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UMR INRA - Univ. Nice Sophia Antipolis - Cnrs

http://www.paca.inra.fr/institut-sophia-agrobiotech_eng/

Archive 2011-2006

2011-2006 publication list

2011

  • Amselem J, Cuomo CA, van Kan JA, Viaud M, Benito EP, Couloux A, Coutinho PM, de Vries RP, Dyer PS, Fillinger S, Fournier E, Gout L, Hahn M, Kohn L, Lapalu N, Plummer KM, Pradier JM, Quévillon E, Sharon A, Simon A, Ten Have A, Tudzynski B, Tudzynski P, Wincker P, Andrew M, Anthouard V, Beever RE, Beffa R, Benoit I, Bouzid O, Brault B, Chen Z, Choquer M, Collémare J, Cotton P, Danchin EG, Da Silva C, Gautier A, Giraud C, Giraud T, Gonzalez C, Grossetete S, Güldener U, Henrissat B, Howlett BJ, Kodira C, Kretschmer M, Lappartient A, Leroch M, Levis C, Mauceli E, Neuvéglise C, Oeser B, Pearson M, Poulain J, Poussereau N, Quesneville H, Rascle C, Schumacher J, Ségurens B, Sexton A, Silva E, Sirven C, Soanes DM, Talbot NJ, Templeton M, Yandava C, Yarden O, Zeng Q, Rollins JA, Lebrun MH, Dickman M. (2011) Genomic Analysis of the Necrotrophic Fungal Pathogens Sclerotinia sclerotiorum and Botrytis cinerea. PLoS Genetics (8):e1002230
  • Bosselut N, Van Ghelder C, Claverie M, Voisin R, Onesto JP, Rosso MN, Esmenjaud D. 2011.Agrobacterium rhizogenes-mediated transformation ofPrunus as an alternative for gene functional analysis in hairy-roots and composite plants. Plant Cell Rep 30:1313-1326. 
  • Castagnone-Sereno P., Deleury E., Perfus-Barbeoch L., Danchin E.G.J., Abad P. Data-mining of the Meloidogyne incognita degradome and comparative analysis of proteases in nematode. Genomics 2011; Jan;97(1):29-36
  • Danchin E.G.J. What Nematode genomes tell us about the importance of horizontal gene transfers in the evolutionary history of animals ? Mobile Genetic Elements 2011 Nov/Dec 1(4):1-5
  • Haegeman A., Jones J., Danchin E.G.J. Horizontal gene transfer in nematodes: a catalyst for plant parasitism? Molecular Plant Microbe Interaction 2011 Aug;24(8):879-87
  • Hok S., Danchin E.G.J., Allasia V., Panabières F., Attard A., Keller H. An Arabidopsis (malectin-like) leucine-rich repeat receptor-like kinase contributes to downy mildew disease. (2011) Plant, Cell & Environment doi: 10.1111/j.1365-3040.2011.02390.x.
  • Khallouk, S., Voisin, R., Van Ghelder, C., Engler, G., Amiri, S.,Esmenjaud, D.2011. Histological mechanism of the resistance conferred by the Magene against Meloidogyne incognita in Prunus. Phytopathology 101: 945-951.
  • Souza, D.D.S. de L. e, de Souza, J.D.A., Jr, Grossi-de-Sá, M., Rocha, T.L., Fragoso, R. da R., Barbosa, A.E.A. de D., de Oliveira, G.R., Nakasu, E.Y.T., de Sousa, B.A., Pires, N.F., et al. (2011). Ectopic expression of a Meloidogyne incognita dorsal gland protein in tobacco accelerates the formation of the nematode feeding site. Plant Sci. 180, 276–282.
  • Vens C., Rosso MN., Danchin E.G.J. Identifying discriminative classification-based motifs in biological sequences. Bioinformatics 2011; 27 (9): 1231-1238.(View Online)
  • Vieira P., Danchin E.G.J., Neveu C., Crozat C., Jaubert S., Hussey R.S., Engler G., Abad P., de Almeida-Engler J., Castagnone-Sereno P., Rosso M.N. The plant apoplasm is an important recipient compartment for nematode secreted proteins . Journal of Experimental Botany 2011 Jan;62(3):1241-5

2010

  • Abad, P., Williamson, V.M. (2010). Plant nematode interaction: a sophisticated dialogue. Advances in Botanical Research, 53: 147-192.
  • Barcala, M., Garcia, A., Cabrera, J., Casson, S., Lindsey, K., Favery, B., Garcia-Casado, G., Solano, R., Fenoll, C., Escobar, C. (2010). Early transcriptomic events in microdissected Arabidopsis nematode-induced giant cells. Plant Journal, 61: 698-712.
  • Castagnone-Sereno P, Danchin E.G.J., Deleury E, Guillemaud T, Malausa T, Abad P. Genome-wide survey and analysis of microsatellites in nematodes, with a focus on the plant-parasitic species Meloidogyne incognita. BMC Genomics. 2010 Oct 25; 11:598.
  • Danchin E.G.J., Rosso M-N., Vieira P., de Almeida-Engler J., Coutinho P, Henrissat B., Abad P. (2010). Multiple lateral gene transfers and duplications have promoted plant parasitism ability in nematodes. PNAS 2010; Oct 12;107(41):17651-6. (Open access)
  • de Almeida Engler J., Rodiuc N., Smertenko A., Abad P. (2010). Plant actin cytoskeleton re-modelling by plant parasitic nematodes. Plant Signaling & Behavior 5:3, 1-5; March, 2010.
  • Demangeat, G, Komar, V., Van-Ghelder, C., Voisin, R., Lemaire, O., Esmenjaud, D., Fuchs, M. (2010). Transmission competency of single-femaleXiphinema index lines for Grapevine fanleaf virus. Phytopathology 100:384-389.
  • Esmenjaud, D., Van Ghelder, C., Voisin, R., Bordenave, L., Decroocq, S., Bouquet, A., Ollat, N. (2010). Host suitability of Vitis andVitis-Muscadinia material to the nematode Xiphinema index over 1 to 4 years. American Journal of Enology & Viticulture (US) 61: 96-101.
  • Gutierrez-Gutierrez, C., Palomares-Rius, J.E., Cantalapiedra-Navarrete, C., Landa, B.B., Esmenjaud, D. and Castillo, P. 2010. Molecular analysis and comparative morphology to resolve a complex of cryptic Xiphinema species. Zoologica Scripta 39: 483–498.
  • Hofmann J., Youssef Banora M., de Almeida-Engler J., Grundler, FMW. (2010). The role of callose deposition along plasmodesmata in nematode feeding sites. Co-last authorship. MPMI, 23: 549-557.
  • Ma L., van der Does C., Borkovich K.A., Coleman J.J., ... , Danchin E.G.J., ... , Galagan J., Cuomo C.A., Kistler H.C., Rep M. Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium. Nature 2010; Mar 18;464(7287):367-73. (View Online)
  • Malausa T., Gilles A, Meglécz E., Blanquart H., Duthoy S., Costedoat C., Dubut V., Pech N., Castagnone-Sereno P., Délye C., Feau N., Frey P., Gauthier P., Guillemaud T., Hazard L., Le Corre V., Lung-Escarmant B., Malé P.J.G., Ferreira S. and Martin J.F. (2011). High-throughput microsatellite isolation with 454 GS-FLX pyrosequencing. Molecular Ecology Resources 11: 638-644.
  • Marino D., Andrio E., Danchin E.G.J., Oger E., Gucciardo S., Lambert A., Puppo A., Pauly N. 2010. A Medicago truncatula NADPH oxidase is involved in symbiotic nodule functioning. New Phytologist, in press.
  • Marmonier, A.,, Schellenberger, P., Esmenjaud, D., Schmitt-Keichinger, C., Ritzenthaler, C., Andret-Link, P., Lemaire, O., Fuchs, M. and Demangeat, G. 2010. The coat protein determines the specificity of virus transmission by Xiphinema diversicaudatumJournal of Plant Pathology 92: 275-279.
  • Tigano M., de Siqueira K., Castagnone-Sereno P., Mulet K., Queiroz P., dos Santos M., Almeida M., Silva J. and Carneiro R. (2010). Genetic diversity of the root-knot nematode Meloidogyne enterolobii and development of a SCAR marker for this guava-damaging speciesPlant Pathology : sous presse (Doi: 10.1111/j.1365-3059.2010.02350.x)
  • Van Ghelder, C., Lafargue, B., Dirlewanger, E., Ouassa, A., Voisin, R., Polidori, J., Kleinhentz, M., Esmenjaud, D. (2010). Characterization of theRMja gene for resistance to the root-knot nematodes in almond: spectrum, location and interest for Prunus breeding. Tree Genetics and Genomes(in press).
  • Villate, L., Esmenjaud, D., Van Helden M., Stoeckel, S., Plantard O. (2010). Genetic signature of amphimixis allows for the detection and fine scale localization of sexual reproduction events in a mainly parthenogenetic nematode. Molecular Ecology 19: 856–873.
  • Vitale S., Santori A., Wajnberg E., Castagnone-Sereno P., Luongo L. and Belisario A. (2011). Morphological and molecular analysis of Fusarium lateritium, the cause of grey necrosis on hazelnut fruit in Italy. Phytopathology 101: 679-686.

2009

  • Bird, D.M., Williamson, V.M., Abad, P., McCarter, J., Danchin, E.G.J., Castagnone-Sereno, P., Opperman, C.H. (2009). The Genomes of Root-Knot Nematodes. Annual Review of Phytopathology, 47: 333-351.
  • Caillaud, M.-C., Paganelli, L., Lecomte, P., Deslandes, L., Quentin, M., Pecrix, Y., Le Bris, M., Marfaing, N., Abad, P., Favery, B. (2009).Spindle assembly checkpoint protein dynamics reveal conserved and unsuspected roles in plant cell division. PLoS One, 4: e6757.
  • Castagnone-Sereno, P., Semblat, J.P., Castagnone, C. (2009). Modular architecture and evolution of the map-1 gene family in the root-knot nematode Meloidogyne incognita. Molecular Genetics and Genomics, 282: 547-554.
  • Clement, M., Ketelaar, T., Rodiuc, N., Banora, M.Y., Smertenko, A., Engler, G., Abad, P., Hussey, P.J., de Almeida Engler, J. (2009). Actin-Depolymerizing Factor2-Mediated Actin Dynamics Are Essential for Root-Knot Nematode Infection of Arabidopsis. Plant Cell, 21: 2963-2979.
  • Coleman J.J, Rounsley S.D, Rodriguez-Carres M, Kuo A, ... , Danchin EGJ, Henrissat B, Coutinho P.M, ... , Covert S.F, Temporini E,  VanEtten H.D. The genome of Nectria haematococca: contribution of supernumerary chromosomes to gene expansion. Plos Genetics. 2009, Aug;5(8):e1000618.
  • Dubreuil, G., Magliano, M., Dubrana, M.P., Lozano, J., Lecomte, P., Favery, B., Abad, P., Rosso, M.N. (2009). Tobacco rattle virus mediates gene silencing in a plant parasitic root-knot nematode. Journal of Experimental Botany, 60: 4041-4050.
  • Esmenjaud, D., Voisin, R., Van Ghelder, C., Bosselut, N., Lafargue, B., Di Vito, M., Dirlewanger, E., Poessel, J.L., Kleinhentz, M. (2009). Genetic dissection of resistance to root-knot nematodes Meloidogyne spp. in plum, peach, almond, and apricot from various segregating interspecificPrunus progenies. Tree Genetics & Genomes, 5: 279-289.
  • Lopez-Rascol V, Levasseur A, Chabrol O, Gruseas S, Gouret P, Danchin EGJ, Pontarotti P. CASSIOPE: an expert system for conserved regions searches. BMC Bioinformatics. 2009 Sep 10;10(1):284.
  • Mestrovic, N., Plohl, M., Castagnone-Sereno, P. (2009). Relevance of satellite DNA genomic distribution in phylogenetic analysis: A case study with root-knot nematodes of the genus MeloidogyneMolecular Phylogenetics and Evolution, 50: 204-208.
  • Quentin, M., Allasia, V., Pegard, A., Allais, F., Ducrot, P.H., Favery, B., Levis, C., Martinet, S., Masur, C., Ponchet, M., Roby, D., Schlaich, N.L., Jouanin, L., Keller, H. (2009). Imbalanced Lignin Biosynthesis Promotes the Sexual Reproduction of Homothallic Oomycete Pathogens. PLoS Pathogens (US), 5:e1000264.
  • Randig, O., Deau, F., dos Santos, M.F.A., Tigano, M.S., Carneiro, R., Castagnone-Sereno, P. (2009). A novel species-specific satellite DNA family in the invasive root-knot nematode Meloidogyne mayaguensis and its potential use for diagnostics. European Journal of Plant Pathology, 125: 485-495.
  • Rosso, M.N., Jones, J.T., Abad, P. (2009). RNAi and Functional Genomics in Plant Parasitic Nematodes. Annual Review of Phytopathology,47: 207-232.
  • Villate, L., Esmenjaud, D., Coedel, S., Plantard, O. (2009). Development of nine polymorphic microsatellite markers for the phytoparasitic nematode Xiphinema index, the vector of the Grapevine fanleaf virusMolecular Ecology Resources, 9: 229-232.

2008

  • Abad, P., Gouzy, J., Aury, J.-M., Castagnone-Sereno, P., Danchin, E.G.J., Deleury, E., Perfus-Barbeoch, L., Anthouard, V., Artiguenave, F., Blok, V.C., Caillaud, M.C., Coutinho, P.M., Dasilva, C., De Luca, F., Deau, F., Esquibet, M., Flutre, T., Goldstone, J.V., Hamamouch, N., Hewezi, T., Jaillon, O., Jubin, C., Leonetti, P., Magliano, M., Maier, T.R., Markov, G.V., McVeigh, P., Pesole, G., Poulain, J., Robinson-Rechavi, M., Sallet, E., Segurens, B., Steinbach, D., Tytgat, T., Ugarte, E., van Ghelder, C., Veronico, P., Baum, T.J., Blaxter, M., Bleve-Zacheo, T., Davis, E.L., Ewbank, J.J., Favery, B., Grenier, E., Henrissat, B., Jones, J.T., Laudet, V., Maule, A.G., Quesneville, H., Rosso, M.N., Schiex, T., Smant, G., Weissenbach, J., and Wincker, P., (2008). Genome sequence of the metazoan plant-parasitic nematode Meloidogyne incognitaNature Biotechnology (US), 26: 909-915.
  • Bellafiore, S., Zhouxin, S., Rosso, M.N., Abad, P., Shih, P., and Briggs, S.P. (2008). Direct identification of the Meloidogyne incognita secretome reveals proteins with host cell reprogramming potential. PLoS Pathogens (US), 4: e1000192.
  • Caillaud, M.C., Abad, P. and Favery, B. (2008). Cytoskeleton Reorganization, a Key Process In Root-Knot Nematode-Induced Giant Cell Ontogenesis. Plant Signaling & Behavior, 3: 816–818.
  • Caillaud, M.C., Dubreuil, G., Quentin, M., Perfus-Barbeoch, L., Lecomte, P., Engler, J.D., Abad, P., Rosso, M.N., and Favery, B. (2008). Root-knot nematodes manipulate plant cell functions during a compatible interaction. Journal of Plant Physiology (DE), 165: 104-113.
  • Caillaud, M.C., Lecomte, P., Jammes, F., Quentin, M., Pagnotta, S., Andrio, E., Engler, J.D., Marfaing, N., Gounon, P., Abad, P., and Favery, B. (2008).. MAP65-3 microtubule-associated protein is essential for nematode-induced giant cell ontogenesis in ArabidopsisPlant Cell (US), 20: 423-437.
  • Darbo E, Danchin EGJ, Mc Dermott MF, Pontarotti P. Evolution of major histocompatibility complex by "en bloc" duplication before mammalian radiation. Immunogenetics. 2008 June 17.
  • Espagne E, Lespinet O, Malagnac F, ... , de Vries RP, Battaglia E, Coutinho PM, Danchin EGJ, Henrissat B, ... , Debuchy R, Wincker P, Weissenbach J, Silar P. The genome sequence of the model ascomycete fungus Podospora anserina. Genome Biology 2008 May 6;9(5):R77.
  • Martin F, Aerts A, Ahrén D, Brun A, Danchin E.G.J,...,Coutinho P.M,..., Henrissat B,...,Tuskan G & Grigoriev I. V. The genome of Laccaria bicolor provides insights into mycorrhizal symbiosis. Nature 2008, Mar 6;452(7183):88-92.
  • Martinez D, Berka RM, Henrissat B, Saloheimo M, ... , Coutinho PM, Cullen D, Danchin EGJ, Grigoriev IV, ... , Rokhsar DS, Lucas SM, Rubin EM, Dunn-Coleman N, Ward M, Brettin TS. Genome sequencing and analysis of the biomass-degrading fungus Trichoderma reesei (syn. Hypocrea jecorina). Nature Biotechnology 2008, May;26(5):553-60.
  • Muniz, M.d.F.S., Campos, V.P., Castagnone-Sereno, P., Cunha e Castro, J.M.d., Almeida, M.R.A., Carneiro, R.M.D.G. (2008). Diversity ofMeloidogyne exigua (Tylenchida: Meloidogynidae) populations from coffee and rubber tree. Nematology (NL), 10: 897-910.
  • Villate, L., Fievet, V., Hanse, B., Delemarre, F., Plantard, O., Esmenjaud, D., van Helden, M. (2008). Spatial distribution of the Dagger nematodeXiphinema index and its associated Grapevine fanleaf virus in French vineyard. Phytopathology (US), 98: 942-948.

2007

  • Benoit I, Danchin E.G.J, Bleichrodt R.J., de Vries R.P. Biotechnological applications and potential of fungal feruloyl esterases based on prevalence, classification and biochemical diversity. Biotechnology Letters 2007;30(3):387-96.
  • Bleve-Zacheo, T., Melillo, M.T., Castagnone-Sereno, P. (2007) The contribution of biotechnology to root-knot nematode control in tomato plants.Pest Technology, 1 (1) : 1-16.
  • Castagnone-Sereno, P., Bongiovanni, M., Wajnberg, E. (2007) Selection and parasite evolution: a reproductive fitness cost associated with virulence in the parthenogenetic nematode Meloidogyne incognitaEvolutionary Ecology, 21 (2) : 259-270.
  • Da Lage J-L, Danchin E.G.J, Casane D. Where do animal alpha-amylases come from? An interkingdom trip. FEBS Letters 2007; 581(21):3927-35.
  • Djian-Caporalino, C., Fazari, A., Arguel, M.J., Vernie, T., Van de Casteele, C., Faure, I., Brunoud, G., Pijarowski, L., Palloix, A., Lefebvre, V., Abad, P. (2007) Root-knot nematode (Meloidogyne spp.) Me resistance genes in pepper (Capsicum annuum L.) are clustered on the P9 chromosome. Theoretical and Applied Genetics, 114 (3) : 473-486.
  • Dubreuil, G., Magliano, M., Deleury, E., Abad, P., Rosso, M.N. (2007) Transcriptome analysis of root-knot nematode functions induced in the early stages of parasitism. New Phytologist, 176 (2) : 426-436.
  • François, C., Castagnone, C., Boonham, N., Tomlison, J., Lawson, R., Quill, J., Vieira, P., Mota, M., Castagnone-Sereno, P. (2007) Satellite DNA as a target for TaqMan real-time PCR detection of the pinewood nematode, Bursaphelenchus xylophilusMolecular Plant Pathology, 8 (6) : 803-809.
  • Levasseur A, Orlando L, Bailly X, Milinkovitch M.C, Danchin E.G.J, Pontarotti P. Conceptual bases for quantifying the role of environmental changes on gene evolution: the participation of positive selection and neutral evolution. Biological Reviews 2007;82(4):551-72.
  • Neveu, C., Charvet, C., Fauvin, A., Castagnone-Sereno, P., Cabaret, J. (2007) Identification of levamisole resistance markers in the parasitic nematode Haemonchus contortus using a cDNA-AFLP approach. Parasitology, 134 : 1105-1110.
  • Pel H.J., de Winde J.H.,..., Coutinho P.M, Danchin E.G.J.,..., Henrissat B,..., Visser J., Stam H. Genome sequencing and analysis of the versatile cell factory Aspergillus niger CBS 513.88. Natura Biotechnology 2007; 25(2):221-231.

2006

  • Castagnone-Sereno, P. (2006) Genetic variability and adaptive evolution in parthenogenetic root-knot nematodes. Heredity, 96 (4) : 282-289.
  • Francois, C. , Kebdani, N., Barker, I., Tomlinson, J., Boonham, N., Castagnone-Sereno, P. (2006) Towards specific diagnosis of plant-parasitic nematodes using DNA oligonucleotide microarray technology: A case study with the quarantine species Meloidogyne chitwoodiMolecular and Cellular Probes, 20 (1) : 64-69.
  • Ledger, T. N., Jaubert, S., Bosselut, N., Abad, P., Rosso, M. N. (2006) Characterization of a new beta-1,4-endoglucanase gene from the root-knot nematode Meloidogyne incognita and evolutionary scheme for phytonematode family 5 glycosyl hydrolases. Gene, 382 : 121-128.
  • Melillo, M.T., Leonetti, P., Bongiovanni, M., Castagnone-Sereno, P., Bleve-Zacheo, T. (2006) Modulation of reactive oxygen species activities and H2O2 accumulation during compatible and incompatible tomato-root-knot nematode interactions. New Phytologist, 170 (3) : 501-512.
  • Mestrovic, N., Castagnone-Sereno, P., Plohl, M. (2006) High conservation of the differentially amplified MPA2 satellite DNA family in parthenogenetic root-knot nematodes. Gene, 376 (2) : 260-267.
  • Mestrovic, N., Castagnone-Sereno, P., Plohl, M. (2006) Interplay of selective pressure and stochastic events directs evolution of the MEL172 satellite DNA library in root-knot nematodes. Molecular Biology and Evolution, 23 (12) : 2316-2325.