Characterization of dinucleotide and trinucleotide EST-derived microsatellites in the wheat genome

Euphytica

Volumn 153, Issue 1-2, 2007, Pages 73-85

  Gadaleta, Agata ^a   Mangini, Giacomo ^a   Mulè, Giuseppina ^b   Blanco, Antonio ^a  

^a UNIVERSITY OF BARI   (Italy)

^b INSTITUTE OF SCIENCES OF FOOD PRODUCTION   (Italy)

Author keywords

EST SSR; Microsatellites; Molecular markers; Wheat

Indexed keywords

TRITICUM AESTIVUM; TRITICUM TURGIDUM; TRITICUM TURGIDUM SUBSP. DURUM;

EID: 33846029798     PISSN: 00142336     EISSN: 15735060     Source Type: Journal    
DOI: 10.1007/s10681-006-9243-z     Document Type: Article

References (37)

1. Anderson JA, Churchill GA, Sutrique JE, Tanksley SD, Sorrells ME (1993) Optimizing parental selection for genetic linkage maps. Genome 36:181-186
2. Baek HJ, Beharav A, Nevo E (2003) Ecological-genomic diversity of microsatellites in wild barley Hordeum spontaneum, population in Jordan. Theor Appl Genet 106:397-410
3. Bandopadhyay R, Sharma S, Rustgi S, Singh R, Kumar A, Balyan HS, Gupta PK (2004) DNA polymorphic among 18 species of Triticum-Aegilops complex using wheat EST-SSRs. Plant Sci 166:349-356
4. Becker J, Heun M (1996) Barley microsatellites: allele variation and mapping. Plant Mol Biol 27:835-845
5. Cho YG, Ishii T, Temnykh S, Chen X, Lipovich L, McCouch SR, Park WD, Ayer N, Cartinhour S (2000) Diversity of microsatellites derived from genomic libraries and GenBank sequences in rice (Oryza sativa). Theor Appl Genet 100:713-722
6. Decroocq V, Fave MG, Hagen L, Bordenave L (2003) Development and transferability of apricot and grape EST microsatellite markers across taxa. Theor Appl Genet 106:912-922
7. Edwards KJ, Barker JHA, Daly A, Jones C, Karp A (1996) Microsatellite libraries enriched for several microsatellite sequences in plants. Biotechniques 20:759-760
8. Eujayl I, Sorrells ME, Baum M, Wolters P, Powell W (2001) Assessment of genotypic variation among cultivated durum wheat based on EST-SSRs and genomic SSRs. Euphytica 119:39-43
9. Eujayl I, Sorrells ME, Baum M, Wolters P, Powell W (2002) Isolation of EST-derived microsatellite markers for genotyping the A and B genomes of wheat. Theor Appl Genet 104:399-407
10. Fisher PJ, Richardson TE, Gardener RC (1998) Characteristics of single- and multi-copy microsatellites in Pinus radiate. Theor Appl Genet 96:969-979
11. Gao L, Tang J, Li H, Jia J (2003) Analysis of microsatellites in major crops assessed by computational and experimental approaches. Mol Breed 12:245-261
12. Guyomarc'h H, Sourdille P, Charmet G, Edwards KJ, Bernard M (2002) Characterization of polymorphic microsatellite markers from Aegilops tauschii and transferability to the D-genome of bread wheat. Theor Appl Genet 104:1164-1172
13. Holton TA, Christopher JT, McClure L, Harker N, Henry RJ (2002) Identification and mapping of polymorphic SSR markers from expressed gene sequences of barley and wheat. Mol Breed 9:63-71
14. Kanteny RV, La Rota M, Matthews DE, Sorrells ME (2002) Data mining for simple sequences repeats in expressed sequence tags from barley, maize, rice, sorghum, and wheat. Plant Mol Biol 48:501-510
15. Lagercrantz U, Ellegren H, Andersson L (1993) The abundance of various polymorphic microsatellite motifs differs between plants and vertebrates. Nucleic Acids Res 21:1111-1115
16. Leigh F, Lea V, Law J, Wolters P, Powell W, Donini P (2003). Assessment of EST- and genomic microsatellite markers for variety discrimination and genetic diversity studies in wheat. Euphytica 133:359-366
17. Li YC, Korol AB, Fahima T, Beiles A, Nevo E (2002) Microsatellites: genomic distribution, putative functions, and mutational mechanisms (a review). Mol Ecol 11:2543-2565
18. Morgante M, Olivieri AM (1993) PCR-amplified microsatellites as markers in plant genetics. Plant J 3:175-183
19. Morgante M, Hanafey M, Powell W (2002) Microsatellites are preferentially associated with non repetitive DNA in plant genomes. Nat Genet 30:194-200
20. Nicot N, Chiquet V, Gandon B, Amilhat L, Legeai F, Leroy P, Bernard M, Sourdille P (2004) Study of simple sequence repeat (SSR) markers from wheat expressed sequence tags (ESTs). Theor Appl Genet 109:800-805
21. Ostrander EA, Pong PM, Rine J, Duyk G (1992) Construction of small-insert genomic DNA libraries highly enriched for microsatellite sequences. Proc Natl Acad Sci USA 89:3419-3423
22. Peng JH, Nora L, Capitan V (2005) Characterization of EST-derived microsatellites in the wheat genome and development of eSSR markers. Funct Integra Genomics 5:80-96
23. Ramsay L, Macaulay M, Cardle L, Morgante M, Degli Ivanissevich S, Maestri E, Powell W, Waugh R (1999) Intimate association of microsatellite repeats with retrotransposons and other dispersed repetitive elements in barley. Plant J 17:415-425
24. Röder MS, Korzun V, Wendehake K, Plaschke J, Tixier NH, Laroy P, Ganal MV (1998). A microsatellite map of wheat. Genetics 149:2007-2023
25. Rudd S (2003) Expressed sequence tags: alternative or complement to whole genome sequences? Trends Plant Sci 8:321-329
26. Schlötterrer C, Tautz D (1992) Slippage synthesis of simple sequence DNA. Nucleic Acids Res 20:211-215
27. Sharp PJ, Kreis M, Shewry PR, Gale MD (1988) Location of β-amylases sequences in wheat and its relatives. Theor Appl Genet 75:286-290
28. Smulders MJM, Bredemeijer G, Rus-Kortekass W, Arens P, Vosman B (1997) Use of short microsatellites from data base sequences to generate polymorphism among Lycopersicon esculentum cultivars and accessions of other Lycopersicon species. Theor Appl Genet 97:264-272
29. Song QJ, Fickus EW, Cregan PB (2002) Characterization of trinucleotide SSR motifs in wheat. Theor Appl Genet 104:286-293
30. Thiel T, Michaelek W, Varshney RK, 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
31. Tòth G, Gáspári Z, Jurka J (2000) Microsatellites in different eukaryotic genomes: survey and analysis. Genome Res 10:967-981
32. Turpeinen T, Tenhola T, Manninen O, Nevo E, Nissila E (2001) Microsatellite diversity associated with ecology factors in Hordeum spontaneum populations in Israel. Mol Ecol 10:1577-1591
33. n polymorphisms. Genomics 7:524-530
34. Weising K, Fing RWM, Keeling RG, Atkinson RG, Gardner RC (1996) Characterization of microsatellites from Actinidia chinensis. Mol Breed 2:117-131
35. Westman AL, Kresovich S (1998) The potential of cross-taxa simple sequence repeat (SSR) amplification between Arabidopsis thaliana L. and crop brassicas. Theor Appl Genet 96:272-278
36. Yu JK, La Rota M, Kanteny RV, Sorrels ME (2004) EST derived SSR markers for comparative mapping in wheat and rice. Mol Gen Genomics 271:742-751
37. Zang LY, Bernard M, Leroy P, Feuillet C, Sourdille P (2005) High transferability of bread wheat EST-derived SSRs to other cereals. Theor Appl Genet 111:677-687