Template switching can create complex LTR retrotransposon insertions in Triticeae genomes

BMC Genomics
François Sabot, Alan H Schulman

Abstract

The LTR (long terminal repeat) retrotransposons of higher plants are replicated by a mutagenic life cycle containing transcription and reverse transcription steps. The DNA copies are often subject to recombination once integrated into the genome. Complex elements, where two elements share an LTR, are not uncommon. They are thought to result from heterologous recombination between two adjacent elements that occurs following their integration. Here, we present evidence for another potential mechanism for the creation of complex elements, involving abnormal template switching during reverse transcription. The template switching creates a large, complex daughter element, formed by the fusion of two parent sequences, which is then inserted into the genome. Those complex elements are part of the genome structure of plants in the Poaceae, especially in the Triticeae, but not of Arabidopsis. Hence, retrotransposon dynamics shaping the genome are lineage-specific.

References

Feb 14, 2003·Bioinformatics·Eugene M McCarthy, John F McDonald
Feb 19, 2003·Functional & Integrative Genomics·O D AndersonE S Lagudah
Mar 12, 2004·Molecular Genetics and Genomics : MGG·N ChantretJ Dubcovsky
Jul 22, 2005·Journal of Molecular Evolution·Carlos M VicientAlan H Schulman
Oct 26, 2005·Genetica·François SabotMichel Bernard

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Citations

Mar 5, 2014·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Cédric MoisyFrédérique Pelsy
Nov 7, 2007·Nature Reviews. Genetics·Thomas WickerAlan H Schulman
Jun 13, 2008·The Plant Journal : for Cell and Molecular Biology·Wei Chang, Alan H Schulman
Nov 15, 2007·Molecular Genetics and Genomics : MGG·Anupma Sharma, Gernot G Presting
Jul 15, 2020·Proceedings of the National Academy of Sciences of the United States of America·Qinghua WangHugo K Dooner
Aug 4, 2010·Mobile DNA·Yi HouDaniel F Voytas
Jun 25, 2013·Protein & Cell·Meixia Zhao, Jianxin Ma
Nov 23, 2019·Genome Biology and Evolution·Hajk-Georg Drost, Diego H Sanchez
Apr 26, 2020·International Journal of Molecular Sciences·Ruslan KalendarAlan H Schulman

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Datasets Mentioned

BETA
AF497474
AY368673

Software Mentioned

LTR
TIGR
ClustalX
STRUC

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