Size matters in Triticeae polyploids: Larger genomes have higher remodeling

Genome

Volumn 54, Issue 3, 2011, Pages 175-183

  Bento, Miguel ^a   Gustafson, J Perry ^b   Viegas, Wanda ^a   Silva, Manuela ^a  

^a INSTITUTO SUPERIOR DE AGRONOMIA   (Portugal)

^b UNIVERSITY OF MISSOURI   (United States)

Author keywords

Genome restructuring; Polyploids; Synthetic hybrids; Triticeae

Indexed keywords

AEGILOPS TAUSCHII X TRITICUM TURGIDUM; SECALE CEREALE; TRITICEAE; TRITICOSECALE; TRITICUM AESTIVUM;

EID: 79952907997     PISSN: 08312796     EISSN: None     Source Type: Journal    
DOI: 10.1139/G10-107     Document Type: Article

References (49)

1. Bennett, M.D. 1977. Heterochromatin, aberrant endosperm nuclei and grain shrivelling in wheat-rye genotypes. Heredity, 39 (3): 411-419. 10.1038/hdy.1977.83 (Pubitemid 8242701)
2. Bennett, M.D., and Gustafson, J.P. 1982. The effect of telomeric heterochromatin from Secale cereale on triticale (× Triticosecale). II. The presence or absence of blocks of heterochromatin in isogenic backgrounds. Can. J. Genet. Cytol. 24 (1): 93-100. 10.1139/g82-009
3. Bennett, M.D., and Kaltsikes, P.J. 1973. The duration of meiosis in a diploid rye, tetraploid wheat and the hexaploid triticale direved from them. Can. J. Genet. Cytol. 15 (4): 671-679. 10.1139/g73-080
4. Bento, M., Pereira, H.S., Rocheta, M., Gustafson, P., Viegas, W., Silva, M., and Fraser, J. 2008. Polyploidization as a retraction force in plant genome evolution: sequence rearrangements in triticale. PLoS One, 3 (1): e1402. 10.1371/journal.pone.0001402 18167561 (Pubitemid 351194014)
5. Bento, M., Gustafson, P., Viegas, W., and Silva, M. 2010. Genome merger: from sequence rearrangements in triticale to their elimination in wheat-rye addition lines. Theor. Appl. Genet. 121 (3): 489-497. 10.1007/s00122-010-1325-6 20383487
6. Bernardo, A., Garcia, M., and Jouve, N. 1988. The effect of Secale cereale L. heterochromatin on wheat chromosome-pairing. Genetica, 77 (2): 89-95. 10.1007/BF00057758
7. Bin, Z., and Kadir, A. 1976. DNA evolution in the genus Gossypium. Chromosoma, 56 (1): 85-94. 10.1007/BF00293732
8. 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 (1-2): 99-100.
9. Chen, Z.J. 2007. Genetic and epigenetic mechanisms for gene expression and phenotypic variation in plant polyploids. Annu. Rev. Plant Biol. 58 (1): 377-406. 10.1146/annurev.arplant.58.032806.103835 17280525 (Pubitemid 46986330)
10. Comai, L. 2005. The advantages and disadvantages of being polyploid. Nat. Rev. Genet. 6 (11): 836-846. 10.1038/nrg1711 16304599
11. Dong, Y.Z., Liu, Z.L., Shan, X.H., Qiu, T., He, M.Y., and Liu, B. 2005. Allopolyploidy in wheat induces rapid and heritable alterations in DNA methylation patterns of cellular genes and mobile elements. Russ. J. Genet. 41 (8): 890-896. 10.1007/s11177-005-0177-7 (Pubitemid 41355642)
12. Eilam, T., Anikster, Y., Millet, E., Manisterski, J., and Feldman, M. 2008. Nuclear DNA amount and genome downsizing in natural and synthetic allopolyploids of the genera Aegilops and Triticum. Genome, 51 (8): 616-627. 10.1139/G08-043 18650951
13. Feldman, M., and Levy, A.A. 2005. Allopolyploidy a shaping force in the evolution of wheat genomes. Cytogenet. Genome Res. 109 (1-3): 250-258. 10.1159/000082407 15753584 (Pubitemid 40470330)
14. 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 (3): 1381-1387. 9383078 (Pubitemid 27467476)
15. Francis, D., Davies, M.S., and Barlow, P.W. 2008. A strong nucleotypic effect on the cell cycle regardless of ploidy level. Ann. Bot. (Lond.), 101 (6): 747-757. 10.1093/aob/mcn038
16. Gill, B.S. 1991. Nucleocytoplasmic interaction (NCI) hypothesis of genome evolution and speciation in polyploid plants evolution and speciation in polyploid plants. In Proceedings of the Kihara Memorial International Symposium on Cytoplasmic Engineering in Wheat. Edited by T. Sasakurma. Yokohama, Japan. pp. 48-53.
17. Gustafson, J.P., and Bennett, M.D. 1982. The effect of telomeric heterochromatin from Secale cereale on triticale (× Triticosecale). I. The influence of the loss of several blocks of telomeric heterochromatin on early endosperm development and kernel characteristics at maturity. Can. J. Genet. Cytol. 24 (1): 83-92.
18. Jouve, N., Galindo, C., Mesta, M., Diaz, F., Albella, B., Garcia, P., and Soler, C. 1989. Changes in triticale chromosome heterochromatin visualized by C-banding. Genome, 32 (5): 735-742. (Pubitemid 20074161)
19. Kalendar, R., and Schulman, A.H. 2006. IRAP and REMAP for retrotransposon-based genotyping and fingerprinting. Nat. Protoc. 1 (5): 2478-2484. 10.1038/nprot.2006.377 17406494
20. Kalendar, R., Grob, T., Regina, M., Suoniemi, A., and Schulman, A. 1999. IRAP and REMAP: two new retrotransposon-based DNA fingerprinting techniques. Theor. Appl. Genet. 98 (5): 704-711. 10.1007/s001220051124 (Pubitemid 29212070)
21. Kaltsikes, P.J. 1971. The mitotic cycle in an amphiploid (triticale) and its parental species. Can. J. Genet. Cytol. 13 (4): 656-662. 110.1139/g71-094
22. Kashkush, K., Feldman, M., and Levy, A.A. 2002. Gene loss, silencing and activation in a newly synthesized wheat allotetraploid. Genetics, 160 (4): 1651-1659. 11973318 (Pubitemid 34454386)
23. Kidd, A.D., Francis, D., and Bennett, M.D. 1987. Replicon size, mean rate of DNA replication and the duration of the cell cycle and its component phases in eight monocotyledonous species of contrasting C values. Ann. Bot. 59 (6): 603-609.
24. Leitch, I.J., and Bennett, M.D. 2004. Genome downsizing in polyploid plants. Biol. J. Linn. Soc. 82 (4): 651-663. 10.1111/j.1095-8312.2004.00349.x (Pubitemid 39123351)
25. Levy, A.A., and Feldman, M. 2002. The impact of polyploidy on grass genome evolution. Plant Physiol. 130 (4): 1587-1593. 10.1104/pp.015727 12481041 (Pubitemid 36035158)
26. Liu, B., Vega, J.M., Segal, G., Abbo, S., Rodova, H., and Feldman, M. 1998. Rapid genomic changes in newly synthesized amphiploids of Triticum and Aegilops. I. Changes in low-copy noncoding DNA sequences. Genome, 41 (2): 272-277. 10.1139/gen-41-2-272 (Pubitemid 28370090)
27. 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 (3): 321-330. 10.1139/gen-44-3-321 11444689 (Pubitemid 32752635)
28. Ma, X.F., and Gustafson, J.P. 2005. Genome evolution of allopolyploids: a process of cytological and genetic diploidization. Cytogenet. Genome Res. 109 (1-3): 236-249. 10.1159/000082406 15753583 (Pubitemid 40470329)
29. Ma, X.F., and Gustafson, J.P. 2006. Timing and rate of genome variation in triticale following allopolyploidization. Genome, 49 (8): 950-958. 10.1139/G06-078 17036070 (Pubitemid 44902215)
30. Ma, X.F., and Gustafson, J.P. 2008. Allopolyploidization-accommodated genomic sequence changes in triticale. Ann. Bot. (Lond.), 101 (6): 825-832. 10.1093/aob/mcm331
31. Ma, X.F., Fang, P., and Gustafson, J.P. 2004. Polyploidization-induced genome variation in triticale. Genome, 47 (5): 839-848. 10.1139/g04-051 15499398 (Pubitemid 40033897)
32. Madlung, A., Tyagi, A.P., Watson, B., Jiang, H.M., Kagochi, T., Doerge, R.W., et al. 2005. Genomic changes in synthetic Arabidopsis polyploids. Plant J. 41 (2): 221-230. 10.1111/j.1365-313X.2004.02297.x 15634199 (Pubitemid 40162248)
33. Milla, R., and Gustafson, J.P. 2001. Genetic and physical characterization of chromosome 4DL in wheat. Genome, 44 (5): 883-892. 10.1139/gen-44-5-883 11681613 (Pubitemid 33023451)
34. Neves, N., Silva, M., Heslop-Harrison, J.S., and Viegas, W. 1997. Nucleolar dominance in triticales: control by unlinked genes. Chromosome Res. 5 (2): 125-131. 10.1023/A:1018470208730 9146916 (Pubitemid 27182806)
35. Ozkan, H., Levy, A.A., and Feldman, M. 2001. Allopolyploidy-induced rapid genome evolution in the wheat (Aegilops-Triticum) group. Plant Cell, 13 (8): 1735-1747. 10.1105/tpc.13.8.1735 11487689 (Pubitemid 32781987)
36. Ozkan, H., Tuna, M., and Arumuganathan, K. 2003. Nonadditive changes in genome size during allopolyploidization in the wheat (Aegilops-Triticum) group. J. Hered. 94 (3): 260-264. 10.1093/jhered/esg053 12816968 (Pubitemid 36828843)
37. Ramsay, L., Macaulay, M., Cardle, L., Morgante, M., degli Ivanissevich, S., Maestri, E., et al. 1999. Intimate association of microsatellite repeats with retrotransposons and other dispersed repetitive elements in barley. Plant J. 17 (4): 415-425. 10.1046/j.1365-313X.1999.00392.x 10205898 (Pubitemid 29139075)
38. Redi, C.A., Garagna, S., Zacharias, H., Zuccotti, M., and Capanna, E. 2001. The other chromatin. Chromosoma, 110 (3): 136-147. 10.1007/s004120000114 11513289 (Pubitemid 32700409)
39. Rder, M.S., Korzun, V., Wendehake, K., Plaschke, J., Tixier, M.H., Leroy, P., and Ganal, M.W. 1998. A microsatellite map of wheat. Genetics, 149 (4): 2007-2023. 9691054 (Pubitemid 28375968)
40. Salmon, A., Ainouche, M.L., and Wendel, J.F. 2005. Genetic and epigenetic consequences of recent hybridization and polyploidy in Spartina (Poaceae). Mol. Ecol. 14 (4): 1163-1175. 10.1111/j.1365-294X.2005.02488.x 15773943 (Pubitemid 40466242)
41. 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 (8): 1749-1759. 10.1105/tpc.13.8.1749 11487690 (Pubitemid 32781988)
42. Song, K.M., Lu, P., Tang, K.L., and Osborn, T.C. 1995. Rapid genome change in synthetic polyploids of Brassica and its implications for polyploid evolution. Proc. Natl. Acad. Sci. U.S.A. 92 (17): 7719-7723. 10.1073/pnas.92.17.7719 7644483
43. Tang, Z.X., Fu, S.L., Ren, Z.L., Zhou, J.P., Yan, B.J., and Zhang, H.Q. 2008. Variations of tandem repeat, regulatory element, and promoter regions revealed by wheat-rye amphiploids. Genome, 51 (6): 399-408. 10.1139/G08-027 18521118 (Pubitemid 351879688)
44. Vant Hof, J., and Sparrow, A.H. 1963. A relationship between DNA content, nuclear volume, and minimum mitotic cycle time. Proc. Natl. Acad. Sci. U.S.A. 49 (6): 897-902. 10.1073/pnas.49.6.897 13996145
45. Viegas, W., Neves, N., Silva, M., Caperta, A., and Morais-Ceclio, L. 2002. Nucleolar dominance: a "David and Goliath" chromatin imprinting process. Curr. Genomics, 3 (6): 563-576. 10.2174/1389202023350237 (Pubitemid 35331910)
46. Vitte, C., and Panaud, O. 2005. LTR retrotransposons and flowering plant genome size: emergence of the increase/decrease model. Cytogenet. Genome Res. 110 (1-4): 91-107. 10.1159/000084941 16093661 (Pubitemid 41159886)
47. Wendel, J.F. 2000. Genome evolution in polyploids. Plant Mol. Biol. 42 (1): 225-249. 10.1023/A:1006392424384 10688139 (Pubitemid 30096119)
48. Wolfe, K.H. 2001. Yesterdays polyploids and the mystery of diploidization. Nat. Rev. Genet. 2 (5): 333-341. 10.1038/35072009 11331899 (Pubitemid 33673071)
49. Young, W.P., Schupp, J.M., and Keim, P. 1999. DNA methylation and AFLP marker distribution in the soybean genome. Theor. Appl. Genet. 99 (5): 785-792. 10.1007/s001220051297 (Pubitemid 29464025)