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The Frequent Transcriptional Readthrough of the Tobacco Tnt1 Retrotransposon and Its Possible Implications for the Control of Resistance Genes

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Abstract

Retrotransposons are a major component of eukaryote genomes, being especially abundant in plant genomes. They are frequently found inserted in gene-rich regions and have greatly contributed to the evolution of gene coding capacity and regulation. Retrotransposon insertions can influence the expression of neighboring genes in many ways, such as modifying their promoter or terminator sequences and altering their epigenetic control. Plant retrotransposons are highly regulated and their expression is usually associated with stress situations. While the control of transcription of some plant retrotransposons has been analyzed in some detail, little is known about the transcriptional termination of these elements. Here we show that the transcripts of the tobacco retrotransposon Tnt1 display a high variability of polyadenylation sites, only a fraction of them terminating at the major termination site. We also report on the ability of Tnt1 to extend its transcription into flanking genomic sequences and we analyze a particular case in which Tnt1 transcripts include sequences of an oppositely oriented resistance-like gene. The expression of this gene and the neighboring Tnt1 copy generate transcripts overlapping in more that 800 nucleotides, which could anneal and form dsRNAs and enter into silencing regulatory pathways. Resistance gene loci are usually composed of tandem arrays of resistance-like genes, a number of which contain mutations, including retrotransposon insertions, and are considered as to be pseudogenes. Given that plant retrotransposons are usually regulated by stress, the convergent expression of these resistance-like pseudogenes and the interleaving inducible retrotransposons may contribute to the control of plant responses to stress.

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Acknowledgments

We are grateful to Marie-Angèle Grandbastien and Marie-Anne Van Sluys for helpful discussions. We thank Carlos Vicient, Lluïsa Espinás, Hélène Guermonprez, and Paloma Más for their critical reading of the manuscript. This work was funded by the Spanish Ministerio de Ciencia y Tecnología (Grant BIO2003-01211) and Ministerio de Educación y Ciencia (Grant BFU2006-04005) and the Xarxa de Referència en Biotecnologia from the Generalitat de Catalunya.

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  1. Néstor Santiago

    Present address: Biokit S.A., Can Malé s/n, 08186, Lliçà d’Amunt, Barcelona, Spain

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  1. Centre de Recerca en Agrigenòmica (CRAG), CSIC-IRTA-UAB, Institut de Biología Molecular de Barcelona (IBMB-CSIC), Jordi Girona 18, 08034, Barcelona, Spain

    Inmaculada Hernández-Pinzón, Erika de Jesús, Néstor Santiago & Josep M. Casacuberta

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  1. Inmaculada Hernández-Pinzón
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Correspondence to Josep M. Casacuberta.

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Hernández-Pinzón, I., de Jesús, E., Santiago, N. et al. The Frequent Transcriptional Readthrough of the Tobacco Tnt1 Retrotransposon and Its Possible Implications for the Control of Resistance Genes. J Mol Evol 68, 269–278 (2009). https://doi.org/10.1007/s00239-009-9204-y

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