Abstract
Knowledge of the chromosomal distribution of long terminal repeats (LTR) is important for understanding plant chromosome structure, genomic organization and evolution, as well as providing chromosomal landmarks that are useful for chromosome engineering. The aim of this study is to investigate the genomic distribution of Sabrina-like LTR pDbH12, which was first isolated from Dasypyrum breviaristatum (Vb genome), on Triticeae species in relation to the genomic evolution and chromosome identification. Fluorescence in situ hybridization (FISH) analysis showed that pDbH12 is present on Dasypyrum (V genome) and Hordeum (H genome) species with the hybridized signals covering the entire chromosomes. However, clone pDbH12 did not hybridize to the genomes of Secale, Triticum, Lophopyrum, Pseduoroengeria, Aegilops, Agropyron desertorum and Elymus. Thinopyrum intermedium displayed fourteen chromosomes that hybridized with pDbH12. Sequential FISH identified these chromosomes as belonging to the Js genome. Results from sequence characterized amplified region (SCAR) marker and dot blot both support the FISH results, and the integrative results suggest that amplification of Sabrina-like LTR retrotransposons is an important factor which involved in the speciation process. Clone pDbH12 could serve as a cytogenetic marker for tracing chromatin from V or Vb, H and Js genomes in wheat-alien introgression lines.
Article PDF
Similar content being viewed by others
Avoid common mistakes on your manuscript.
References
Belyayev, A., Raskina, O., Nevo, E. 2001. Chromosomal distribution of reverse transcriptase-containing retroelements in two Triticeae species. Chromosome Res. 9:129–136.
Búdvarsdóttir, S.K., Anamthawat-Jónsson, K. 2003. Isolation, characterization, and analysis of Leymus -specific DNA sequences. Genome 46:673–682.
Boeke, J.D., Garfinkel, D.J., Styles, C.A., Fink, G.R. 1985. Ty elements transpose through an RNA intermediate. Cell 40:491–500.
Brosius, J. 1991. Retroposons — seeds of evolution. Science 251:753.
Chen, Q., Conner, R.L., Laroche, A., Thomas, J.B. 1998. Genome analysis of Thinopyrum intermedium and Th. ponticum using genomic in situ hybridization. Genome 141:580–586.
Flavell, R.B. 1986. Repetitive DNA and chromosome evolution in plants. Philos. Trans. R. Soc. B Biol. Sci. 312:227–242.
Francki, M.G. 2001. Identification of Bilby, a diverged centromeric Ty1- copia retrotransposon family from cereal rye (Secale cereale L.). Genome 44:266–274.
Gribbon, B.M., Pearce, S.R., Kalendar, R., Schulman, A.H., Paulin, L., Jack, P.L., Kumar, A., Flavell, A.J. 1999. Phylogeny and transpositional activity of Ty1-copia group retrotransposons in cereal genomes. Mol. Gen. Genet. 261:883–891.
Hansen, C.N., Heslop-Harrison, J.S. 2004. Sequences and phylogenies of plant pararetroviruses, viruses and transposable elements. Adv. Bot. Res. 41:165–193.
Heslop-Harrison, J.S. 2000. Comparative genome organization in plants: From sequence and markers to chromatin and chromosomes. Plant Cell 12:617–636.
Heslop-Harrison, J.S., Brandes, A., Taketa, S., Schmidt, T., Vershinin, A.V., Alkhimova, E.G., Kamm, A., Doudrick, R.L., Schwarzacher, T., Katsiotis, A., Kubis, S., Kumar, A., Pearce, S.R., Flavell, A. 1997. The chromosomal distribution of Ty1-copia group retrotransposable elements in higher plants and their implication for genome evolution. Genetica 100:197–204.
Kellogg, E.A., Appels, R., Mason-Gamer, R.J. 1996. When genes tell different stories: The diploid genera of Triticeae (Gramineae). Syst. Bot. 21:321–347.
Kishii, M., Wang, R.R.-C., Tsujimoto, H. 2005. GISH analysis revealed new aspect of genomic constitution of Thinopyrum intermedium. In: Proceedings of the 5 th International Triticeae Symposium, Prague, Czech Republic, 6–10 June 2005. Czech J. Genet. Plant Breed. 41:92–95.
Kong, X.Y., Gu, Y.Q., You, F.M., Dubcovsky, J., Anderson, O.D. 2004. Dynamics of the evolution of orthologous and paralogous portions of a complex locus region in two genomes of allopolyploid wheat. Plant Mol. Biol. 54:55–69.
Kumar, A., Bennetzen, J.L. 1999. Plant retrotransposons. Annu. Rev. Genet. 33:479–532.
Kunze, R., Saedler, H., Lonnig, W. 1997. Plant transposable elements. Adv. Bot. Res. 27:332–470.
Li, W.L., Zhang, P., Fellers, J.P., Friebe, B., Gill, B.S. 2004. Sequence composition, organization, and evolution of the core Triticeae genome. Plant J. 40:500–511.
Liu, C., Li, G.R., Yang, Z.J., Feng, J., Zhou, J.P., Ren, Z.L. 2006a. Isolation and application of specificDNAsegments of rye genome. Acta Bot. Boreal.-Occident. Sin. 26:2434–2438.
Liu, C., Yang, Z.J., Feng, J., Zhou, J.P., Ren, Z.L. 2006b. Isolation, mapping and application of a LTR fragment for Dasypyrum genome. Acta Agron. Sin. 32:1642–1648.
Mason-Gamer, R.J. 2001. Origin of North American Elymus (Poaceae: Triticeae) allotetraploids based on granule-bound starch synthase gene sequences. Syst. Bot. 26:757–768.
Mason-Gamer, R.J. 2004. Reticulate evolution, introgression, and intertribal gene capture in an allohexaploid grass. Syst. Biol. 53:25–37.
Megan Helfgott, D., Mason-Gamer, R.J. 2004. The evolution of North American Elymus (Poaceae: Triticeae) allotetraploids: evidence from phosphoenolpyruvate carboxylase gene sequences. Syst. Bot. 29:850–861.
Mukai, Y., Nakahara, Y., Yamamoto, M. 1993. Simultaneous discrimination of the three genomes in hexaploid wheat by multicolor fluorescence in situ hybridization using total genomic and highly repeated DNA probes. Genome 36:489–494.
Petersen, G., Seberg, O. 1997. Phylogenetic analysis of the Triticeae (Poaceae) based on rpoA sequence data. Mol. Phylogenet. Evol. 7:214–230.
Ramakrishna, W., Dubcovsky, J., Park, Y., Busso, C., Emberton, J., SanMiguel, P., Bennetzen, J.L. 2002. Different types and rates of genome evolution detected by comparative sequence analysis of orthologous segments from four cereal genomes. Genetics 162:1389–1400.
SanMiguel, P., Tikhonov, A., Jin, Y.K., Motchoulskaia, N., Zakharov, D., Melake Berhan, A., Springe, P.S., Edwards, K.J., Avramova, Z., Bennetzen, J.L. 1996. Nested retrotransposons in the intergenic regions of the maize genome. Science 274:765–768.
Shirasu, K., Schulman, A. H., Lahaye, T., Schulze-Lefert, P. 2000. A contiguous 66-kb barley DNA sequence provides evidence for reversible genome expansion. Genome Res. 10:908–915.
Vicient, C.M., Suoniemi, A., Anamthawat-Jónsson, K., Tanskanen, J., Beharav, A., Nevo, E., Schulman, A.H. 1999. Retrotransposon BARE-1 and its role in genome evolution in the genus Hordeum. Plant Cell 11:1769–1784.
Wei, F.S., Wing, R.A., Wise, R.P. 2002. Genome dynamics and evolution of the Mla (Powdery Mildew) resistance locus in barley. Plant Cell 14:1903–1917.
Yang, Z.J., Feng, J., Zhou, J.P., Liu, C., Ren, Z.L. 2005. Identification of Dasypyrum breviaristatum chromatin in wheat background by in situ hybridization. Southwest China J. Agricult. Sci. 18:608–611.
Yang, Z.J., Liu, C., Feng, J., Li, G.R., Zhou, J.P., Deng, K.J., Ren, Z.L. 2006. Studies on genome relationship and species-specific PCR marker for Dasypyrum breviaristatum in Triticeae. Hereditas 143:47–54.
Yu, D.R., Ren, Z.L., Zhang, H.Y., Zhang, Q.J. 2000. A highly efficient technique for the detection of alien chromatin in wheat — Dot blot. J. Sichuan Univ. (Nat. Sci. Edition) S1:91–96.
Author information
Authors and Affiliations
Corresponding authors
Rights and permissions
This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made.
About this article
Cite this article
Liu, C., Yang, Z.J., Jia, J.Q. et al. Genomic distribution of a long terminal repeat (LTR) Sabrina-like retrotransposon in Triticeae species. CEREAL RESEARCH COMMUNICATIONS 37, 363–372 (2009). https://doi.org/10.1556/CRC.37.2009.3.5
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1556/CRC.37.2009.3.5