Polyploidization-induced genome variation in triticale

Genome

Volumn 47, Issue 5, 2004, Pages 839-848

  Ma, Xue Feng ^a   Fang, Peng ^a   Gustafson, J Perry ^a  

^a UNIVERSITY OF MISSOURI   (United States)

Author keywords

Genome evolution; Polyploid; Rye; Sequence elimination; Wheat

Indexed keywords

COMPLEMENTARY DNA; PRIMER DNA; RESTRICTION ENDONUCLEASE;

ARTICLE; CEREAL; EVOLUTION; GENE EXPRESSION REGULATION; GENETIC VARIABILITY; GENETICS; GENOME; METABOLISM; PHYSIOLOGY; POLYPLOIDY; RESTRICTION FRAGMENT LENGTH POLYMORPHISM;

CEREALS; DNA PRIMERS; DNA RESTRICTION ENZYMES; DNA, COMPLEMENTARY; EVOLUTION; GENE EXPRESSION REGULATION, PLANT; GENOME, PLANT; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; POLYPLOIDY; VARIATION (GENETICS);

EMBRYOPHYTA; SECALE CEREALE; TRITICOSECALE; TRITICUM; TRITICUM AESTIVUM;

EID: 11144296219     PISSN: 08312796     EISSN: None     Source Type: Journal    
DOI: 10.1139/G04-051     Document Type: Article

References (64)

1. Adams, K.L., Cronn, R., Percifield, R., and Wendel, J.F. 2003. Genes duplicated by polyploidy show unequal contributions to the transcriptome and organ-specific reciprocal silencing. Proc. Natl. Acad. Sci. USA. 100: 4649-4654.
2. Alkhimova, A.G., Heslop-Harrison, J.S., Shchapova, A.I., and Vershinin, A.V. 1999. Rye chromosome variability in wheat-rye addition and substitution lines. Chromosome Res. 7: 205-211.
3. Baumel, A., Ainouche, M.L., and Levasseur, J.E. 2001. Molecular investigations in populations of Spartina anglica C. E. Hubbard (Poaceae) invading coastal Brittany (France). Mol. Ecol. 10: 1689-1701.
4. Baumel, A., Ainouche, M., Kalendar, R., and Schulman, A.H. 2002. Retrotransposons and genomic stability in populations of the young allopolyploid species Spartina anglica C. E. Hubbard (Poaceae). Mol. Biol. Evol. 19: 1218-1227.
5. Baumel, A., Ainouche, M.L., Misset, M.T., Gourret, J.-P., and Bayer, R.J. 2003. Genetic evidence for hybridization between the native Spartina maritima and the introduced Spartina alterniflora (Poaceae) in South-West France: Spanina x neyrautii re-examined. Plant Syst. Evol. 237: 87-97.
6. Bennett, M.D., and Leitch, I.J. 1995. Nuclear DNA amounts in angiosperms. Ann. Bot. (London), 76: 113-176.
7. Boyko, E.V., Badaev, N.S., Maximov, N.G., and Zelenin, A.V. 1984. Does DNA content change in the course of triticale breeding? Cereal Res. Commun. 12: 99-100.
8. Brochmann, C., Nilsson, T., and Gabrielsen, T.M. 1996. A classic example of postglacial allopolyploid speciation reexamined using RAPD markers and nucleotide sequences: Saxifraga osloensis (Saxifragaceae). Acta. Univ. Ups., Symb. Bot. Ups.. 31: 75-89.
9. Comai, L. 2000. Genetic and epigenetic interactions in allopolyploid plants. Plant Mol. Biol. 43: 387-399.
10. Comai, L., Tyagi, A.P., Winter, K., Holmes-Davis, R., Reynolds, S.H., Stevens, Y., and Byers, B. 2000. Phenotypic instability and rapid gene silencing in newly formed Arabidopsis allotetraploids. Plant Cell, 12: 1551-1567.
11. Cronn, R.C., Zhao, X., Paterson, A.H., and Wendel, J.F. 1996. Polymorphism and concerted evolution in a tandemly repeated gene family: 5S ribosomal DNA in diploid and allopolyploid cottons. J. Mol. Evol. 42: 685-705.
12. Eckardt, N.A. 2001. A sense of self: the role of DNA sequence elimination in allopolyploidization. Plant Cell, 13: 1699-1704.
13. Elder, J.F., and Turner, B.J. 1995. Concerted evolution of repetitive DNA sequences in eukaryotes. Q. Rev. Biol. 70: 297-320.
14. Feldman, M., and Levy, A.A. 2003. Acceleration of genome evolution by allopolyploidy: wheat as a model. In Proceedings of the 10th International Wheat Genetics Symposium, Paestum, Italy, 1-6 September 2003. Vol. 1. Edited by N.E. Pogna, M. Romano, E.A. Pogna, and G. Galterio. Institute Sperimenta per la Cerealicoltura, Rome, Italy. pp. 11-16.
15. Feldman, M., Liu, B., Segal, G., Abbo, S., Levy, A.A., and Vega, J.M. 1997. Rapid elimination of low-copy DNA sequences in polyploid wheat: a possible mechanism for differentiation of homoeologous chromosomes. Genetics, 147: 1381-1387.
16. Finnegan, E.J., Genger, R.K., Peacock, W.J., and Dennis, E.S. 1998. DNA methylation in plants. Annu. Rev. Plant Physiol. Plant Mol. Biol. 49: 223-247.
17. Galitski, T., Saldanha, A.J., Styles, C.A., Lander, E.S., and Fink, G.R. 1999. Ploidy regulation of gene expression. Science (Washington, D.C.), 285: 251-254.
18. Gruenbaum, Y., Naveh-Many, T., Cedar, H., and Razin, A. 1981. Sequence specificity of methylation in higher plant DNA. Nature (London), 292: 860-862.
19. Gustafson, J.P. 1976. The evolutionary development of triticale: the wheat-rye hybrid. Evol. Bio. 9: 107-135.
20. Gustafson, J.P., and Flavell, R.B. 1996. Control of nucleolar expression in triticale. In Triticale: today and tomorrow. Edited by H. Guedes-Pinto, N. Darey and V.P. Carnide. Kluwer Academic Publishers, Dordrecht, the Netherlands. pp. 119-126.
21. Heun, M., Kennedy, A.E., Anderson, J.A., Lapitan, N.L.V., Sorrells, M.E., and Tanksley, S.D. 1991. Construction of a restriction fragment length polymorphism map for barley (Hordeum vulgare). Genome, 34: 437-447.
22. Houchins, K., O'Dell, M., Flavell, R.B., and Gustafson, J.P. 1997. Cytosine methylation and nucleolar dominance in cereal hybrids. Mol. Gen. Genet. 255: 294-301.
23. Kashkush, K., Feldman, M., and Levy, A.A. 2002. Gene loss, silencing and activation in a newly synthesized wheat allotetraploid. Genetics, 160: 1651-1659.
24. Kashkush, K., Feldman, M., and Levy, A.A. 2003. Transcriptional activation of retrotransposons alters the expression of adjacent genes in wheat. Nat. Gen. 33: 102-106.
25. Lacadena, J.R., Cermeno, M.C., Orellana, J., and Santos, J.L. 1984. Evidence for wheat-rye molecular competition (amphiplasty) in triticale by silver staining procedure. Theor. Appl. Genet. 67: 207-213.
26. Lee, H.-S., and Chen, Z.J. 2001. Protein-coding genes are epigenetically regulated in Arabidopsis polyploids. Proc. Natl. Acad. Sci. U.S.A. 98: 6753-6758.
27. Liu, B., and Wendel, J.F. 2002. Non-Mendelian phenomena in allopolyploid genome evolution. Curr. Genomics, 3: 1-17.
28. Liu, B., Vega, M.J., and Feldman, M. 1998a. Rapid genomic changes in newly synthesized amphiploids of Triticum and Aegilops. II. Changes in low-copy coding DNA sequences. Genome, 41: 535-542.
29. Liu, B., Vega, J.M., Segal, G., Abbo, S., Rodova, M., and Feldman, M. 1998b. Rapid genomic changes in newly synthesized amphiploids of Triticum and Aegilops. I. Changes in low-copy noncoding DNA sequences. Genome, 41: 272-277.
30. Liu, B., Brubaker, C.L., Mergeai, G., Cronn, R.C., and Wendel, J.F. 2001. Polyploid formation in cotton is not accompanied by rapid genomic changes. Genome, 44: 321-330.
31. Ma, X.-F., and Gustafson, J.P. 2004. Genome evolution of polyploids: a process of cytological and genetic diploidization. Cytogenet. Genome Res. In press.
32. Ma, X.-F., Wanous, M.K., Houchins, K., Rodriguez Milla, M.A., Goicoechea, P.G., et al. 2001. Molecular linkage mapping in rye (Secale cereale L.). Theor. Appl. Genet. 102: 517-523.
33. Ma, X.-F., Rodriguez Milla, M.A., and Gustafson, J.P. 2002. AFLP-based genome studies of triticale following polyploidization. In Proceedings of the 5th International Triticale Symposium, Radzików, Poland, 30 June - 5 July 2002. Vol. I. Edited by A. Aniol, E. Arseniuk, K. Cooper, N. Darvey, P. Gustafson, et al. Plant Breeding and Acclimatization Institute, Radzikow, Poland, pp. 89-94.
34. Madlung, A., Masuelli, R.W., Watson, B., Reynolds, S.H., Davison, J., and Comai, L. 2002. Remodeling of DNA methylation and phenotypic and transcriptional changes in synthetic Arabidopsis allotetraploids. Plant Physiol. 129: 733-746.
35. Masterson, J. 1994. Stomatal size in fossil plants: evidence for polyploidy in the majority of angiosperms. Science (Washington, D.C.), 264: 421-424.
36. Neves, N., Silva, M., Heslop-Harrison, J.S., and Viegas, W. 1997. Nucleolar dominance in triticales: control by unlinked genes. Chromosome Res. 5: 125-131.
37. Osborn, T.C., Pires, J.C., Birchler, J.A., Auger, D.L., Chen, Z.J., et al. 2003. Understanding mechanisms of novel gene expression in polyploids. Trends Genet. 19: 141-147.
38. Ozkan, H., Levy, A.A., and Feldman, M. 2001. Allopolyploidy-induced rapid genome evolution in the wheat (Aegilops-Triticum) group. Plant Cell, 13: 1735-1747.
39. Ozkan, H., Levy, A.A., and Feldman, M. 2002. Rapid differentiation of homoeologous chromosomes in newly-formed allopolyploid wheat. Isr. J. Plant Sci. 50: S65-S76.
40. Ozkan, H., Tuna, M., and Arumuganathan, K. 2003. Nonadditive changes in genome size during allopolyploidization in the wheat (Aegilops-Triticum) group. J. Hered. 94: 260-264.
41. Rieseberg, L.H. 2001. Polyploid evolution: keeping the peace at genomic reunions. Curr. Biol. 11: R925-R928.
42. Rodriguez Milla, M.A., and Gustaf son, J.P. 2001. Genetic and physical characterization of the chromosome 4DL in wheat. Genome, 44: 883-892
43. Roelofs, D., Van Velzen, J., Kuperus, P., and Bachmann, K. 1997. Molecular evidence for an extinct parent of the tetraploid species Microseris acuminata and M. campestris (Asteraceae, Lactuceae). Mol. Ecol, 6: 641-649.
44. Rozynek, B., Guenther, T., and Hesemann, C.U. 1998. Gel electrophoretic investigations of prolamins in eu- and alloplasmatic octoploid primary triticale forms. Theor. Appl. Genet. 96: 46-51.
45. Saghai Maroof, M.A., Soliman, K.M., Jorgensen, R.A., and Allard, R.W. 1984. Ribosomal DNA spacer length polymorphisms in barley: Mendelian inheritance, chromosomal location, and population dynamics. Proc. Natl. Acad. Sci. U.S.A. 81: 8014-8019.
46. Sang, T., Crawford, D.J., and Stuessy, T.F. 1995. Documentation of reticulate evolution in peonies (Paeonia) using internal transcribed spacer sequences of nuclear ribosomal DNA: implications for biogeography and concerted evolution. Proc. Natl. Acad. Sci. USA. 92: 6813-6817.
47. Shaked, H., Kashkush, K., Ozkan, H., Feldman, M., and Levy, A.A. 2001. Sequence elimination and cytosine methylation are rapid and reproducible responses of the genome to wide hybridization and allopolyploidy in wheat. Plant Cell, 13: 1749-1759.
48. Soltis, D.E., and Soltis, P.S. 1995. The dynamic nature of polyploid genomes. Proc. Natl. Acad, Sci. U.S.A. 92: 8089-8091.
49. Soltis, P.S., and Soltis, D.E. 2000. The role of genetic and genomic attributes in the success of polyploids. Proc. Natl. Acad. Sci. USA. 97: 7051-7057.
50. Somers, D.J., and Gustafson, J.P. 1994. A review of wheat/rye genomic interactions and gene expression in triticale. Genet, (Life Sci. Adv.). 13: 57-63.
51. Song, K., Lu, P., Tang, K., and Osborn, T.C. 1995. Rapid genome change in synthetic polyploids of Brassica and its implications for polyploid evolution. Proc. Natl. Acad. Sci. USA. 92: 7719-7723.
52. Van Deynze, A.E., Sorrells, M.E., Park, W.D., Ayres, N.M., Fu, H., et al. 1998. Anchor probes for comparative mapping of grass genera. Theor. Appl. Genet. 97: 356-369.
53. van Houten, W.J.H., Scarlett, N., and Bachmann, K. 1993. Nuclear DNA markers of the Australian tetraploid Microseris scapigera and its North American diploid relatives. Theor. Appl. Genet. 87: 498-505.
54. Viegas, W., Silva, M., Neves, N., Castilho, A., Barao, A., et al. 1996. Expression of 1R rRNA loci in triticale: genetic and developmental controls. In Triticale: today and tomorrow. Edited by H. Guedes-Pinto, N. Darey and V.P. Carnide. Kluwer Academic Publishers, Dordrecht, the Netherlands. pp. 127-134.
55. Vos, P., Hogers, R., Bleeker, M., Reijans, M., van de Lee, T., et al. 1995. AFLP: a new technique for DNA fingerprinting. Nucleic Acids Res. 23: 4407-4414.
56. Voylokov, V., and Tikhenko, N.D. 2002. Triticale as a model for study of genome interaction and genome evolution in allopolyploid plants. In Proceedings of the 5th International Triticale Symposium, Radzików, Poland, 30 June - 5 July 2002. Vol. I. Edited by A. Aniol, E. Arseniuk, K. Cooper, N. Darvey, P. Gustafson, et al. Plant Breeding and Acclimatization Institute, Radzikow, Poland, pp. 63-70.
57. Vuylsteke, M., Mank, R., Antonise, R., Bastiaans, E., Senior, M.L., et al. 1999. Two high density AFLP linkage maps of Zea mays L.: analysis of distribution of AFLP markers. Theor. Appl. Genet. 99: 921-935.
58. Wendel, J.F. 2000. Genome evolution in polyploids. Plant Mol. Biol. 42: 225-249.
59. Wendel, J.F., and Cronn, R.C. 2003. Polyploidy and the evolutionary history of cotton. Adv. Agron. 78: 139-186.
60. Wendel, J.F., Schnabel, A., and Seelanan, T. 1995. Bidirectional interlocus concerted evolution following allopolyploid speciation in cotton (Gossypiuni). Proc. Natl. Acad. Sci. U.S.A. 92: 280-284.
61. Wilson, A.S. 1876. Wheat and rye hybrids. Edinburgh Bat. Sac. Trans. 12: 286-288.
62. Wolfe, K.H. 2001. Yesterday's polyploids and the mystery of polyploidization. Nat. Rev. Genet. 2: 333-341.
63. Young, W.P., Schupp, J.M., and Keim, P. 1999. DNA methylation and AFLP marker distribution in the soybean genome. Theor. Appl. Genet. 99: 785-792.
64. Zhang, D., and Sang, T. 1999. Physical mapping of ribosomal RNA genes in peonies (Paeonia; Paeoniaceae) by fluorescent in situ hybridization: implications for phylogeny and concerted evolution. Am. J. Bot. 86: 735-740.