Publications & COV

2023

• Tanguy Lallemand, Martin Leduc, Adèle Desmazières, Sébastien Aubourg, Carène Rizzon, Claudine Landès, Jean-Marc Celton. Insights into the Evolution of Ohnologous Sequences and Their Epigenetic Marks Post-WGD in Malus Domestica. Genome Biology and Evolution Volume 15, Issue 10, October 2023. DOI: 10.1093/gbe/evad178 

• Sinkora M., Fanciullino A. L., Page D., Giovinazzo R., Lanoë L., Vilas Boas A., Bertin N. Tomato puree quality from field to can: Effects of water and nitrogen-saving strategies. European Journal of Agronomy Volume 149, September 2023, 126891. https://doi.org/10.1016/j.eja.2023.126891

• Aslani, L., Breniere, T., Fanciullino, A. L., & Bertin, N. Evidence of the very early effects of water deficit on cell division and expansion processes in tomato ovaries. Environmental and Experimental Botany, 2023, p.105227. https://doi.org/10.1016/j.envexpbot.2023.105227

• Claude Emmanuel Koutouan, Valérie Le Clerc *, Anita Suel, Latifa Hamama, Patricia Claudel, David Halter, Raymonde Baltenweck, Philippe Hugueney, Jean-François Chich, Sitti Anlati Moussa, Clémentine Champlain,  Sébastien Huet, Linda Voisine, Sandra Pelletier, Sandrine Balzergue,  Wilfried Chevalier, Emmanuel Geoffriau, Mathilde Briard. Co-localization of resistance and metabolic Quantitative Trait Loci on  carrot genome reveals fungitoxic terpenes and related candidate genes associated to the resistance to Alternaria dauci.  Metabolites 2023 Jan 2;13(1):71. doi: 10.3390/metabo1301007

2022

• Gaëtan Maillot, Emmanuel Szadkowski, Anne Massire, Véronique Brunaud, Guillem Rigaill, Bernard Caromel, Joël Chadoeuf, Alexandre Bachellez, Nasradin Touhami, Ingo Hein, Kurt Lamour, Sandrine Balzergue, Véronique Lefebvre. Strive or thrive: Trends in Phytophthora capsici gene expression in partially resistant pepper.  Front. Plant Sci., 2022 Nov 21:13:980587. doi: 10.3389/fpls.2022.980587

• Antoine Larrieu, Géraldine Brunoud, Aurore Guérault, Stéphanie Lainé, Lauriane, Hennet, Arnaud Stigliani, Iris Gildea, Jeremy Just, Ludivine Soubigou-Taconnat, Sandrine Balzergue, Brendan Davies, Enrico Scarpella, Ykä Helariutta, François Parcy, Teva Vernoux. Transcriptional Reprogramming during Floral Fate Acquisition. ISCIENCE 2022 Jun 27;25(7):104683 https://doi.org/10.1016/j.isci.2022.104683

• Naoto Sano, Imen Lounifi, Gwendal Cueff , Boris Collet , Gilles Clément , Sandrine Balzergue, Stéphanie Huguet , Benoît Valot , Marc Galland and Loïc Rajjou. Multi-Omics Approaches Unravel Specific Features of Embryo and Endosperm in Rice Seed Germination. Front. Plant Sci., May 2022, volume 13. doi: 10.3389/fpls.2022.867263

• Marie-Françoise Jardinaud, Justine Fromentin, Marie-Christine Auriac, Sandra Moreau, Yann Pecrix, Ludivine Taconnat, Ludovic Cottret, Grégoire Aubert, Sandrine Balzergue, Judith Burstin, Sebastien Carrere, and Pascal Gamas. MtEFD and MtEFD2, two transcription factors with distinct neofonctionalization in symbiotic nodule development. Plant Physiol. . 2022 Apr 26. PMID: 35471237 DOI: 10.1093/plphys/kiac177

• Lili Zang, Łukasz Paweł Tarkowski, Marie-Christine Morère-Le Paven, Michel Zivy, Thierry Balliau, Thibault Clochard, Muriel Bahut, Sandrine Balzergue, Sandra Pelletier, Claudine Landès, Anis M. Limami, Françoise Montrichard. The nitrate transporter MtNPF6.8 is a master sensor of nitrate signal in the primary root tip of Medicago truncatula. Front. Plant Sci., 18 March 2022. https://doi.org/10.3389/fpls.2022.832246  Collaboration avec Plateau ANAN

2021

• Jean-Marc Celton, Luca Bianco, Gareth Linsmith, Sandrine Balzergue, and Michela Troggio. The Apple Genome, Compendium of Plant Genomes, Springer Nature Switzerland AG 2021,  S. S. Korban (ed.), Book Chapter: The Apple Genome and Epigenome. https://doi.org/10.1007/978-3-030-74682-7_ 

• Nguyen TT, Planchard N, Dahan J, Arnal N, Balzergue S, Benamar A, Bertin P, Brunaud V, Dargel-Graffin C, Macherel D, Martin-Magniette ML, Quadrado M, Namy O, Mireau H. A Case of Gene Fragmentation in Plant Mitochondria Fixed by the Selection of a Compensatory Restorer of Fertility-Like PPR Gene. Mol Biol Evol.Jul 29;38(8):3445-3458. doi: 10.1093/molbev/msab115

• Deveaux Y, Conde E Silva N, Manicacci D, Le Guilloux M, Brunaud V, Belcram H, Joets J, Soubigou-Taconnat L, Delannoy E, Corti H, Balzergue S, Caius J, Nadot S, Damerval C. Transcriptome Analysis Reveals Putative Target Genes of APETALA3-3 During Early Floral Development in Nigella damascena L. Front Plant Sci. 2021 Jun 4;12:660803. doi: 10.3389/fpls.2021.660803. eCollection 2021. PMID: 34149759

• Wang M, Pérez-Garcia MD, Davière JM, Barbier F, Ogé L, Gentilhomme J, Voisine L, Péron T, Launay-Avon A, Clément G, Baumberger N, Balzergue S, Macherel D, Grappin P, Bertheloot J, Achard P, Hamama L, Sakr S. Outgrowth of the axillary bud in rose is controlled by sugar metabolism and signalling. J Exp Bot. 2021 Apr 2;72(8):3044-3060. doi: 10.1093/jxb/erab046. PMID: 33543244

2020

• Perrin A., Daccord N., Roquis D., Celton JM., Vergne E., Bucher E. Divergent DNA Methylation Signatures of Juvenile Seedlings, Grafts and Adult Apple Trees. Epigenomes (2020) 4(1), 4 https://doi.org/10.3390/epigenomes4010004

• Wang, W., Celton, J., Buck-Sorlin, G., Balzergue, S., Bucher, E., Laurens, F., 2020. Skin Color in Apple Fruit (Malus × domestica): Genetic and Epigenetic Insights. Epigenomes 4. https://doi.org/doi:10.3390/epigenomes4030013

• Lallemand T., Leduc M., Landès C., Rizzon C., Lerat E., 2020. An Overview of Duplicated Gene Detection Methods: Why the Duplication Mechanism Has to Be Accounted for in Their Choice. Genes 11, 1046. https://doi.org/10.3390/genes11091046

2019

• Gully K, Celton JM, Degrave A, Pelletier S, Brisset M-N, Bucher E   2019 Biotic stress-induced priming and de-priming of transcriptional memory in Arabidopsis and apple      Epigenomes    3,3 

• McClure KA, Gong Y, Song J, Vinqvist-Tymchuk M, Campbell Palmer L, Fan L, Burgher-MacLellan K, Zhang Z, Celton JM, Forney CF, Migicovsky, Myles S 2019    The genetic architecture of apple polyphenols   Horticulture Research    6;107

• Sawicki M, Rondeau M, Courteaux B, Rabenoelina F, Guerriero G, Gomès E, Soubigou-Taconnat L, Balzergue S, Clément C, Ait Barka E, Vaillant-Gaveau N, Jacquard C.2019   On a Cold Night: Transcriptomics of Grapevine Flower Unveils Signal Transduction and Impacted Metabolism. Int J Mol Sci.  5;20(5)

• Gallardo K, Besson A, Klein A, Le Signor C, Aubert G, Henriet C, Térézol M, Pateyron S, Sanchez M, Trouverie J, Avice JC, Larmure A, Salon C, Balzergue S, Burstin J.           2019 Transcriptional Reprogramming of Pea Leaves at Early Reproductive Stages.  Front Plant Sci.   7;10:1014.

• Peace CP, Bianco L, Troggio M, van de Weg E, Howard NP, Cornille A, Durel CE, Myles S, Migicovsky Z, Schaffer RJ, Costes E, Fazio G, Yamane H, van Nocker S, Gottschalk C, Costa F, Chagné D, Zhang X, Patocchi A, Gardiner SE, Hardner C, Kumar S, Laurens F, Bucher E, Main D, Jung S, Vanderzande S.      2019    Apple whole genome sequences: recent advances and new prospects.    Hortic Res.  5;6:59.

• Nyikó T, Auber A, Bucher E. 2019    Functional and molecular characterization of the conserved Arabidopsis PUMILIO protein, APUM9.  Plant Mol Biol.  100(1-2):199-214

• Zhang P, Fan Y, Sun X, Chen L, Terzaghi W, Bucher E, Li L, Dai M. 2019 A large-scale circular RNA profiling reveals universal molecular mechanisms responsive to drought stress in maize and Arabidopsis.  Plant J. ;98(4):697-713.

• Gully K, Pelletier S, Guillou MC, Ferrand M, Aligon S, Pokotylo I, Perrin A, Vergne E, Fagard M, Ruelland E, Grappin P, Bucher E, Renou JP, Aubourg S.  2019  The SCOOP12 peptide regulates defense response and root elongation in Arabidopsis thaliana.  J Exp Bot. 20;70(4):1349-1365

• Linsmith G, Rombauts S, Montanari S, Deng CH, Celton JM, Guérif P, Liu C, Lohaus R,  Zurn JD, Cestaro A, Bassil NV, Bakker LV, Schijlen E, Gardiner SE,…  Bianco L. Pseudo-Chromosome Length Genome Assembly of a Double Haploid ‘Bartlett’ Pear (Pyrus Communis L.).GigaScience (2019), 8 ; giz138.   https://doi.org/10.1093/gigascience/giz138

2018

• Hibrand L., Ruttink T., Hamama L., Kirov I., Lakhwani D., Zhou N.-N., Bourke P., Daccord N., Leus L., Schulz D., Van deGeest H., Hesselink T., Van Laere K., Balzergue S., Thouroude T., Chastellier A., Jeauffre J., Voisine L., Gaillard S., Borm T., Arens P., Voorrips R., Maliepaard C., Neu E., Linde M., Le Paslier M.-C., Berard A., Bounon R., Clotault J., Choisne N., Quesneville H., Kawamura K., Aubourg S., Sakr S., Smulder R., Schijlen E., Bucher E., Debener T., De Riek J., Foucher F. 2018    A high-quality genome sequence of Rosa chinensis to elucidate ornamental traits.   Nat Plants.      4(7):473-484.

• Berthelier J, Casse N, Daccord N, Jamilloux V, Saint-Jean B, Carrier G.    2018    A transposable element annotation pipeline and expression analysis reveal potentially active elements in the microalga Tisochrysis lutea.  BMC Genomics.  22;19(1):378.

• Windels D, Bucher E  2018    The 5'-3' Exoribonuclease XRN4 Regulates Auxin Response via the Degradation of Auxin Receptor Transcripts.            Genes (Basel) 17;9(12)

• Chen Y, Grimplet J, David K, Castellarin SD, Terol J, Wong DCJ, Luo Z, Schaffer R, Celton JM, Talon M, Gambetta GA, Chervin C. 2018   Ethylene receptors and related proteins in climacteric and non-climacteric fruits.   Plant Sci. 276:63-72.

• Rogier O, Chateigner A, Amanzougarene S, Lesage-Descauses MC, Balzergue S, Brunaud V, Caius J, Soubigou-Taconnat L, Jorge V, Segura V.   2018    Accuracy of RNAseq based SNP discovery and genotyping in Populusnigra. BMC Genomics. 12;19(1):909

• Xia Q, Saux M, Ponnaiah M, Gilard F, Perreau F, Huguet S, Balzergue S, Langlade N1, Bailly C, Meimoun P, Corbineau F, El-Maarouf-Bouteau H   2018 One Way to Achieve Germination: Common Molecular Mechanism Induced by Ethylene and After-Ripening in Sunflower Seeds. Int J Mol Sci.  20;19(8). 

• Rey E, Abrouk M, Keeble-Gagnère G, Karafiátová M, Vrána J, Balzergue S, Soubigou-Taconnat L, Brunaud V, Martin-Magniette ML, Endo TR, Bartoš J; International Wheat Genome Sequencing Consortium (IWGSC), Appels R, Doležel J    2018    Transcriptome reprogramming due to the introduction of a barley telosome into bread wheat affects more barley genes than wheat.  Plant Biotechnol J.  16(10):1767-1777

• Sakai K, Taconnat L, Borrega N, Ynasouni J, Brunaud V., Paynsant-Le Pous C., Delannoy E., Martin-Magniette M.L., Lepiniec L., Faure J.D., Balzergue S., Dubreucq B.     2018 Combining laser-assisted microdissection (LAM) and RNA-seq allows to perform a comprehensive transcriptomic analysis of epidermal cells of Arabidopsis embryo.  Plant Methods. 3;14:10.

2017

• N. Daccord, J. M. Celton, G. Linsmith, C. Becker, N. Choisne, E. Schijlen, H. van de Geest, L. Bianco, D. Micheletti, R. Velasco, E. A. Di Pierro, J. Gouzy, D. J. G. Rees, P. Guérif, H. Muranty, C.-E. Durel, F. Laurens, Y. Lespinasse, S. Gaillard, S. Aubourg, H. Quesneville, D. Weigel, E. van de Weg, M. Troggio and E. Bucher   2017    High-quality de novo assembly of the apple genome and methylome dynamics of early fruit development.  Nature Genetics 49(7):1099-1106

• M. Thieme, S. Lanciano, S. Balzergue, N. Daccord, M. Mirouze and E. Bucher     2017    Inhibition of RNA polymerase II allows controlled mobilisation of retrotransposons for plant breeding. Genome Biology   18(1):134

• Richards, C. L., Alonso, C., Becker, C., Bossdorf, O., Bucher, E., Colomé-Tatché, M., … Verhoeven, K. J. F.    2017    Ecological plant epigenetics: Evidence from model and non-model species, and the way forward.   Ecology Letters   20(12), 1576-1590

• Urrestarazu J, Muranty H, Denancé C, Leforestier D, Ravon E, Guyader A, Guisnel R, Feugey L, Aubourg S, Celton JM, Daccord N, Dondini L, Gregori R, Lateur M, Houben P, Ordidge M, Paprstein F, Sedlak J, Nybom H, Garkava-Gustavsson L, Troggio M, Bianco L, Velasco R, Poncet C, Théron A, Moriya S, Bink M, Laurens F, Tartarini S, Durel CE       2017    Genome-wide association mapping of flowering and ripening periods in apple. Frontiers in Plant Science       

2016

• B. Pietzenuk, C. Markus, H. Gaubert, N. Bagwan, A. Merotto, E. Bucher and A. Pecinka  2016    Recurrent evolution of heat-responsiveness in Brassicaceae COPIA elements.  Genome Biology  17:209

2015

• Hristova E, Fal K, Klemme L, Windels D, Bucher E (2015) HDA6 controls gene expression patterning and DNA methylation-independent euchromatic silencing. Plant Physiol. doi: 10.1104/pp.15.00177