Hostname: page-component-586b7cd67f-r5fsc Total loading time: 0 Render date: 2024-11-22T02:04:29.806Z Has data issue: false hasContentIssue false
  • English
  • Français

Transfer of simple sequence repeat (SSR) markers from major cereal crops to minor grass species for germplasm characterization and evaluation

Published online by Cambridge University Press:  12 February 2007

M.L. Wang ,
N.A. Barkley ,
J.-K. Yu ,
R.E. Dean ,
M.L. Newman ,
M.E. Sorrells  and
G.A. Pederson
M.L. Wang*
Affiliation:
USDA-ARS, Plant Genetic Resources Conservation Unit, 1109 Experiment Street, Griffin, GA 30 223, USA
N.A. Barkley
Affiliation:
USDA-ARS, Plant Genetic Resources Conservation Unit, 1109 Experiment Street, Griffin, GA 30 223, USA
J.-K. Yu
Affiliation:
Department of Plant Breeding and Genetics, Cornell University, 240 Emerson Hall, Ithaca, NY 14850, USA
R.E. Dean
Affiliation:
Plant Genetic Resources Conservation Unit, University of Georgia, 1109 Experiment Street, Griffin, GA 30223, USA
M.L. Newman
Affiliation:
USDA-ARS, Plant Genetic Resources Conservation Unit, 1109 Experiment Street, Griffin, GA 30 223, USA
M.E. Sorrells
Affiliation:
Department of Plant Breeding and Genetics, Cornell University, 240 Emerson Hall, Ithaca, NY 14850, USA
G.A. Pederson
Affiliation:
USDA-ARS, Plant Genetic Resources Conservation Unit, 1109 Experiment Street, Griffin, GA 30 223, USA
*
*Corresponding author: E-mail:, [email protected]
Get access Rights & Permissions [Opens in a new window]

Abstract

A major challenge for the molecular characterization and evaluation of minor grass species germplasm is the lack of sufficient DNA markers. A set of 210 simple sequence repeat (SSR) markers developed from major cereal crops (self-pollinated wheat and rice, mainly self-pollinated sorghum and out-crossing maize) were evaluated for their transferability to minor grass species (finger millet, Eleusine coracana; seashore paspalum, Paspalum vaginatum; and bermudagrass, Cynodon dactylon). In total, 412 cross-species polymorphic amplicons were identified. Over half of the primers generated reproducible cross-species or cross-genus amplicons. The transfer rate of SSR markers was correlated with the phylogenetic relationship (or genetic relatedness) of these species. The average transfer rate of genomic SSR markers was different from the average transfer rate of expressed sequence tag (EST)-SSR markers. The level of polymorphism was significantly higher among species (67%) than within species (34%), and was related to the degree of out-crossing for each species. The level of polymorphism detected within species was 57% from self-incompatible species, 39% from out-crossing species and 20% from self-pollinated species. Genomic SSRs detected a higher level of polymorphism than EST-SSRs. The use of transferred polymorphic SSR markers for the characterization and evaluation of germplasm is discussed.

Keywords

germplasmPoaceaepolymorphism levelSSR markertransfer rate
Type
Research Article
Information
Plant Genetic Resources , Volume 3 , Issue 1 , April 2005 , pp. 45 - 57
Copyright
Copyright © USDA 2005

Access options

Get access to the full version of this content by using one of the access options below. (Log in options will check for institutional or personal access. Content may require purchase if you do not have access.)

References

Bennetzen, JL and Freeling, M (1993) Grasses as a single genetic system—genome composition, colinerarity and compatibility. Trends in Genetics 9: 259–261.Google Scholar
Brown, SM, Hopkins, MS, Mitchell, SE, Wang, TY, Kresovich, S, Duncan, RR, Senior, ML and Gonzalez-Candelas, F (1996) Multiple methods for the identification of polymorphic simple sequence repeats (SSRs) in sorghum [Sorghum bicolor (L.) Moench]. Theoretical and Applied Genetics 93: 190–198.Google Scholar
Chen, X, Cho, YG and McCouch, SR (2002) Sequence divergence of rice microsatellites in Oryza and other plant species. Molecular Genetics and Genomics 268: 331–343.Google Scholar
Cho, YG, Ishii, T, Temnykh, S, Chen, X, Lipovich, L, McCouch, SR, Park, WD, Ayres, N and Cartinhour, S (2000) Diversity of microsatellites derived from genomic libraries and GenBank sequences in rice (Oryza sativa L.). Theoretical and Applied Genetics 100: 712–722.CrossRefGoogle Scholar
Choi, H-K, Mun, J-H, Kim, D-J, Zhu, H, Baek, J-M, Mudge, J, Roe, B, Ellis, N, Doyle, J, Kiss, GB, Young, ND and Cook, DR (2004) Estimating genome conservation between crop and model legume species. Proceedings of the National Academy of Science USA 101: 15289–15294.Google Scholar
Cordeiro, GM, Casu, R, McIntyre, CL, Manners, JM and Henry, RJ (2001) Microsatellite markers from sugarcane (Saccharum spp.) ESTs cross transferable to erianthus and sorghum. Plant Science 160: 1115–1123.Google Scholar
Doyle, JJ and Luckow, MA (2003) The rest of the iceberg: legume diversity and evolution in a phylogenetic context. Plant Physiology 131: 900–910.CrossRefGoogle Scholar
Eujayl, I, Sorrells, ME, Baum, M and Wolters, P (2002) Isolation of EST-derived microsatellite markers for genotyping the A and B genomes of wheat. Theoretical and Applied Genetics 104: 399–407.Google Scholar
Gale, MD and Devos, KM (1998) Comparative genetics in the grasses. Proceedings of the National Academy of Science USA 95: 1971–1974.CrossRefGoogle ScholarPubMed
Gaut, BS (2002) Evolutionary dynamics of grass genomes. New Phytologist 154: 15–28.CrossRefGoogle Scholar
Giussani, LM, Cota-Sánchez, JH, Zuloaga, FO and Kellogg, EA (2001) A molecular phylogeny of the grass subfamily Panicoideae (Poaceae) shows multiple origin of C4 photosynthesis. American Journal of Botany 88: 1993–2012.CrossRefGoogle ScholarPubMed
Goldstein, D and Schlöterer, C (1999) Microsatellite: Evolution and Applications. Oxford: Oxford University Press.Google Scholar
Gupta, PK, Rustgi, S, Sharma, S, Singh, R, Kumar, N and Balyan, HS (2003) Transferable EST-SSR markers for the study of polymorphism and genetic diversity in bread wheat. Molecular Genetics and Genomics 270: 315–323.Google Scholar
Hernández, P, Dorado, G, Laurie, DA, Martín, A and Snape, JW (2001) Microsatellites and RFLP probes from maize are efficient sources of molecular markers for the biomass energy crop Miscanthus. Theoretical and Applied Genetics 102: 616–622.Google Scholar
Hilu, KW and Alice, LA (2001) A phylogeny of Chlorioideae (Poaceae) based on matK sequences. Systematic Botany 26: 386–405.Google Scholar
Kantety, RV, Tota, ML, Matthews, DE and Sorrells, ME (2002) Data mining for simple sequence repeats in expressed sequence tags from barley, maize, rice, sorghum and wheat. Plant Molecular Biology 48: 501–510.CrossRefGoogle ScholarPubMed
Kellogg, EA (1998) Relationships of cereal crops and other grasses. Proceedings of the National Academy of Science USA 95: 2005–2010.Google Scholar
Kellogg, EA (2000) The grasses: a case study of macroevolution. Annual Review of Ecology, Evolution and Systematics 31: 217–238.Google Scholar
Kellogg, EA (2001) Evolutionary history of the grasses. Plant Physiology 125: 1198–1205.Google Scholar
Moore, G, Devos, KM, Wang, Z and Gale, MD (1995) Grasses, line up and form a circle. Current Biology 5: 17–23.CrossRefGoogle Scholar
Peakall, R, Gilmore, S, Keys, W, Morgante, M and Rafalski, A (1998) Cross-species amplification of soybean (Glycine max) simple sequence repeats (SSRs) within the genus and other legume genera: implications for the transferability of SSRs in plants. Molecular Biology and Evolution 15: 1275–1287.CrossRefGoogle ScholarPubMed
Reichardt, M and Rogers, S (1997) Preparation of genomic DNA from plant tissue. In: Ausubel, FM, Brent, R, Kingston, RE, Moore, DD, Seidman, JG, Smith, JA and Struhl, K (eds) Current Protocols in Molecular Biology. New York: John Wiley & Sons, pp. 2.3.3 –2.3.7.Google Scholar
Röder, MS, Plaschke, J, König, SU, Börner, A, Sorrells, ME, Tanksley, SD and Ganal, MW (1995) Abundance, variability and chromosomal location of microsatellites in wheat. Molecular and General Genetics 246: 327–333.Google Scholar
Saha, MC, Mian, MAR, Eujayl, I, Zwonitzer, JC, Wang, L and May, GD (2004) Tall fescue EST-SSR markers with transferability across several grass species. Theoretical and Applied Genetics 109: 783–791.Google Scholar
Shantz, HL (1954) The place of grasslands in the earth's cover of vegetation. Ecology 35: 143–145.Google Scholar
Thiel, T, Michalek, W, Varshney, RK and Graner, A (2003) Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley (Hordeum vulgare L.). Theoretical and Applied Genetics 106: 411–422.Google Scholar
Wang, ML, Gillaspie, AG, Newman, ML, Dean, RE, Pittman, RN, Morris, JB and Pederson, GA (2004) Transfer of simple sequence repeat (SSR) markers across the legume family for germplasm characterization and evaluation. Plant Genetic Resources 2: 107–119.CrossRefGoogle Scholar
Yu, J-K, La Rota, M, Kantety, RV and Sorrells, ME (2004) EST derived SSR markers for comparative mapping in wheat and rice. Molecular Genetics and Genomics 271: 742–751.CrossRefGoogle ScholarPubMed
Zhao, X and Kochert, G (1993) Phylogenetic distribution and genetic mapping of a (GGC)n microsatellite from rice (Oryza sativa L.). Plant Molecular Biology 21: 607–614.Google Scholar