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Dynamics and differential proliferation of transposable elements during the evolution of the B and A genomes of wheat.
Genetics. 2008 Oct; 180(2):1071-86.G

Abstract

Transposable elements (TEs) constitute >80% of the wheat genome but their dynamics and contribution to size variation and evolution of wheat genomes (Triticum and Aegilops species) remain unexplored. In this study, 10 genomic regions have been sequenced from wheat chromosome 3B and used to constitute, along with all publicly available genomic sequences of wheat, 1.98 Mb of sequence (from 13 BAC clones) of the wheat B genome and 3.63 Mb of sequence (from 19 BAC clones) of the wheat A genome. Analysis of TE sequence proportions (as percentages), ratios of complete to truncated copies, and estimation of insertion dates of class I retrotransposons showed that specific types of TEs have undergone waves of differential proliferation in the B and A genomes of wheat. While both genomes show similar rates and relatively ancient proliferation periods for the Athila retrotransposons, the Copia retrotransposons proliferated more recently in the A genome whereas Gypsy retrotransposon proliferation is more recent in the B genome. It was possible to estimate for the first time the proliferation periods of the abundant CACTA class II DNA transposons, relative to that of the three main retrotransposon superfamilies. Proliferation of these TEs started prior to and overlapped with that of the Athila retrotransposons in both genomes. However, they also proliferated during the same periods as Gypsy and Copia retrotransposons in the A genome, but not in the B genome. As estimated from their insertion dates and confirmed by PCR-based tracing analysis, the majority of differential proliferation of TEs in B and A genomes of wheat (87 and 83%, respectively), leading to rapid sequence divergence, occurred prior to the allotetraploidization event that brought them together in Triticum turgidum and Triticum aestivum, <0.5 million years ago. More importantly, the allotetraploidization event appears to have neither enhanced nor repressed retrotranspositions. We discuss the apparent proliferation of TEs as resulting from their insertion, removal, and/or combinations of both evolutionary forces.

Authors+Show Affiliations

Organization and Evolution of Plant Genomes, Unite de Recherche en Genomique Vegetale, Evry Cedex, France.No affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info available

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

18780739

Citation

Charles, Mathieu, et al. "Dynamics and Differential Proliferation of Transposable Elements During the Evolution of the B and a Genomes of Wheat." Genetics, vol. 180, no. 2, 2008, pp. 1071-86.
Charles M, Belcram H, Just J, et al. Dynamics and differential proliferation of transposable elements during the evolution of the B and A genomes of wheat. Genetics. 2008;180(2):1071-86.
Charles, M., Belcram, H., Just, J., Huneau, C., Viollet, A., Couloux, A., Segurens, B., Carter, M., Huteau, V., Coriton, O., Appels, R., Samain, S., & Chalhoub, B. (2008). Dynamics and differential proliferation of transposable elements during the evolution of the B and A genomes of wheat. Genetics, 180(2), 1071-86. https://doi.org/10.1534/genetics.108.092304
Charles M, et al. Dynamics and Differential Proliferation of Transposable Elements During the Evolution of the B and a Genomes of Wheat. Genetics. 2008;180(2):1071-86. PubMed PMID: 18780739.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Dynamics and differential proliferation of transposable elements during the evolution of the B and A genomes of wheat. AU - Charles,Mathieu, AU - Belcram,Harry, AU - Just,Jérémy, AU - Huneau,Cécile, AU - Viollet,Agnès, AU - Couloux,Arnaud, AU - Segurens,Béatrice, AU - Carter,Meredith, AU - Huteau,Virginie, AU - Coriton,Olivier, AU - Appels,Rudi, AU - Samain,Sylvie, AU - Chalhoub,Boulos, Y1 - 2008/09/09/ PY - 2008/9/11/pubmed PY - 2009/1/6/medline PY - 2008/9/11/entrez SP - 1071 EP - 86 JF - Genetics JO - Genetics VL - 180 IS - 2 N2 - Transposable elements (TEs) constitute >80% of the wheat genome but their dynamics and contribution to size variation and evolution of wheat genomes (Triticum and Aegilops species) remain unexplored. In this study, 10 genomic regions have been sequenced from wheat chromosome 3B and used to constitute, along with all publicly available genomic sequences of wheat, 1.98 Mb of sequence (from 13 BAC clones) of the wheat B genome and 3.63 Mb of sequence (from 19 BAC clones) of the wheat A genome. Analysis of TE sequence proportions (as percentages), ratios of complete to truncated copies, and estimation of insertion dates of class I retrotransposons showed that specific types of TEs have undergone waves of differential proliferation in the B and A genomes of wheat. While both genomes show similar rates and relatively ancient proliferation periods for the Athila retrotransposons, the Copia retrotransposons proliferated more recently in the A genome whereas Gypsy retrotransposon proliferation is more recent in the B genome. It was possible to estimate for the first time the proliferation periods of the abundant CACTA class II DNA transposons, relative to that of the three main retrotransposon superfamilies. Proliferation of these TEs started prior to and overlapped with that of the Athila retrotransposons in both genomes. However, they also proliferated during the same periods as Gypsy and Copia retrotransposons in the A genome, but not in the B genome. As estimated from their insertion dates and confirmed by PCR-based tracing analysis, the majority of differential proliferation of TEs in B and A genomes of wheat (87 and 83%, respectively), leading to rapid sequence divergence, occurred prior to the allotetraploidization event that brought them together in Triticum turgidum and Triticum aestivum, <0.5 million years ago. More importantly, the allotetraploidization event appears to have neither enhanced nor repressed retrotranspositions. We discuss the apparent proliferation of TEs as resulting from their insertion, removal, and/or combinations of both evolutionary forces. SN - 0016-6731 UR - https://www.unboundmedicine.com/medline/citation/18780739/Dynamics_and_differential_proliferation_of_transposable_elements_during_the_evolution_of_the_B_and_A_genomes_of_wheat_ L2 - http://www.genetics.org/cgi/pmidlookup?view=long&amp;pmid=18780739 DB - PRIME DP - Unbound Medicine ER -