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Journal of Crop Science and Biotechnology

, Volume 22, Issue 3, pp 243–251 | Cite as

Development of EST-SSR Markers and Analysis of Genetic Relationship it’s Resources in Hexaploid Oats

  • Leitao Pedro Isabel
  • Jae-Ryoung Park
  • Gang Seob Lee
  • Gyu-Hwan Park
  • Kyung-Min KimEmail author
Research Article
  • 10 Downloads

Abstract

Oats are the fifth largest planted area in the world, and are the only cereal crops in the world to be among the top ten in the world. However, since oats are weak in cold weather, only four varieties are cultivated in Korea at present. Therefore, we constructed the DNA profile database using the EST-SSR marker for the oat 73 varieties kept in Korea. When the oat 73 cultivars marketed in Korea were tested with the eight EST-SSR marker developed in this study, 71.62 average alleles were detected per marker and the mean of PIC value was 0.337. According to the polymorphism of microsatellite markers, 73 varieties of oats were classified into 5 ~ 9 groups and most of the genetic resources investigated were identified when EST-SSR marker was used. In the future, EST-SSR markers developed in this study may be used to identify the seed disputes and breeds of oats. In addition, it predicts that it will be usefully used as a means of evaluating the characteristics of oat genetic resources, testing purity and studying the cultivation of varieties.

Key words

Oat Cereal crop EST (Expressed Sequence Tags) SSR (Simple Sequence Repeats) Seed dispute 

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Notes

Acknowledgements

This work was supported by a grant from the Next-Generation BioGreen 21 Program (Project No. PJ01364 7032019), Rural Development Administration, Republic of Korea.

Financial support

This research did not receive any specific grant from funding agencies in the public, commercial, or not-for-profit sectors.

References

  1. Ai CX, Lu L, Ma GB, Liu ZX. 2005. Application of SSR markers in hybrid seed purity test of melon. Acta Horticulturae Sinica. 32(5): 902–904Google Scholar
  2. Becher R. 2007. EST-derived microsatellites as a rich source of molecular markers for oats. Plant Breeding. 126(3): 274–278CrossRefGoogle Scholar
  3. Cave NA, Wood PJ, Burrows VD. 1990. Improvement in the nutritive value of naked oats for broiler chicks by various feed additives. Can. J. Anim. Sci. 70: 623CrossRefGoogle Scholar
  4. Chung H, Jeong YM., Chung WH, Mun JH, Kim N, Yu HJ. 2014. Genome-wide Marker Development for Radish (Raphanus sativus) Using Next GenerationSequencing. J. Hortic. Sci. Technol. 102–102Google Scholar
  5. Daou C, Zhang H. 2012. Oat beta-glucan: its role in health promotion and prevention of diseases. Comprehensive Reviews in Food Science and Food Safety. 11(4): 355–365CrossRefGoogle Scholar
  6. Da-Silva PR, Milach Da-Silva PR, Milach SCK, Tisian LM. 2011. Transferability and utility of white oat (Avena sativa) microsatellite markers for genetic studies in black oat (Avena strigosa). Genet. Mol. Res. 10: 2916–2923CrossRefGoogle Scholar
  7. Deleu W, Esteras C, Roig C, González-To M, Fernández-Silva I, Gonzalez-Ibeas D, Blanca J, Aranda M, Arus P, Neuz F, Monforte AJ. 2009. A set of EST-SNPs for map saturation and cultivar identification in melon. BMC Plant Biology. 9(1): 90CrossRefGoogle Scholar
  8. Feng SP, Li WG, Huang HS, Wang JY, Wu YT. 2009. Development, characterization and cross-species/genera trans-ferability of EST-SSR markers for rubber tree (Hevea brasiliensis). Molecular Breeding. 23(1): 85–97CrossRefGoogle Scholar
  9. Fu YB, Chong J, Fetch T, Wang ML. 2007. Microsatellite variation in Avena sterilis oat germplasm. Theoretical and Applied Genetics. 114(6): 1029–1038CrossRefGoogle Scholar
  10. Gupta PK, Rustgi S, Sharma S, Singh R, Kumar N, Balyan HS. 2003. Transferable EST-SSR markers for the study of polymorphism and genetic diversity in bread wheat. Molecular genetics and genomics. 270(4): 315–323CrossRefGoogle Scholar
  11. Hu G, Jackson EW, Bonman JM. 2007. Expansion of PCR-based marker resources in oat by surveying genome-derived SSR markers from barley and wheat. Crop science. 47(5): 2004–2012CrossRefGoogle Scholar
  12. Hu JB, Zhou XY, Li JW. 2010. Development of novel EST-SSR markers for cucumber (Cucumis sativus) and their transferability to related species. Scientia horticulturae. 125(3): 534–538CrossRefGoogle Scholar
  13. Jaccard P. 1908. Nouvelles recherches sur la distribution florale. Bull. Soc. Vaud. Sci. Nat. 44: 223–270Google Scholar
  14. Jia XP, Shi YS, Song YC, Wang GY, Wang TY, Li Y. 2007. Development of EST-SSR in foxtail millet (Setaria italica). Genetic Resources and Crop Evolution. 54(2): 233–236CrossRefGoogle Scholar
  15. Kim HI, Hong CP, Im S, Choi SR, Lim YP. 2014. Development of molecular markers and application for breeding in Chinese cabbage. Korean J. Hortic. Sci. Technol. 32(6): 745–752CrossRefGoogle Scholar
  16. Kumar S, Tamura K, Jakobsen IB, Nei M. 2001. MEGA2: molecular evolutionary genetics analysis software. Bioinformatics. 17(12): 1244–1245CrossRefGoogle Scholar
  17. Kwon YS, Park EK, Park CU, Bae KM, Yi SI, Cho IH. 2006. Identification of rice variety using Simple Sequence Repeat (SSR) marker. Journal of Life Science. 16(6): 1001–1005CrossRefGoogle Scholar
  18. Newman RK, Newman CW, Fadel J, Graham H. 1987. Nutritional implications of beta-glucans in barley. Barley Genetics. 773: 780Google Scholar
  19. Penner GA, Chong J, Levesque-Lemay M, Molnar SJ, Fedak G. 1993. Identification of a RAPD marker linked to the oat stem rust gene Pg3. Theoretical and Applied Genetics. 85(6–7): 702–705CrossRefGoogle Scholar
  20. RAJHATHY T, THOMAS H. 1972. Genetic control of chromosome pairing in hexaploid oats. Nature New Biology. 239(94): 217CrossRefGoogle Scholar
  21. Rohlf FJ. 1993. Numeric taxonomy and multivariate analysis system. NTSYS-pcGoogle Scholar
  22. Santana QC, Coetzee MP, Steenkamp ET, Mlonyeni OX, Hammond GN, Wingfield MJ, Wingfield B D. 2009. Microsatellite discovery by deep sequencing of enriched genomic libraries. Biotechniques. 46(3): 217–223CrossRefGoogle Scholar
  23. Sarwar MH, Sarwar MF, Sarwar M, Qadri NA, Moghal S. 2013. The importance of cereals (Poaceae: Gramineae) nutrition in human health: A review. Journal of cereals and oilseeds. 4(3): 32–35CrossRefGoogle Scholar
  24. Smith JSC, Chin ECL, Shu H, Smith OS, Wall SJ, Senior ML, Ziegle J. 1997. An evaluation of the utility of SSR loci as molecular markers in maize (Zea mays L.): comparisons with data from RFLPs and pedigree. Theoretical and Applied Genetics. 95(1–2): 163–173CrossRefGoogle Scholar
  25. Sorrells ME, Simmons SR. 1992. Influence of environment on the development and adaptation of oat. Oat science and technology. (oatscienceandte). 115–163Google Scholar
  26. Varshney RK, Chabane K, Hendre PS, Aggarwal RK, Graner A. 2007. Comparative assessment of EST-SSR, EST-SNP and AFLP markers for evaluation of genetic diversity and conservation of genetic resources using wild, cultivated and elite barleys. Plant Science. 173(6): 638–649CrossRefGoogle Scholar
  27. Wang Y, Guo X. 2007. Development and characterization of EST-SSR markers in the eastern oyster Crassostrea virginica. Marine Biotechnology. 9(4): 500–511CrossRefGoogle Scholar
  28. Wang Z, Li J, Luo Z, Huang L, Chen X, Fang B, Li Y, Chen J, Zhang X. 2011. Characterization and development of EST-derived SSR markers in cultivated sweetpotato (Ipomoea batatas). BMC plant biology. 11(1): 139CrossRefGoogle Scholar
  29. Würsch P, Pi-Sunyer FX. 1997. The role of viscous soluble fiber in the metabolic control of diabetes: a review with special emphasis on cereals rich in β-glucan. Diabetes care. 20(11): 1774–1780CrossRefGoogle Scholar
  30. Zalapa JE, Cuevas H, Zhu H, Steffan S, Senalik D, Zeldin E, McCOWN B, Harbut R, Simon P. 2012. Using next-generation sequencing approaches to isolate simple sequence repeat (SSR) loci in the plant sciences. American journal of botany. 99(2): 193–208CrossRefGoogle Scholar
  31. Zhai W, Tian Q, Jia J, Dong Y. 2002. Identification of purity of Hami melon hybrid with AFLP fingerprint. Acta Horticulturae Sinica. 29(6): 587–587Google Scholar

Copyright information

© Korean Society of Crop Science and Springer 2019

Authors and Affiliations

  • Leitao Pedro Isabel
    • 1
  • Jae-Ryoung Park
    • 2
  • Gang Seob Lee
    • 3
  • Gyu-Hwan Park
    • 4
  • Kyung-Min Kim
    • 2
    Email author
  1. 1.Ministry of Agriculture and Food Security, National Directoracte of Agricultural Extension (DNEA)Agronomy Engineering, Eduardo Mondlane UniversityMaputoMozambique
  2. 2.Division of Plant Biosciences, School of Applied Biosciences, College of Agriculture and Life ScienceKyungpook National UniversityDaeguKorea
  3. 3.Biosafety Division, National Academy of Agricultural ScienceRural Development AdministrationJeonjuRepublic of Korea
  4. 4.Major in Plant Resources Environment, College of Ecology and Environmental ScienceKyungpook National UniversitySangjuKorea

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