Phenotypic diversity influenced by a transposable element increases productivity and resistance to competitors in plant populations. Latzel V, Puy J, Thieme M, Bucher E, Götzenberger L, de Bello F (2023) Journal of Ecology

Experimentally heat-induced transposition increases drought tolerance in Arabidopsis thaliana.

Thieme M, Brêchet A, Bourgeois Y, Keller B, Bucher E, Roulin AC (2022) New Phytol, 236: 182–194

Natural and induced epigenetic variation for crop improvement.

Lieberman-Lazarovich, M., Kaiserli, E., Bucher, E., and Mladenov, V. (2022). Current Opinion in Plant Biology 70, 102297.

Extrachromosomal circular DNA: A neglected nucleic acid molecule in plants.

Peng, H., Mirouze, M., and Bucher, E. (2022). Current Opinion in Plant Biology 69, 102263.

DNA methylation dynamics during stress response in woodland strawberry (Fragaria vesca).

López, M. E., Roquis, D., Becker, C., Denoyes, B., and Bucher, E. (2022). Hortic Res 9, uhac174.

Genomic impact of stress-induced transposable element mobility in Arabidopsis.

Roquis, D., Robertson, M., Yu, L., Thieme, M., Julkowska, M., and Bucher, E. (2021). Nucleic Acids Res 49, 10431-10447.

ecc_finder: A Robust and Accurate Tool for Detecting Extrachromosomal Circular DNA From Sequencing Data.

Zhang, P., Peng, H., Llauro, C., Bucher, E., and Mirouze, M. (2021). Front Plant Sci 12, 743742.

Divergent DNA Methylation Signatures of Juvenile Seedlings, Grafts and Adult Apple Trees.

Perrin, A., Daccord, N., Roquis, D., Celton, J.-M., Vergne, E., and Bucher, E. (2020). Epigenomes 4, 4.

The SCOOP12 peptide regulates defense response and root elongation in Arabidopsis thaliana.

Gully, K., Pelletier, S., Guillou, M. C., Ferrand, M., Aligon, S., Pokotylo, I., Perrin, A., Vergne, E., Fagard, M., Ruelland, E., Grappin, P., Bucher, E., Renou, J. P., and Aubourg, S. (2019). J Exp Bot

The NRPD1 N-terminus contains a Pol IV-specific motif that is critical for genome surveillance in Arabidopsis.

Ferrafiat, L., Pflieger, D., Singh, J., Thieme, M., Böhrer, M., Himber, C., Gerbaud, A., Bucher, E., Pikaard, C. S., and Blevins, T. (2019). Nucleic Acids Res 47, 9037-9052.

Functional and molecular characterization of the conserved Arabidopsis PUMILIO protein, APUM9.

Nyikó, T., Auber, A., and Bucher, E. (2019). Plant Mol Biol

Biotic Stress-Induced Priming and De-Priming of Transcriptional Memory in Arabidopsis and Apple.

Gully, K., Celton, J.-M., Degrave, A., Pelletier, S., Brisset, M.-N., and Bucher, E. (2019). Epigenomes 3, 3.

Apple whole genome sequences: recent advances and new prospects.

Peace, C. P., Bianco, L., Troggio, M., van de Weg, E., Howard, N. P., Cornille, A., Durel, C. E., Myles, S., Migicovsky, Z., Schaffer, R. J., Costes, E., Fazio, G., Yamane, H., van Nocker, S., Gottschalk, C., Costa, F., Chagné, D., Zhang, X., Patocchi, A., Gardiner, S. E., Hardner, C., Kumar, S., Laurens, F., Bucher, E., Main, D., Jung, S., and Vanderzande, S. (2019). Hortic Res 6, 59.

A large-scale circular RNA profiling reveals universal molecular mechanisms responsive to drought stress in maize and Arabidopsis.

Zhang, P., Fan, Y., Sun, X., Chen, L., Terzaghi, W., Bucher, E., Li, L., and Dai, M. (2019). Plant J 98, 697-713.

Transposable Elements as Tool for Crop Improvement. In Advances in Botanical Research: Plant Epigenetics Coming of Age for Breeding Applications.

Thieme, M., and Bucher, E. (2018). (Elsevier), pp. 165-202.

The 5′-3′ Exoribonuclease XRN4 Regulates Auxin Response via the Degradation of Auxin Receptor Transcripts.

Windels, D., and Bucher, E. (2018). genes 9, 638.

A high-quality genome sequence of Rosa chinensis to elucidate ornamental traits.

Hibrand Saint-Oyant, L., Ruttink, T., Hamama, L., Kirov, I., Lakhwani, D., Zhou, N. N., Bourke, P. M., Daccord, N., Leus, L., Schulz, D., Van de Geest, H., Hesselink, T., Van Laere, K., Debray, K., Balzergue, S., Thouroude, T., Chastellier, A., Jeauffre, J., Voisine, L., Gaillard, S., Borm, T. J. A., Arens, P., Voorrips, R. E., Maliepaard, C., Neu, E., Linde, M., Le Paslier, M. C., Bérard, A., Bounon, R., Clotault, J., Choisne, N., Quesneville, H., Kawamura, K., Aubourg, S., Sakr, S., Smulders, M. J. M., Schijlen, E., Bucher, E., Debener, T., De Riek, J., and Foucher, F. (2018). Nat Plants

Inhibition of RNA polymerase II allows controlled mobilisation of retrotransposons for plant breeding.

Thieme, M., Lanciano, S., Balzergue, S., Daccord, N., Mirouze, M., and Bucher, E. (2017). Genome Biology 18, 1-10.

High-quality de novo assembly of the apple genome and methylome dynamics of early fruit development.

Daccord, N., Celton, J. M., Linsmith, G., Becker, C., Choisne, N., Schijlen, E., Van De Geest, H., Bianco, L., Micheletti, D., Velasco, R., Di Pierro, E. A., Gouzy, J., Rees, D. J. G., Guérif, P., Muranty, H., Durel, C. E., Laurens, F., Lespinasse, Y., Gaillard, S., Aubourg, S., Quesneville, H., Weigel, D., Van De Weg, E., Troggio, M., and Bucher, E. (2017). Nature Genetics 49, 1099-1106.

Ecological plant epigenetics: Evidence from model and non-model species, and the way forward.

Richards, C. L., Alonso, C., Becker, C., Bossdorf, O., Bucher, E., Colomé-Tatché, M., Durka, W., Engelhardt, J., Gaspar, B., Gogol-Döring, A., Grosse, I., van Gurp, T. P., Heer, K., Kronholm, I., Lampei, C., Latzel, V., Mirouze, M., Opgenoorth, L., Paun, O., Prohaska, S. J., Rensing, S. A., Stadler, P. F., Trucchi, E., Ullrich, K., and Verhoeven, K. J. F. (2017). Ecology Letters 20, 1576-1590.

Recurrent evolution of heat-responsiveness in Brassicaceae COPIA elements.

Pietzenuk, B., Markus, C., Gaubert, H., Bagwan, N., Merotto, A., Bucher, E., and Pecinka, A. (2016). Genome Biology 17, 1-15.

HISTONE DEACETYLASE6 Controls Gene Expression Patterning and DNA Methylation-Independent Euchromatic Silencing.

Hristova, E., Fal, K., Klemme, L., Windels, D., and Bucher, E. (2015). Plant Physiology 168, 1298-1308.

Heterosis and inbreeding depression of epigenetic Arabidopsis hybrids.

Dapp, M., Reinders, J., Bédiée, A., Balsera, C., Bucher, E., Theiler, G., Granier, C., and Paszkowski, J. (2015). Nature Plants 1, 1-8.

The return of Lamarck?

Bucher, E. (2013). Frontiers in Genetics 4, 1-2.

Loss of DNA methylation affects the recombination landscape in Arabidopsis.

Mirouze, M., Lieberman-Lazarovich, M., Aversano, R., Bucher, E., Nicolet, J., Reinders, J., and Paszkowski, J. (2012). Proceedings of the National Academy of Sciences of the United States of America 109, 5880-5885.

Epigenetic control of transposon transcription and mobility in Arabidopsis.

Bucher, E., Reinders, J., and Mirouze, M. (2012). Current Opinion in Plant Biology 15, 503-510.

An siRNA pathway prevents transgenerational retrotransposition in plants subjected to stress.

Ito, H., Gaubert, H., Bucher, E., Mirouze, M., Vaillant, I., and Paszkowski, J. (2011). Nature 472, 115-119.

Stress-induced activation of heterochromatic transcription.

Tittel-Elmer, M., Bucher, E., Broger, L., Mathieu, O., Paszkowski, J., and Vaillant, I. (2010). PLoS Genetics 6, 1-11.

RNA-directed DNA methylation and plant development require an IWR1-type transcription factor.

Kanno, T., Bucher, E., Daxinger, L., Huettel, B., Kreil, D. P., Breinig, F., Lind, M., Schmitt, M. J., Simon, S. A., Gurazada, S. G. R., Meyers, B. C., Lorkovic, Z. J., Matzke, A. J. M., and Matzke, M. (2010). EMBO Reports 11, 65-71.

MOM1 and Pol-IV/V interactions regulate the intensity and specificity of transcriptional gene silencing.

Yokthongwattana, C., Bucher, E., Caikovski, M., Vaillant, I., Nicolet, J., Mittelsten Scheid, O., and Paszkowski, J. (2010). Embo J 29, 340-351.

Selective epigenetic control of retrotransposition in Arabidopsis.

Mirouze, M., Reinders, J., Bucher, E., Nishimura, T., Schneeberger, K., Ossowski, S., Cao, J., Weigel, D., Paszkowski, J., and Mathieu, O. (2009). Nature 461, 1-5.

Compromised stability of DNA methylation and transposon immobilization in mosaic Arabidopsis epigenomes.

Reinders, J., Wulff, B. B. H., Mirouze, M., Marí-Ordóñez, A., Dapp, M., Rozhon, W., Bucher, E., Theiler, G., and Paszkowski, J. (2009). Genes and Development 23, 939-950.

A stepwise pathway for biogenesis of 24-nt secondary siRNAs and spreading of DNA methylation.

Daxinger, L., Kanno, T., Bucher, E., van der Winden, J., Naumann, U., Matzke, A. J. M., and Matzke, M. (2009). The EMBO journal 28, 48-57.

A structural-maintenance-of-chromosomes hinge domain-containing protein is required for RNA-directed DNA methylation.

Kanno, T., Bucher, E., Daxinger, L., Huettel, B., Böhmdorfer, G., Gregor, W., Kreil, D. P., Matzke, M., and Matzke, A. J. M. (2008). Nature Genetics 40, 670-675.

RNA-directed DNA methylation mediated by DRD1 and Pol IVb: A versatile pathway for transcriptional gene silencing in plants.

Huettel, B., Kanno, T., Daxinger, L., Bucher, E., van der Winden, J., Matzke, A. J. M., and Matzke, M. (2007). Biochimica et Biophysica Acta - Gene Structure and Expression 1769, 358-374.

RNA silencing: A Natural resistance mechanism in plants.

Bucher, E., and Prins, M. (2006).

Multiple virus resistance at a high frequency using a single transgene construct.

Bucher, E., Lohuis, D., van Poppel, P. M. J. A., Geerts-Dimitriadou, C., Goldbach, R., and Prins, M. (2006). Journal of General Virology 87, 3697-3701.

The influenza A virus NS1 protein binds small interfering RNAs and suppresses RNA silencing in plants.

Bucher, E. (2004). Journal of General Virology 85, 983-991.

Resistance mechanisms to plant viruses: An overview.

Goldbach, R., Bucher, E., and Prins, M. (2003). Virus Research 92, 207-212.

Negative-strand tospoviruses and tenuiviruses carry a gene for a suppressor of gene silencing at analogous genomic positions.

Bucher, E., Sijen, T., De Haan, P., Goldbach, R., and Prins, M. (2003). Journal of virology 77, 1329-1336.