Abstract

We have exploited the repetitive and dispersed nature of many long terminal repeat (LTR)-retrotransposon families for characterizing genome constitutions and classifying cultivars of the genus Musa. Insertional polymorph isms of the elements were studied using seven published and two newly designed primers facing outwards from the LTRs and reverse transcriptase (RT) domain of the retrotransposon. The primers generated specific amplification patterns showing the universal applicability of this marker type. The Inter-Retrotransposon Amplified Polymorphism (IRAP) markers distinguished the A and B genomes of the banana species (Musa acuminata Colla and Musa balbisiana Colla) and between banana cultivars. The IRAP markers enabled phylogenetic analysis of 16 Malaysian banana cultivars and determination of the genome constitution of hybrid banana (AAB, ABB, AABB, and AAAB), and gave information about ancestral genotypes of the hybrids. In addition, the IRAP detected new retrotransposon insertions into the genome of tissue culture regenerants. This PCR-based IRAP assay is amenable to large-scale throughput demands in screening breeding populations and is applicable for any crop.

참고문헌 (28)

1. Flavell AJ, Dunbar E, Anderson R, Pearce SR, Hartley R, Kumar A (1992) Ty1-copia group retrotransposons are ubiquitous and heterogeneous in higher plants. Nucl Acids Res 20: 3639-3644 
2. Grandbastien M-A, Spielmann A, Caboche M (1989) Tnt1, a mobile retroviral-like transposable element of tobacco isolated by plant cell genetics. Nature 337: 376-380 
3. Hirochika H (1993) Activation of tobacco retrotrans- posons during tissue culture. EMBO J 12: 2521-2528 
4. Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4: 406-425 
5. SanMiguel P, Tikhonov A, Jin YK, Motchoulskaia N, Zakharov D, Melake-Berhan A, Springer PS, Edwards KJ, Lee M, Avramova Z, Bennetzen JL (1996) Nested retrotransposons in the intergenic regions of the maize genome. Science 274: 765-768 
6. Shirasu K, Schulman AH, Lahaye T, Schulze-Lefert P (2000) A contiguous 66 kb barley DNA sequence provides evidence for reversible genome expansion. Genome Res 10: 908-915 
7. Stover P, Simmonds NW (1987) Bananas, Ed 3. Longman, London 
8. Boyko E, Kalendar R, Korzun V, Gill B, Schulman AH (2002) Combined mapping of Aegilops tauschii by retrotransposon, microsatellite, and gene markers. Plant Mol Biol 48: 767-790 
9. Tatout C, Warwick S, Lenoir A, Deragon JM (1999) Sine insertions as clade markers for wild Crucifer species. Mol Biol Evol 16: 1614-1621 
10. Pearce SR, Knox M, Ellis THN, Flavell AJ, Kumar A (2000) Pea Ty1-copia group retrotransposons: transpositional activity and use as markers to study genetic diversity in Pisum. Mol Gen Genet 263: 898-907 
11. Vicient CM, jaaskelainen M, Kalendar R, Schulman AH (2001) Active retrotransposons are a common feature of grass genomes. Plant Physiol 125: 1283-1292 
12. Hirochika H, Sugimoto K, Otsuki Y, Tsugawa H, Kanda M (1996) Retrotransposons of rice involved in mutations induced by tissue culture. Proc Natl Acad Sci USA 93: 7783-7788 
13. Nakayashiki H, Ikeda K, Hashimota Y, Tosa Y, Mayama S (2001) Methylation is not the main force repressing the retrotransposon MAGGY in Magnaporthe grisea. Nucl Acids Res 29: 1278-1284 
14. Pearce SR, Stuart-Rogers C, Knox MR, Kumar A, Ellis THN, Flavell AJ (1999) Rapid isolation of plant Ty1-copia group retrotransposon LTR sequences for molecular marker studies. Plant J 19: 711-717 
15. Shimamura M, Yasue H, Ohshima K, Abe H, Kato H, Kishiro T, Goto M, Munechika I, Okada N (1997) Molecular evidence from retroposons that whales form a clade within even-toed ungulates. Nature 388: 666-670 
16. Pearce SR, Harrison G, Li D, Heslop-Harrison JS, Kumar A, Flavell AJ (1996) The Ty1-copia group of retrotransposons in Vicia species: Copy number, sequence heterogeneity and chromosomal localisation. Mol Gen Genet 205: 305-315 
17. Iwamoto M, Nagashima H, Nagamine T, Higo T, Higo K (1999) p-SINE1-like intron of the CatA catalase homologs and phylogenetic relationships among Mgenome Oryza and related species. Theor Appl Genet 98: 853-861 
18. Horry JP, Ortiz R, Arnaud E, Crouch JH, Ferris RSB, Jones DR, Mateo N, Picq C, Vuylsteke (1997) Banana and plantain. In D Fuccillo, L Sears, P Stapleton, eds, Biodiversity in Trust. (Conservation and Use of Plant Genetic Resources in CGIAR Centres), Cambridge University, London, pp 67-81 
19. Voytas DF, Cummings MP, Konieczny AK, Ausubel FM, Rodermel SR (1992) Copia-like retrotransposons are ubiquitous among plants. Proc Natl Acad Sci USA 89: 7124-7128 
20. Kumar A, Bennetzen J (1999) Plant retrotransposons. Ann Rev Genet 33: 479-532 
21. Manninen O, Kalendar R, Robinson J, Schulman AH (2000) Application of BARE-1 retrotransposon markers to the mapping of a major resistance gene for net blotch in barley. Mol Gen Genet 264: 325-334 
22. Baumel A, Ainouche M, Kalendar R, Schulman AH (2002) Inter-retrotransposon amplified polymorphism (IRAP), and retotransposon-microsatellite amplified polymorphism (REMAP) in populations of the young allopolyploid species Spartina angelica Hubbard (Poaceae). Mol Biol Evol 19: 1218-1227 
23. Kalendar R, Grob T, Regina M, Suonierni A, Schulman AH (1999) IRAP and REMAP: Two new retrotransposonbased DNA fingerprinting techniques. Theor Appl Genet 98: 704-711 
24. Vicient CM, Schulman AH (2002) Copia-like retrotransposons in the rice genome: few and assorted. Genome Lett 1: 35-47 
25. Kalendar R, Tanskanen J, Immonen S, Nevo E, Schulman AH (2000) Genome evolution of wild barley (Hordeum spontaneum) by BARE-1 retrotransposon dynamics in response to sharp microclimatic divergence. Proc Natl Acad Sci USA 97: 6603-6607 
26. Teo CH, Tan SH, Othman YR, Schwarzacher T (2002) The cloning of Ty1-copia-like retrotransposons from 10 varieties of banana (Musa sp.). J Biochem Mol Biol Biophys 6: 193-201 
27. Flavell AJ, Knox MR, Pearce SR, Ellis THN (1998) Retrotransposon-based insertion polymorph isms (RBIP) for high throughput marker analysis. Plant J 16: 643-650 
28. Waugh R, McLean K, Flavell AJ, Pearce SR, Kumar A, Thomas SBT, Powell W (1997) Genetic distribution of BARE-1-like retrotransposable elements in the barley genome revealed by sequence-specific amplification polymorph isms (S-SAP). Mol Gen Genet 253: 687-694 

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