Isolation of EST-derived microsatellite markers for genotyping the A and B genomes of wheat

Theoretical and Applied Genetics

Volumn 104, Issue 2-3, 2002, Pages 399-407

  Eujayl, I ^a   Sorrells, M E ^b   Baum, M ^a   Wolters, P ^c   Powell, W ^c,d  

^a INTERNATIONAL CENTER FOR AGRICULTURAL RESEARCH IN THE DRY AREAS ICARDA   (Syrian Arab Republic)

^b Department of Population Medicine and Diagnostic Sciences   (United States)

^c DUPONT COMPANY   (United States)

^d SCOTTISH CROP RESEARCH INSTITUTE   (United Kingdom)

Author keywords

Durum wheat; EST SSR; Functional diversity; Genotyping

Indexed keywords

BIODIVERSITY; CROPS; DNA; GENES;

MICROSATELLITE MARKERS;

GENETIC ENGINEERING;

EMBRYOPHYTA; TRITICUM AESTIVUM; TRITICUM TURGIDUM SUBSP. DURUM;

EID: 0346949030     PISSN: 00405752     EISSN: None     Source Type: Journal    
DOI: 10.1007/s001220100738     Document Type: Article

References (36)

1. Adams MD, Dubnick M, Kerlavage AR, Moreno R, Kelley JM, Utterback TR, Nagle JW, Fields C, Venter JC (1992) Sequence identification of 2375 human brain genes. Nature 355:632-634
2. Ajioka JW (1998) Toxoplasma gondii: ESTs and gene discovery. Int J Parasitol 28:1025-1031
3. Altschul SF, Gish W, Miller W, Myers EW, Lipman D (1990) Basic local alignment search tool. J Mol Biol 215:403-410
4. Autrique E, Nachit MM, Monneveux P, Tanksley SD, Sorrells ME (1996) Genetic diversity in durum wheat based on RFLPs, morphophysiological traits and coefficient of parentage. Crop Sci 36:735-742
5. Ayers NM, McClung AM, Larkin PD, Bligh HFJ, Jones CA, Park WD (1997) Microsatellites and a single nucleotide polymorphism differentiate apparent amylose classes in an extended pedigree of US rice germplasm. Theor Appl Genet 94:773-781
6. Blanco A, Bellomo MP, Cenci A, De Giovanni C, D'Ovidio R, Iacono E, Laddomada B, Simeone R, Tanzarella OA, Porceddu E (1998) A genetic linkage map of durum wheat. Theor Appl Genet 97:721-728
7. Bowcock AM, Ruiz-Linares A, Tomfohrde J, Munch E, Kidd JR, Cavalli-Sforza LL (1994) High resolution of human evolutionary trees with polymorphic microsatellites. Nature 368:455-457
8. Briggs SP (1998) Plant genomics: More food for thought. Proc Nat Acad Sci USA 95:1986-1988
9. Bryan GJ, Collins AJ, Stephenson P, Smith JB, Orry A, Gale MD (1997) Isolation and characterisation of microsatellites from hexaploid bread wheat. Theor Appl Genet 94:557-563
10. Chakraborty R, Kimmel M, Strivers DN, Davison LJ, Deka R (1997) Relative mutation rates at di- tri- and tetra-nucleotide microsatellite loci. Proc Nat Acad Sci USA 94:1041-1046
11. Chen XN, Livak KJ, Kwok PY (1998) A homogeneous, ligase-mediated DNA diagnostic test. Genome Rese 8:549-556
12. Cho RJ, Mindrinos M, Richards DR, Sapolsky RJ, Anderson M, Drenkard E, Dewdney L, Reuber TL, Stammers M, Federspiel N, Theologis A, Yang WH, Hubbel E, Au M, Chung EY, Lashkari D, Lemieux B, Dean C, Lipshutz RJ, Ausubel FM, Davis RW, Oefner PJ (1999) Genome-wide mapping with biallelic markers in Arabidopsis thaliana. Nature Genet 23:203-207
13. Cho YG, Ishii T, Temnykh S, Chen X, Lipovich L, McCouch SR, Parl WD, Ayres N, Cartinhour S (2000) Diversity of microsatellites derived from genomic libraries and GenBank sequences in rice (Oryza satica L.). Theor Appl Genet 100:713-722 Delseney M, Cooke R, Raynal M, Grellet F (1997) The Arabidopsis thaliana cDNA sequencing project. FEBS Lett 405: 129-132
14. Cho YG, Ishii T, Temnykh S, Chen X, Lipovich L, McCouch SR, Parl WD, Ayres N, Cartinhour S (2000) Diversity of microsatellites derived from genomic libraries and GenBank sequences in rice (Oryza satica L.). Theor Appl Genet 100:713-722 Delseney M, Cooke R, Raynal M, Grellet F (1997) The Arabidopsis thaliana cDNA sequencing project. FEBS Lett 405: 129-132
15. Di Rienzo A, Peterson AC, Garza JC, Valdes AM, Slatkin M, Freimer NB (1994) Mutational process of simple-sequence repeat loci in human populations. Proc Nat Acad Sci USA 91:3166-3170
16. Erdos MR, Braun A, Mihike K, Silander K, Ghosh S, Collins FS (1999) MALDI-TOF mass spectrometry for high throughput SNP detection: Application to type-2 diabetes. Am J Human Genet 65:1381
17. Korzun V, Röder MS, Wendehake K, Pasqualone A, Lotti C, Ganal MW, Blanco A (1999) Integration of dinucleotide microsatellites from hexaploid bread wheat into a genetic linkage map of durum wheat. Theor Appl Genet 98:1202-1207
18. Kuklin A, Munson K, Gjerde D, Haefele R, Taylor P (1997) Detection of single-nucleotide polymorphisms with the WAVE (TM) DNA fragment-analysis system. Genet Testing 1:201-206
19. Paetkau D, Calvert W, Stirling I, Strobeck C (1995) Microsatellite analysis of population structure in Canadian polar bears. Mol Ecol 4:347-354
20. Plaschke P, Ganal MW, Röder MS (1995) Detection of genetic diversity in closely related bread wheat using microsatellite markers. Theor Appl Genet 91:1001-1007
21. Powell W, Machray GC, Provan J (1996) Polymorphism revealed by simple sequence repeats. Trends Plant Sci 7:215-222
22. Prasad M, Varshney RK, Roy JK, Balyan HS, Gupta PK (2000) The use of microsatellites for detecting DNA polymorphism, genotype identification and genetic diversity in wheat. Theor Appl Genet 100:584-592
23. Röder MS, Plaschke J, Kösnig SU, Börner A, Sorrells ME, Tanksley SD, Ganal MW (1995) Abundance, variability and chromosomal location of microsatellites in wheat. Mol Gen Genet 246:327-333
24. Röder MS, Korzun V, Wendehake K, Plaschke J, Tixier M, Leroy P, Ganal M (1998) A microsatellite map of wheat. Genetics 149:2007-2023
25. Rohlf, FJ (1990): NTSYS-Pc Manual. Exeter Software, Setauket, New York
26. Scott KD, Eggler P, Seaton G, Rosetto M, Ablett EM, Lee LS, Henry RJ (2000) Analysis of SSRs derived from grape ESTs. Theor Appl Genet 100:723-726
27. Shure M, Wessler S, Fedoroff N (1983) Molecular identification and isolation of the Waxy locus in maize. Cell 35:225-233
28. Sorrells ME, Barbosa J, Nachit MM, Ketata H, Autrique E (1995) Relationships among 81 durum genotypes based on RFLPs, gliadins, parentage and quality traits. Options Mediterraneenes, Serie A, Seminaires Mediterraneens, 22:249-262
29. Stachel M, Lelley T, Grausgruber H, Vollmann J (2000) Application of microsatellites in wheat (Triticum aestivum L.) for studying genetic differentiation caused by selection for adaptation. Theor Appl Genet 100:242-248
30. Takahashi N, Ko MS (1994) Toward a whole cDNA catalogue: Construction of an equalised cDNA library from mouse embryos. Genomics 23:202-210
31. Tautz D (1989) Hypervariability of simple sequences as a general source for polymorphic DNA markers. Nucleic Acids Res 17:6463-6471
32. Tautz D, Renz M (1984) Simple sequences are ubiquitous repetitive components of eukaryotic genomes. Nucleic Acids Res 12:4127-4138
33. Yamamito K, Sasaki T (1997) Large-scale EST sequencing in rice. Plant Mol Biol 35:135-144
34. Vassarotti A, Goffeau A (1992) Sequencing the yeast genome: The European effort. Trends Biotechnol 10:15-18
35. Waterston R, Martin C, Craxton M, Huynh C, Coulson A, Hillier L, Durbin R, Green P, Shownkeen R, Halloran N (1992) A survey of expressed genes in Caenorhabditis elegans. Nature Genet 1:114-123
36. Weir BS (1990) Genetic Data Analysis. Sinauer Associates, Sunderland, Massachusetts