bleeker, M. Reijans, T. Van de Lee, M. Hornes, A. Frijters, J. Pot, J. Peleman, M. Kuper and M. Zabeau. 1995. AFLP: a new technique for DNA fingerprinting. Nucleic Acids Res. 23:4407-4414. https://doi.org/10.1093/nar/23.21.4407

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