Use of tall fescue EST-SSR markers in phylogenetic analysis of cool-season forage grasses

Genome

Volumn 48, Issue 4, 2005, Pages 637-647

  Rouf Mian, M A ^a,b   Saha, Malay C ^a   Hopkins, Andrew A ^a   Wang, Zeng Yu ^a  

^a PLANT BIOLOGY DIVISION   (United States)

^b OHIO STATE UNIVERSITY   (United States)

Author keywords

EST SSR; Forage grasses; Phylogeny; Tall fescue

Indexed keywords

MICROSATELLITE DNA; PLANT DNA;

ALLELE; ARTICLE; CHEMISTRY; CLASSIFICATION; DNA SEQUENCE; GENETICS; GENOTYPE; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; POACEAE; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY; SPECIES DIFFERENCE;

ALLELES; BASE SEQUENCE; DNA, PLANT; GENOTYPE; MICROSATELLITE REPEATS; MOLECULAR SEQUENCE DATA; PHYLOGENY; POACEAE; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, NUCLEIC ACID; SPECIES SPECIFICITY;

FESTUCA; LOLIUM; LOLIUM TEMULENTUM; POACEAE; SCHEDONORUS ARUNDINACEUS; THINOPYRUM ELONGATUM; TRITICUM AESTIVUM;

EID: 26944484433     PISSN: 08312796     EISSN: None     Source Type: Journal    
DOI: 10.1139/G05-029     Document Type: Article

References (49)

1. Ahn, S.N., and Tanksley, S.D. 1993. Comparative linkage maps of the rice and maize genomes. Proc. Natl. Acad. Sci. U.S.A. 90: 7980-7984.
2. Alm, V., Fang, C., Busso, C.S., Devos, K.M., Vollan, K., Grieg, Z. et al. 2003. A linkage map of meadow fescue (Festuca pratensis Huds.) and comparative mapping with other Poaceae species. Theor. Appl. Genet. 108: 25-40.
3. Casler, M.D., Rangel, Y., Stier, J.C., and Jung, G. 2003. RAPD marker diversity among creeping bentgrass clones. Crop Sci. 43: 688-693.
4. Charmet, G., Ravel, C., and Balfourier, F. 1997. Phylogenetic analysis in the Festuca-Lolium complex using molecular markers and ITS rDNA. Theor. Appl. Genet. 94: 1038-1046.
5. Cox, T.S. 1991. The contribution of introduced germplasm to the development of U.S. wheat cultivars. In Use of plant introductions in cultivar development, part 1. Edited by H.L. Shands and L.E. Wiesner. Special Publication No. 17. American Society of Agronomy-Crop Science Society of America-Soil Science Society of America, Madison, Wisc. pp. 25-47.
6. Devos, K.N., Millan, T., and Gale, M.D. 1993. Comparative RFLP maps of homoeologous group 2 chromosomes of wheat, rye and barley. Theor. Appl. Genet. 85: 784-792.
7. Diaby, M., and Casler, M.D. 2003. RAPD marker variation among smooth bromegrass cultivars. Crop Sci. 43: 1538-1547.
8. Dice, L.R. 1945. Measures of the amount of ecologic association between species. Ecology, 26: 297-302.
9. Dirlewanger, E., Cosson, P., Tavaud, M., Aranzana, M.J., Poizat, C., Zanettto, A. et al. 2002. Development of microsatellite markers in peach [Prunus persica (L.) Batsch] and their use in genetic diversity analysis in peach and sweet cherry (Prunus avium L.). Theor. Appl. Genet. 105: 127-138.
10. Eujayl, I., Sledge, M.K., Wang, L., May, G.D., Chekhovskiy, K., Zwonitzer, J.C. et al. 2004. Medicago truncatula EST-SSRs reveal cross-species genetic markers for Medicago spp. Theor. Appl. Genet. 108: 414-422.
11. Gaitán-Solis, E., Duque, M.C., Edwards, K.J., and Tohme, J. 2002. Microsatellite repeats in common bean (Phaseolus vulgaris): isolation, characterization, and cross-species amplification in Phaseolus ssp. Crop Sci. 42: 2128-2136.
12. Gale, M.D., and Devos, K.M. 1998. Comparative genetics in the grasses. Proc. Natl. Acad. Sci. U.S.A. 95: 1971-1974.
13. Hsiao, C., Chatterton, N.J., Asay, K.H., and Jensen, K.B. 1995. Molecular phylogeny of the Pooideae (Poaceae) based on nuclear rDNA (ITS) sequences. Theor. Appl. Genet. 90: 389-398.
14. Huff, D.R., Peakall, R., and Smouse, P.E. 1993. RAPD variation within and among natural populations of outcrossing buffalograss [Buchloë dactyloides (Nutt.) Engelm.]. Theor. Appl. Genet. 86: 927-934.
15. Humphreys, M.W., Thomas, H.M., Morgan W.G., Meredith, M.R., Harper, J.A., Thomas, H. et al. 1995. Discriminating the ancestral progenitors of hexaploid Festuca arundinacea using genomic in situ hybridization. Heredity, 75: 171-174.
16. Jauhar, P.P. 1995. Meiosis and fertility of F1 hybrids between hexaploid bread wheat and decaploid tall wheatgrass (Thinopyrum ponticum). Theor. Appl. Genet. 90: 865-871.
17. Jones, E.S., Mahoney, N.L., Hayword, M.D., Armstead, I.P., Jones, J.G., Humphreys, M.O. et al. 2002. An enhanced molecular marker based genetic map of perennial ryegrass (Lolium perenne) reveals comparative relationships with other Poaceae genomes. Genome, 45: 282-295.
18. Kantety, R.V., Rota, M.L., 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.
19. Kubik, C., Sawkins, M., Meyer, W.A., and Gaut, B.S. 2001. Genetic diversity in seven perennial ryegrass (Lolium perenne L.) cultivars based on SSR markers. Crop Sci. 41: 1565-1572.
20. Kurata, N., Moore, G., Nagumara, Y., Foote, T., Yano, M., Minobe, Y. et al. 1994. Conservation of genome structure between rice and wheat. Biotechnology, 12: 276-278.
21. Larkin, P.J., Banks, P.M., and Xiao, C. 1995. Registration of six genetic stocks of wheat with rust and BYDV resistance: Z1, Z2, Z3, Z4, Z5, and Z6 disomic addition lines with Thinopyrum intermedium chromosomes. Crop Sci. 35: 604.
22. Larson, S.R., Palazzo, A.J., and Jensen, K.B. 2003. Identification of western wheatgrass cultivars and accessions by DNA fingerprinting and geographic provenance. Crop Sci. 43: 394-401.
23. Leväslaiho, H., Saura, A., and Lokki, J. 1987. Chloroplast DNA variation in the grass tribe Festuceae. Theor. Appl. Genet. 74: 298-302.
24. Mian, M.A.R., Wang, Z., Eujayl, I., Zhang, J., Chen, L., Scott, A.D. et al. 2002a. EST and expression analysis in tall fescue (abstract). In Plant & Animal Genome X, the International Conference on the Status of Plant & Animal Genome Research, 12-16 January 2002. San Diego, Calif. p. 92.
25. Mian, M.A.R., Hokins, A.A, and Zwonitzer, J.C. 2002b. Determination of genetic diversity in tall fescue with AFLP markers. Crop Sci. 42: 944-950.
26. Nei, M., and Li, W.H. 1979. Mathematical model for studying genetic variation in terms of restriction endonucleases. Proc. Natl. Acad. Sci. U.S.A. 76: 5269-5273.
27. Pašakinskienė, I., Griffiths, C.M., Bettany, A.J.E., Paplauskienė V., and Humphreys, M.W. 2000. Anchored simple-sequence repeats as primers to generate species-specific DNA markers in Lolium and Festuca grasses. Theor. Appl. Genet. 100: 384-390.
28. Peakall, R., Gilmore, S., Keys, W., Morgante, M., and Rafalski, A. 1998. Cross species amplification of soybean (Glycine max) simple sequence repeat (SSRs) within the genus and other legume genera: implication for transferability of SSRs in plants. Mol. Biol. Evol. 15: 1275-1287.
29. Roa, A.C., Chavarriaga-Aguirre, P., Duque, M.C., Maya, M.M., Bonierbale, M.W., Iglesias, C. et al. 2000. Cross-species amplification of cassava (Manihot esculenta) (Euphorbiaceae) microsatellites: allelic polymorphism and degree of relationship. Am. J. Bot. 87: 1647-1655.
30. Rohlf, F.J. 2002. NTSYS-pc. Numerical Taxonomy and Multivariate Analysis System, Version 2.10. Exeter Software, New York, N.Y.
31. Roldan-Ruiz, I., Dendauw, J., Van Bockstaele, E., Depicker, A., and De Loose, M. 2000. AFLP markers reveal high polymorphic rates in ryegrasses (Lolium spp.). Mol. Breed. 6: 125-134.
32. Saha, M.C., Mian, M.A.R., Eujayl, I., Zwonitzer, J.C., Wang, L., and May, G.D. 2004. Tall fescue EST-SSR markers with transferability across several grass species. Theor. Appl. Genet. 109: 783-791.
33. Schulz-Schaeffer, J., and Haller, S.E. 1987. Registration of Montana-2 perennial X Agrotriticum intermediodurum Khizhnyak. Crop Sci. 27: 822-823.
34. Scott, K.D., Eggler, P., Seaton, G., Rossetto, M., Ablett, E.M., Lee, L.S. et al. 2000. Analysis of SSRs derived from grape ESTs. Theor. Appl. Genet. 100: 723-726.
35. Sleper, D.A. 1985. Breeding tall fescue. J. Plant Breed. Rev. 3: 313-342.
36. Stammers, M., Harris, J., Evans, G.M., Hayward, M.D., and Forster, J.W. 1995. Use of random PCR (RAPD) technology to analyse phylogenetic relationships in the Lolium/Festuca complex. Heredity, 74: 19-27.
37. Sun, G.L., Diaz, O., Salomon, B., and von Bothmer, R. 1999. Genetic diversity in Elymus caninus as revealed by isozyme, RAPD, and microsatellite markers. Genome, 42: 420-431.
38. Temnykh, S., Park, W.D., Ayers, N., Cartinhour, S., Hauck, N., Lipovich, L. et al. 2000. Mapping and genome organization of microsatellite sequences in rice (Oryza sativa L.). Theor. Appl. Genet. 100: 697-712.
39. Terrell, E.E. 1966. Taxonomic implications of genetics in ryegrass (Lolium). Bot. Rev. 32: 138-164.
40. Thiel, T., Michalek, W., Varshney, R.K., and Graner, A. 2003. Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley (Hordeum vulgare L.). Theor. Appl. Genet. 106: 411-422.
41. Vallés, M.P., Wang, Z.Y., Montavon, P., Potrykus, I., and Spangenberg, G. 1993. Analysis of genetic stability of plants regenerated from suspension cultures and protoplasts of meadow fescue (Festuca pratensis Huds.). Plant Cell Rep. 12: 101-106.
42. Van Deynze, A.E., Nelson, J.C., O'Donoughue, L.S., Ahn, S.N., Siripoonwiwat, W., Harrington, S.E. et al. 1995. Comparative mapping in grasses. Oat relationships. Mol. Gen. Genet. 249: 349-356.
43. Vergara, G.V., and Bughrara, S.S. 2003. AFLP analyses of diversity in bentgrass. Crop Sci. 43: 2162-2171.
44. Wang, Z., Hopkins, A.A., and Mian, M.A.R. 2001. Forage and turf grass biotechnology. Crit. Rev. Plant Sci. 20: 573-619.
45. White, G., and Powell, W. 1997. Isolation and characterization of microsatellite loci in Swietenia humilis (Meliaceae): an endangered tropical hardwood species. Mol. Ecol. 6: 851-860.
46. Wu, L., and Lin, H. 1994. Identifying buffalograss (Buchloe dactyloides (Nutt.) Engelm.) cultivar breeding lines using random amplified polymorphic DNA (RAPD) markers. J. Am. Soc. Hort. Sci. 119: 126-130.
47. Xu, W.W., and Sleper, D.A. 1994. Phylogeny of tall fescue and related species using RFLPs. Theor. Appl. Genet. 88: 685-690.
48. Yaneshita, M., Ohmura, T., Sasakuma, T., and Ogihara, Y. 1993. Phylogenetic relationships of turfgrasses as revealed by restriction fragment analysis of chloroplast DNA. Theor. Appl. Genet. 87: 129-135.
49. Zhang, L.H., Ozias-Akins, P., Kochert, G., Kresovich, S., Dean, R., and Hanna, W. 1999. Differentiation of bermudagrass (Cynodon spp.) genotypes by AFLP analyses. Theor. Appl. Genet. 98: 895-902.