Browse > Article

Identification of New Microsatellite Markers in Panax ginseng  

Kim, Joonki (Department of Biological Science, Kongju National University)
Jo, Beom Ho (Department of Biological Science, Kongju National University)
Lee, Kyoung Lyong (Department of Biological Science, Kongju National University)
Yoon, Eui-Soo (Department of Biological Science, Kongju National University)
Ryu, Gi Hyung (Department of Food Science and Technology, Kongju National University)
Chung, Ki Wha (Department of Biological Science, Kongju National University)
Publication Information
Molecules and Cells / v.24, no.1, 2007 , pp. 60-68 More about this Journal
Abstract
Microsatellites, also called simple sequence repeats (SSR), are very useful molecular genetic markers commonly used in crop breeding, species identification and linkage analysis. In the present study, we constructed a microsatellite-enriched genomic library of Panax ginseng, and identified 251 novel microsatellite sequences. Tri-nt repeat units were the most abundant (46.6%), followed by di-nt repeats (35.5%). The $(AG)_n$ motif was most common (23.1%), followed by the $(AAC)_n$ motif (22.3%). From the genotyping of 94 microsatellites using marker-specific primer sets, we identified 11 intraspecific polymorphic markers as well as 14 possible interspecific polymorphic markers differing between P. ginseng and P. quinquefolius. The exact allele structures of the polymorphic markers were determined and the alleles were named. This study represents the first report of the bulk isolation of microsatellites by screening a microsatellite-enriched genomic library in P. ginseng. The microsatellite markers could be useful for linkage analysis, genetic breeding and authentication of Panax species.
Keywords
Genetic Marker; Microsatellites; Polymorphism; Panax ginseng; Panax quinquefolius; Simple Sequence Repeats (SSR);
Citations & Related Records
Times Cited By KSCI : 5  (Citation Analysis)
Times Cited By Web Of Science : 15  (Related Records In Web of Science)
연도 인용수 순위
1 Bar, W., Brinkmann, B., Budowle, B., Carracedo, A., Gill, P., et al. (1997) DNA recommendations. Further report of the DNA Commission of the ISFH regarding the use of short tandem repeat systems. International Society for Forensic Haemogenetics. Int. J. Legal Med. 110, 175-176   DOI   ScienceOn
2 Bonierbale, M. W., Plasisted, R. L., and Tanksley, S .D. (1988) RFLP maps based on a common set of clones reveal modes of chromosomal evolution in potato and tomato. Genetics 120, 1095-1103
3 Brondani, R. P. V., Brondani, C., Tarchini, R., and Grattapaglia, D. (1998) Development, characterization and mapping of microsatellite markers in Eucalyptus grandis and E. urophylla. Theor. Appl. Genet. 97, 816-827   DOI   ScienceOn
4 Fischer, D. and Bachmann, K. (1998) Microsatellite enrichment in organisms with large genomes (Allium cepa L.). Biotechniques 24, 796-802
5 Kantety, R. V., La Rota, M., Matthews, D. E., and Sorrells, M. E. (2002) Data mining for simple sequence repeats in expressed sequence tags from barley, maize, rice, sorghum and wheat. Plant Mol. Biol. 48, 501-510   DOI   ScienceOn
6 Kurata, N., Umehara, Y., Tanoue, H., and Sasaki, T. (1997) Physical mapping of the rice genome with YAC clones. Plant Mol. Biol. 35, 101-113   DOI   ScienceOn
7 Martin, G. B., Brommonschenkel, S. H., Chunwongse, J., Frary, A., Ganal, M. W., et al. (1993) Map-based cloning of a protein kinase gene conferring disease resistance in tomato. Science 262, 1432-1436   DOI
8 Mihalov, J. J., Marderosian, A. D., and Pierce, J. C. (2000) DNA identification of commercial ginseng samples. J. Agric. Food Chem. 48, 3744-3752   DOI   ScienceOn
9 Roder, M. S., Plaschke, J., Konig, S. U., Borner, A., Sorrells, M. E., et al. (1995) Abundance, variability and chromosomal location of microsatellites in wheat. Mol. Gen. Genet. 246, 327-333   DOI   ScienceOn
10 Tanksley, S. D., Grandillo, S., Fulton, T. M., Zamir, D., Eshed, Y., et al. (1996) Advanced backcross QTL analysis in a cross between an elite processing line of tomato and its wild relative L. pimpinellifolium. Theor. Appl. Genet. 92, 213-224   DOI   ScienceOn
11 Temnykh, S., Park, W. D., Ayers, N., Cartinhour, S., Hauck, N., et al. (1999) Mapping and genome organization of microsatellites in rice (Oryza sativa). Theor. Appl. Genet. 100, 698- 712
12 Hamilton, M. B., Pincus, E. L., Di Fiore, A., and Fleischer, R. C. (1999) Universal linker and ligation procedures for construction of genomic DNA libraries enriched for microsatellites. Biotechniques 27, 500-507
13 Lang, Z., Lou, W. S., and But, P. P. H. (1998) High performance liquid chromatographical analysis of ginsenosides in Panax ginseng and P. notoginseng. J. Clin. Pharm. Sci. 2, 133-143
14 Popovich, D. G. and Kitts, D. D. (2004) Generation of ginsenosides Rg3 and Rh2 from North American ginseng. Phytochemistry 65, 337-344   DOI   ScienceOn
15 Ngan, F., Shaw, P., But, P., and Wang, J. (1999) Molecular authentication of Panax species. Phytochemistry 50, 787-791   DOI   ScienceOn
16 Gafner, S., Bergeron, C., McCollom, M. M., Cooper, L. M., McPhail, K. L., et al. (2004) Evaluation of the efficiency of three different solvent systems to extract triterpene saponins from roots of Panax quinquefolius using high-performance liquid chromatography. J. Agric. Food Chem. 52, 1546-1550   DOI   ScienceOn
17 Ha, W. Y., Shaw, P. C., Liu, J., Yau, F. C., 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). J. Agric. Food Chem. 50, 1871-1875   DOI   ScienceOn
18 Um, J. Y., Chung, H. S., Kim, M. S., Na, H. J., Kwon, H. J., et al. (2001) Molecular authentication of Panax ginseng species by RAPD analysis and PCR-RFLP. Biol. Pharm. Bull. 24, 872-875   DOI   ScienceOn
19 Tautz, D. (1989) Hypervariability of simple sequences as a general source for polymorphic DNA markers. Nucleic Acids Res. 17, 6463-6471   DOI   ScienceOn
20 Chambers, G. K. and MacAvoy, E. S. (2000) Microsatellites: consensus and controversy. Comp. Biochem. Physiol. B Biochem. Mol. Biol. 126, 455-476   DOI   ScienceOn
21 Metzgar, D., Bytof, J., and Wills, C. (2000) Selection against frameshift mutations limits microsatellite expansion in coding DNA. Genome Res. 10, 72-80
22 Bassam, B. J., Caetano-Anolles, G., and Gresshoff, P. M. (1991) Fast and sensitive silver staining of DNA in polyacrylamide gels. Anal. Biochem. 196, 80-83   DOI   ScienceOn
23 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. Biol. Pharm. Bull. 20, 765-769   DOI   ScienceOn
24 Kim, S.-M. and Sohn, J.-K. (2005) Identification of a rice gene (Bph 1) conferring resistance to brown planthopper (Nilaparvata lugens Stal) using STS marker. Mol. Cells 20, 30-34