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Characterization of the LTR retrotransposon repertoire of a plant clade of six diploid and one tetraploid species.
Plant J. 2013 Aug; 75(4):699-709.PJ

Abstract

Comparisons of closely related species are needed to understand the fine-scale dynamics of retrotransposon evolution in flowering plants. Towards this goal, we classified the long terminal repeat (LTR) retrotransposons from six diploid and one tetraploid species of Orobanchaceae. The study species are the autotrophic, non-parasitic Lindenbergia philippensis (as an out-group) and six closely related holoparasitic species of Orobanche [O. crenata, O. cumana, O. gracilis (tetraploid) and O. pancicii] and Phelipanche (P. lavandulacea and P. ramosa). All major plant LTR retrotransposon clades could be identified, and appear to be inherited from a common ancestor. Species of Orobanche, but not Phelipanche, are enriched in Ty3/Gypsy retrotransposons due to a diversification of elements, especially chromoviruses. This is particularly striking in O. gracilis, where tetraploidization seems to have contributed to the Ty3/Gypsy enrichment and led to the emergence of seven large species-specific families of chromoviruses. The preferential insertion of chromoviruses in heterochromatin via their chromodomains might have favored their diversification and enrichment. Our phylogenetic analyses of LTR retrotransposons from Orobanchaceae also revealed that the Bianca clade of Ty1/Copia and the SMART-related elements are much more widely distributed among angiosperms than previously known.

Authors+Show Affiliations

Systematic Botany and Mycology, University of Munich (LMU), Munich, 80638, Germany. piednoel@closun.snv.jussieu.frNo affiliation info availableNo affiliation info available

Pub Type(s)

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

Language

eng

PubMed ID

23663083

Citation

Piednoël, Mathieu, et al. "Characterization of the LTR Retrotransposon Repertoire of a Plant Clade of Six Diploid and One Tetraploid Species." The Plant Journal : for Cell and Molecular Biology, vol. 75, no. 4, 2013, pp. 699-709.
Piednoël M, Carrete-Vega G, Renner SS. Characterization of the LTR retrotransposon repertoire of a plant clade of six diploid and one tetraploid species. Plant J. 2013;75(4):699-709.
Piednoël, M., Carrete-Vega, G., & Renner, S. S. (2013). Characterization of the LTR retrotransposon repertoire of a plant clade of six diploid and one tetraploid species. The Plant Journal : for Cell and Molecular Biology, 75(4), 699-709. https://doi.org/10.1111/tpj.12233
Piednoël M, Carrete-Vega G, Renner SS. Characterization of the LTR Retrotransposon Repertoire of a Plant Clade of Six Diploid and One Tetraploid Species. Plant J. 2013;75(4):699-709. PubMed PMID: 23663083.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Characterization of the LTR retrotransposon repertoire of a plant clade of six diploid and one tetraploid species. AU - Piednoël,Mathieu, AU - Carrete-Vega,Greta, AU - Renner,Susanne S, Y1 - 2013/06/03/ PY - 2013/01/08/received PY - 2013/05/02/accepted PY - 2013/5/14/entrez PY - 2013/5/15/pubmed PY - 2014/4/29/medline KW - LTR retrotransposons KW - Orobanchaceae KW - Orobanche KW - Phelipanche KW - Ty1/Copia KW - Ty3/Gypsy KW - genome downsizing KW - next-generation sequencing KW - polyploidy KW - transposable elements SP - 699 EP - 709 JF - The Plant journal : for cell and molecular biology JO - Plant J. VL - 75 IS - 4 N2 - Comparisons of closely related species are needed to understand the fine-scale dynamics of retrotransposon evolution in flowering plants. Towards this goal, we classified the long terminal repeat (LTR) retrotransposons from six diploid and one tetraploid species of Orobanchaceae. The study species are the autotrophic, non-parasitic Lindenbergia philippensis (as an out-group) and six closely related holoparasitic species of Orobanche [O. crenata, O. cumana, O. gracilis (tetraploid) and O. pancicii] and Phelipanche (P. lavandulacea and P. ramosa). All major plant LTR retrotransposon clades could be identified, and appear to be inherited from a common ancestor. Species of Orobanche, but not Phelipanche, are enriched in Ty3/Gypsy retrotransposons due to a diversification of elements, especially chromoviruses. This is particularly striking in O. gracilis, where tetraploidization seems to have contributed to the Ty3/Gypsy enrichment and led to the emergence of seven large species-specific families of chromoviruses. The preferential insertion of chromoviruses in heterochromatin via their chromodomains might have favored their diversification and enrichment. Our phylogenetic analyses of LTR retrotransposons from Orobanchaceae also revealed that the Bianca clade of Ty1/Copia and the SMART-related elements are much more widely distributed among angiosperms than previously known. SN - 1365-313X UR - https://www.unboundmedicine.com/medline/citation/23663083/Characterization_of_the_LTR_retrotransposon_repertoire_of_a_plant_clade_of_six_diploid_and_one_tetraploid_species_ L2 - https://doi.org/10.1111/tpj.12233 DB - PRIME DP - Unbound Medicine ER -