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Institut Sophia Agrobiotech

UMR INRA - Univ. Nice Sophia Antipolis - Cnrs


Analytical biochemistry platform

  • Bidet M, Joubert O, Lacombe B, Nehmé R, Mollat P, Brétillon L, Faure H, Bittman R, Ruat M, and Mus-Veteau I, (2011) The Hedgehog Receptor Patched is involved in Cholesterol Transport, PLoS ONE Sept 08 
  • Hovers J, Potschies M, Polidori A, Pucci B, Bonneté F, Serrano-Vega MJ, Tate CG, Picot D, Pierre Y, Popot JL, Nehmé R, Bidet M, Mus-Veteau I, Bußkamp H, Jung KH, Marx A, Timmins PA, Welte W (2011) A class of mild surfactants that keep integral membrane proteins water-soluble for functional studies and crystallization, Molecular Membrane Biology, DOI 10.3109/09687688.2011.554-2440
  • Nehmé R, Joubert O, Bidet M, Lacombe B, Polidori A, Pucci B, & Mus-Veteau I (2010) Stability Study of the Human G-Protein Coupled Receptor, Smoothened, BBA Biomembrane, 1798: 1100-1110.
  • Joubert O, Nehmé R, Fleury D, De Rivoyre M, Bidet M, Polidori A, Ruat M, Pucci B, Mollat P, & Mus-Veteau I, (2009) Functional studies of membrane-bound and purified human Hedgehog receptor Patched expressed in yeast, BBA Biomembrane, 1788: 1813-1821

Bioinformatic platform

  • Abad P, Gouzy J, Aury JM, Castagnone-Sereno P, Danchin EG, Deleury E, [...], Weissenbach J, Wincker P. (2008) Genome sequence of the metazoan plant-parasitic nematode Meloidogyne incognitaNat Biotechnol. Aug;26(8):909-15. Epub Jul 27.
  • Blanc-Mathieu, R., Perfus-Barbeoch, L., Aury, J.-M., Rocha, M.D., Gouzy, J., Sallet, E., Martin-Jimenez, C., Bailly-Bechet, M., Castagnone-Sereno, P., Flot, J.-F., et al. (2017). Hybridization and polyploidy enable genomic plasticity without sex in the most devastating plant-parasitic nematodes. PLOS Genetics 13, e1006777. DOI: 10.1371/journal.pgen.1006777
  • Blanc-Mathieu, R., Perfus-Babeoch, L., Aury, J.-M., Rocha, M.D., Gouzy, J., Sallet, E., Martin-Jimenez, C., Castagnone-Sereno, P., Flot, J.-F., Kozlowski, D., et al. (2016). Peculiar hybrid genomes of devastating plant pests promote plasticity in the absence of sex and meiosis. bioRxiv 046805. DOI: 10.1101/046805
  • Castagnone-Sereno P, Deleury E, Danchin EG, Perfus-Barbeoch L, Abad P (2011) Data-mining of the Meloidogyne incognita degradome and comparative analysis of proteases un nematodes. Genomics. Jan;97(1):29-36.
  • Damiani I., Drain A., Guichard M., Balzergue S., Boscari A., Boyer J-C, Brunaud V., Cottaz S., Rancurel C., Da Rocha M., Fizames C., Fort S., Gaillard I., Danchin E.G.J., Maillol V., Rouached H., Samain E., Su Y-H, Thouin J., Touraine B., Puppo A., Frachisse J-M, Pauly N., Sentenac H. (2016). Nod factor effects on root hair-specific transcriptome of Medicago truncatula: focus on plasma membrane transport systems and reactive oxygen species networks. Front. Plant Sci. 7, 794. DOI: 10.3389/fpls.2016.00794
  • Da Rocha al., (2012) Does a genome structure in divergent copies allow animal to evolve without sexual reproduction ? JOBIM 2012, poster 25.
  • Danchin, E.G.J., Arguel, M.-J., Campan-Fournier, A., Perfus-Barbeoch, L., Magliano, M., Rosso, M.-N., Da Rocha, M., Da Silva, C., Nottet, N., Labadie, K., et al. (2013). Identification of Novel Target Genes for Safer and More Specific Control of Root-Knot Nematodes from a Pan-Genome Mining. PLoS Pathog 9, e1003745. DOI: 10.1371/journal.ppat.1003745
  • Eves-van den Akker S., Lilley C., Danchin E.G.J., Rancurel C., Cock P., Urwin P., Jones J.T. (2014). The transcriptome of Nacobbus aberrans reveals insights into the evolution of sedentary endoparasitism in plant-parasitic nematodes. Genome Biol. Evol.
  • Eves-van den Akker, S., Laetsch, D.R., Thorpe, P., Lilley, C.J., Danchin, E.G.J., Da Rocha, M., Rancurel, C., Holroyd, N.E., Cotton, J.A., Szitenberg, A., et al. (2016). The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome Biology 17, 124. Doi: 10.1186/s13059-016-0985-1
  • Flot, J.-F., Hespeels, B., Li, X., Noel, B., Arkhipova, I., Danchin, E.G.J., Hejnol, A., Henrissat, B., Koszul, R., Aury, J.-M., et al. (2013). Genomic evidence for ameiotic evolution in the bdelloid rotifer Adineta vaga. Nature. Doi: 10.1038/nature12326
  • Jaouannet M, Perfus-Barbeoch L, Deleury E, Magliano M, Engler G, Vieira P, Danchin EG, Da Rocha M, Coquillard P, Abad P, Rosso MN. (2012) A root-knot nematode-secreted protein is injected into giant cells and targeted to the nuclei. New Phytol. Jun;194(4):924-31.
  • Pasquier, C., Clément, M., Dombrovsky, A., Penaud, S., Da Rocha, M., Rancurel, C., Ledger, N., Capovilla, M., and Robichon, A. (2014). Environmentally Selected Aphid Variants in Clonality Context Display Differential Patterns of Methylation in the Genome. PLoS ONE 9, e115022. DOI: 10.1371/journal.pone.0115022
  • Pratlong, M., Rancurel, C., Pontarotti, P., and Aurelle, D. (2017). Monophyly of Anthozoa (Cnidaria): why do nuclear and mitochondrial phylogenies disagree? Zool Scr 46, 363–371. DOI: 10.1111/zsc.12208
  • Soleilhavoup, C., Tsikis, G., Labas, V., Harichaux, G., Kohnke, P.L., Dacheux, J.L., Guérin, Y., Gatti, J.L., de Graaf, S.P., and Druart, X. (2014). Ram seminal plasma proteome and its impact on liquid preservation of spermatozoa. J Proteomics 109, 245–260. DOI: 10.1016/j.jprot.2014.07.007

Microscopy platform

  • Junior, A. de S., Dijair, J., Pierre, O., Coelho, R.R., Grossi-de-Sa, M.F., Engler, G., and de Almeida Engler, J. (2017). Application of Nuclear Volume Measurements to Comprehend the Cell Cycle in Root-Knot Nematode-Induced Giant Cells. Front. Plant Sci. 8. DOI: 10.3389/fpls.2017.00961
  • Ramos Coelho, R., Vieira, P., Antonino de Souza Júnior, J.D., Martin-Jimenez, C., De Veylder, L., Cazareth, J., Engler, G., Grossi-de-Sa, M.F., and de Almeida Engler, J. (2017). Exploiting cell cycle inhibitor genes of the KRP family to control root-knot nematode induced feeding sites in plants. Plant, Cell & Environment. Doi: 10.1111/pce.12912


  • Díaz-Manzano, F.E., Barcala, M., Engler, G., Fenoll, C., de Almeida-Engler, J., and Escobar, C. (2016). A Reliable Protocol for In situ microRNAs Detection in Feeding Sites Induced by Root-Knot Nematodes. Front Plant Sci 7, 966. DOI: 10.3389/fpls.2016.00966
  • Kyndt, T., Goverse, A., Haegeman, A., Warmerdam, S., Wanjau, C., Jahani, M., Engler, G., Engler, J. de A., and Gheysen, G. (2016). Redirection of auxin flow in Arabidopsis thaliana roots after infection by root-knot nematodes. J. Exp. Bot. erw230. DOI: 10.1093/jxb/erw230


  • Cabrera, J., Díaz-Manzano, F.E., Barcala, M., Arganda-Carreras, I., de Almeida-Engler, J., Engler, G., Fenoll, C., and Escobar, C. (2015) Phenotyping nematode feeding sites: three-dimensional reconstruction and volumetric measurements of giant cells induced by root-knot nematodes in Arabidopsis. New Phytol. DOI: 10.1111/nph.13249
  • Engler, J. de A., Vieira, P., Rodiuc, N., Sa, M.F.G. de, and Engler, G. (2015). The plant cell cycle machinery: usurped and modulated by plant-parasitic nematodes. Advances in Botanical Research 73, 91–118. 
  • Paganelli L, Caillaud MC, Quentin M, Damiani I, Govetto B, Lecomte P, Karpov PA, Abad P, Chabouté ME,  Favery B (2015) Three BUB1 and BUBR1/MAD3-related spindle assembly checkpoint proteins are required for accurate mitosis in Arabidopsis.  New Phytol. 205(1):202-15
  • Rodiuc, N., Barlet, X., Hok, S., Perfus-Barbeoch, L., Allasia, V., Engler, G., Séassau, A., Marteu, N., de Almeida-Engler, J., Panabières, F., et al. (2015). Evolutionarily distant pathogens require the Arabidopsis phytosulfokine signalling pathway to establish disease. Plant Cell Environ. DOI: 10.1111/pce.12627


  • Attard A, Evangelisti E, Kebdani-Minet N, Panabières F, Deleury E, Maggio C, Ponchet M, Gourgues M (2014) Transcriptome dynamics of Arabidopsis thaliana root penetration by the oomycete pathogen Phytophthora parasitica. BMC Genomics. 15:538
  • Bernstein, A., Mangeon, A., Almeida-Engler, J., Engler, G., Montagu, M.V., Sachetto-Martins, G., and de Oliveira, D.E. (2014) Functional analysis of an auxin-inducible DNA-binding protein gene. Plant Signal Behav. DOI: 10.4161/15592324.2014.977706
  • Bezerra, C.A., Macedo, L.L.P., Amorim, T.M.L., Santos, V.O., Fragoso, R.R., Lucena, W.A., Meneguim, A.M., Valencia-Jimenez, A., Engler, G., Silva, M.C.M., et al. (2014). Molecular cloning and characterization of an α-amylase cDNA highly expressed in major feeding stages of the coffee berry borer, Hypothenemus hampei. Gene 553, 7–16. DOI: 10.1016/j.gene.2014.09.050
  • Hopkins J, Pierre O, Kazmierczak T, Gruber V, Frugier F, Clement M, Frendo P, Herouart D, Boncompagni E (2014). MtZR1, a PRAF protein, is involved in the development of roots and symbiotic root nodules in Medicago truncatula. Plant Cell Environ. 37(3):658-69
  • Jezierska, A, Chaux, C, Pesquet, J-C, Talbot, H and Engler, G (2014)  An EM Approach for Time-Variant Poisson-Gaussian Model Parameter Estimation. IEEE Transactions on signal processing. 62(1): 17-30
  • Larousse M, Govetto B, Seassau A, Etienne C, Industri B, Theodorakopoulos N, Deleury E, Ponchet M, Panabieres F, Galiana E (2014) Characterization of PPMUCL1/2/3, three members of a new oomycete-specific mucin-like protein family residing in Phytophthora parasitica biofilm. Protist 165(3):275-92
  • Lipuma J, Cinege G, Bodogai M, Oláh B, Kiers A, Endre G, Dupont L, Dusha I (2014)  A vapBC-type toxin-antitoxin module of Sinorhizobium meliloti influences symbiotic efficiency and nodule senescence of Medicago sativa. Environ. Microbiol. DOI: 10.1111/1462-2920.12608
  • Pierre O, Hopkins J, Combier M, Baldacci F, Engler G, Brouquisse R, Hérouart D, Boncompagni E (2014) Involvement of papain and legumain proteinase in the senescence process of Medicago truncatula nodules. New Phytol. 202(3): 849-63
  • Ribeiro CW, Alloing G, Mandon K, Frendo P (2014) Redox regulation of differentiation in symbiotic nitrogen fixation. Biochim Biophys Acta. DOI 10.1016/j.bbagen.2014.11.018
  • Vieira P, De Clercq A, Stals H, Van Leene J, Van De Slijke E, Van Isterdael G, Eeckhout D, Persiau G, Van Damme D, Verkest A, Antonino de Souza JD, Júnior, Glab N, Abad P, Engler G, Inzé D, De Veylder L, De Jaeger G, Engler JD. (2014) The Cyclin-Dependent Kinase Inhibitor KRP6 Induces Mitosis and Impairs Cytokinesis in Giant Cells Induced by Plant-Parasitic Nematodes in Arabidopsis. Plant Cell 26(6):2633-2647


  • Andrio E, Marino D, Marmeys A, de Segonzac MD, Damiani I, Genre A, Huguet S, Frendo P, Puppo A, Pauly N. (2013) Hydrogen peroxide-regulated genes in the Medicago truncatula–Sinorhizobium meliloti symbiosis. New Phytol. 198:179-89
  • Antonino de Souza Júnior JD, Ramos Coelho R, Tristan Lourenço I, da Rocha Fragoso R, Barbosa Viana AA, Lima Pepino de Macedo L, Mattar da Silva MC, Gomes Carneiro RM, Engler G, de Almeida-Engler J, Grossi-de-Sa MF. (2013) Knocking-down Meloidogyne incognitaproteases by plant-delivered dsRNA has negative pleiotropic effect on nematode vigor . PLoS One. 8(12): e85364
  • Baron OL, van West P, Industri B, Ponchet M, Dubreuil G, Gourbal B, Reichhart JM, Coustau C. (2013) Parental Transfer of the Antimicrobial Protein LBP/BPI Protects Biomphalaria glabrata Eggs against Oomycete Infections. PLoS Pathog. 9(12):e1003792
  • Benyamina SM, Baldacci-Cresp F, Couturier J, Chibani K, Hopkins J, Bekki A, de Lajudie P, Rouhier N, Jacquot JP, Alloing G, Puppo A, Frendo P. (2013) Two Sinorhizobium meliloti glutaredoxins regulate iron metabolism and symbiotic bacteroid differentiation. Environ Microbiol. 15(3):795-810
  • de Almeida Engler J, Gheysen G (2013) Nematode-induced endoreduplication in plant host cells: why and how? Mol Plant Microbe Interact.26(1):17-24
  • Evangelisti E, Govetto B, Minet-Kebdani N, Kuhn ML, Attard A, Ponchet M, Panabières F, Gourgues M. (2013) The Phytophthora parasitica RXLR effector penetration-specific effector 1 favours Arabidopsis thaliana infection by interfering with auxin physiology. New Phytol. 199(2):476-89
  • Firmino AA, Fonseca FC, de Macedo LL, Coelho RR, Antonino de Souza JD Jr, Togawa RC, Silva-Junior OB, Pappas-Jr GJ, da Silva MC, Engler G, Grossi-de-Sa MF. (2013) Transcriptome Analysis in Cotton Boll Weevil (Anthonomus grandis) and RNA Interference in Insect Pests. PLoS One. 8(12):e85079
  • Iberkleid I, Vieira P, de Almeida Engler J, Firester K, Spiegel Y, Horowitz SB. (2013) Fatty acid-and retinol-binding protein, Mj-FAR-1 induces tomato host susceptibility to root-knot nematodes.PLoS One. 8(5): e64586
  • Koch A, Kumar N, Weber L, Keller H, Imani J, et Kogel KH (2013). Host-induced gene silencing of cytochrome P450 lanosterol C14α-demethylase-encoding genes confers strong resistance to Fusarium species. Proc Natl Acad Sci U S A 110, 19324-19329
  • Kyndt T, Vieira P, Gheysen G, de Almeida-Engler J. (2013) Nematode feeding sites: unique organs in plant roots. Planta. 238(5):807-18
  • Pierre, O., Engler, G., Hopkins, J., Brau, F., Boncompagni, E., and Hérouart, D. (2013). Peribacteriod space acidification: a marker of mature bacteroid functioning in Medicago truncatula nodules. Plant Cell Environ. DOI: 10.1111/pce.12116
  • Quentin M, Abad P, Favery B. (2013). Plant parasitic nematode effectors target host defense and nuclear functions to establish feeding cells. Front Plant Sci.  4:53
  • Vieira, P., Engler, G., and de Almeida Engler, J. (2013). Enhanced levels of plant cell cycle inhibitors hamper root-knot nematode-induced feeding site development. Plant Signal Behav. 8(12)
  • Vieira P, Escudero C, Rodiuc N, Boruc J, Russinova E, Glab N, Mota M, De Veylder L, Abad P, Engler G, de Almeida Engler J. (2013)  Ectopic expression of kip-related proteins restrains root-knot nematode-feeding site expansion.  New Phytol. 199 (2): 505-19


  • Ayers K, Mteirek R, Cervantes A, Lavenant-Staccini L, Thérond P and Gallet A. (2012) Dally and Notum regulate the switch between low and high level Hedgehog pathway signalling. Development. 139(17):3168-79
  • Baldacci-Cresp F, Chang C, Maucourt M, Deborde C, Hopkins J, Lecomte P, Bernillon S, Brouquisse R, Moing A, Abad P, Hérouart D, Puppo A, Favery B, Frendo P. (2012) (Homo)glutathione deficiency impairs root-knot. nematode development in Medicago truncatula.PloS Pathog. 8(1):e1002471
  • Cam Y, Pierre O, Boncompagni E, Hérouart D, Meilhoc E, Bruand C. (2012) Nitric oxide (NO): a key player in the senescence of Medicago truncatula root nodules. New Phytol. 196(2):548-60
  • Damiani I, Baldacci-Cresp F, Hopkins J, Andrio E, Balzergue S, Lecomte P, Puppo A, Abad P, Favery B, Hérouart D (2012) Plant genes involved in harbouring symbiotic rhizobia or pathogenic nematodes. New Phytol. 194 (2) : 511-522
  • de Almeida Engler J, Kyndt T, Vieira P, Van Cappelle E, Boudolf V, Sanchez V, Escobar C, De Veylder L, Engler G, Abad P, Gheysen G. (2012) CCS52 and DEL1 genes are key components of the endocycle in nematode induced feeding sites. The Plant Journal. 72(2): 185-198
  • Jaouannet, M., Perfus-Barbeoch, L., Deleury, E., Magliano, M., Engler, G., Vieira, P., Danchin, E.G.J., Da Rocha, M., Coquillard, P., Abad, P. and Rosso, MN.(2012) A root-knot nematode-secreted protein is injected into giant cells and targeted to the nucleiNew Phytologist. 2012: 194: 924-931
  • Ranieri N, Ruel ., Gallet A, Raisin-Tani and Thérond P(2012) Distinct Phosphorylations on Kinesin Costal-2 Mediate Differential Hedgehog Signaling Strength. Dev Cell. 22(2):279-94
  • Schmitz A, Anselme C, Ravallec M, Rebuf C, Simon JC, Gatti JL, Poirié M. (2012). The cellular immune response of the pea aphid to foreign intrusion and symbiotic challenge. PLoS One. 7(7):e42114
  • Thiebaut F, Rojas CA, Almeida KL, Grativol C, Domiciano GC, Lamb CR, Engler Jde A, Hemerly AS, Ferreira PC. (2012). Regulation of miR319 during cold stress in sugarcane. Plant Cell Environ. 35(3):502-12
  • Vieira P, Banora MY, Castagnone-Sereno P, Rosso MN, Engler G, de Almeida Engler J. (2012) An immunocytochemical procedure for protein localization in various nematode life stages combined with plant tissues using methylacrylate-embedded specimens. Phytopathology.102(10):990-6
  • Vieira, P., Engler, G. and de Almeida Engler, J. (2012) Whole-mount confocal imaging of nuclei in giant feeding cells induced by root-knot nematodes in Arabidopsis. New Phytologist. 2012: 195(2): 488-496

Archive 2011-2006 Microscopy Platform

2011-2006 publication list
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