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24, chemin de Borde Rouge –Auzeville – CS52627
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Dernière mise à jour : Mai 2018

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UMR 1332 Biologie du Fruit et Pathologie

Recent publications - Functional Genomics of Fruit Development

Published articles (with peer review) :


Bermúdez, L., Del Pozo, T., Lira, B. S., de Godoy, F., Boos, I., Romanó, C., Previtali, V., Almeida, J., Brehelin, C., Asis, R., Quadrana, L., Demarco, D., Alseekh, S., Salinas Gamboa, R., Pérez-Flores, L., Dominguez, PG., Rothan, C., Fernie, AR., González, M., Stocker, A., Hemmerle, A., Clausen, MH., Carrari, F., Rossi, M (2018). A Tomato Tocopherol Binding Protein Sheds Light on Intracellular α-tocopherol Metabolism in Plants. Plant and Cell Physiology, Online first. , DOI : 10.1093/pcp/pcy191

Ernesto Bianchetti, R., Silvestre Lira, B., Santos Monteiro, S., Demarco, D., Purgatto, E., Rothan, C., Rossi, M., Freschi, L. (2018). Fruit-localized phytochromes regulate plastid biogenesis, starch synthesis and carotenoid metabolism in tomato. Journal of Experimental Botany, 69 (15), 3573-3586. DOI : 10.1093/jxb/ery145

Pereyre, S., Bénard, C., Bres, C., Le Roy, C., Mauxion, J.-P., Rideau, F., Sirand-Pugnet, P., Henrich, B., Bébéar, C (2018). Generation of Mycoplasma hominis gene-targeted mutants by targeting-induced local lesions in genomes (TILLING). BMC Genomics, 19 (1), 525. , DOI : 10.1186/s12864-018-4917-1

Stevens, R., Baldet, P., Bouchet, J.-P., Causse, M., Deborde, C., DESCHODT, C., Faurobert, M., Garchery, C., Garcia, V., Gautier, H., Gouble, B., Maucourt, M., Moing, A., Page, D., Petit, J., Poëssel, J.-L., Truffault, V., Rothan, C. (2018). A systems biology study in tomato fruit reveals correlations between the ascorbate pool and genes involved in ribosome biogenesis, translation, and the heat-shock response. Frontiers in Plant Science, 9 (137), 16 p.  10.3389/fpls.2018.00137


Musseau, C., Just, D., Jorly, J., Gevaudant, F., Moing, A., Chevalier, C., Lemaire-Chamley, M., Rothan, C., Fernandez, L. (2017). Identification of Two New Mechanisms That Regulate Fruit Growth by Cell Expansion in Tomato. Frontiers in Plant Science, 8. DOI : 10.3389/fpls.2017.00988

Petit, J., Bres, C., Mauxion, J.-P., Bakan, B., Rothan, C. (2017). Breeding for cuticle-associated traits in crop species: traits, targets, and strategies. Journal of Experimental Botany, Online first. DOI : 10.1093/jxb/erx341

Tenreira, T., Pimenta Lange, M. J., Lange, Bres, C., LABADIE, M., Monfort, A., Hernould, M., Rothan, C., Denoyes, B. (2017). A Specific Gibberellin 20-oxidase Dictates the Flowering-Runnering Decision in Diploid Strawberry. Plant Cell, 28, 2168-2182. DOI : 10.1105/tpc.16.00949


Almeida, J., Azevedo, M. d. S., Spicher, L., Glauser, G., Vom Dorp, K., Guyer, L., Del Valle Carranza, A., Asis, R., de Souza, A. P., Buckeridge, M., Demarco, D., Bres, C., Rothan, C., Peres, L. E. P., Hörtensteiner, S., Kessler, F., Dörmann, P., Carrari, F., Rossi, M. (2016). . Down-regulation of tomato PHYTOL KINASE strongly impairs tocopherol biosynthesis and affects prenyllipid metabolism in an organ-specific manner. Journal of Experimental Botany, 67 (3), 919-934. DOI : 10.1093/jxb/erv504

Garcia, V., Bres, C., Just, D., Fernandez, L., Wong Jun Tai, F., Mauxion, J.-P., Le Paslier, M.-C., Berard, A., Brunel, D., Aoki, K., Alseekh, S., Fernie, A. R., Fraser, P. D., Rothan, C. (2016). Rapid identification of causal mutations in tomato EMS populations via mapping-by-sequencing. Nature protocols, 11 (12), 2401-2418. DOI : 10.1038/nprot.2016.143

Mounet-Gilbert, L., Dumont, M., Ferrand, C., Bournonville, C., Monier, A., Jorly, J., Lemaire-Chamley, M., Mori, K., Atienza, I., Hernould, M., Stevens, R., Lehner, A., Mollet, J.-C., Rothan, C., Lerouge, P., Baldet, P. (2016). Two tomato GDP-D-mannose epimerase isoforms involve in ascorbate biosynthesis play specific roles in cell wall biosynthesis and development. Journal of Experimental Botany, 67 (15), 4767-4777. DOI : 10.1093/jxb/erw260

Perrotte, J., Gaston, A., Potier, A., Petit, A., Rothan, C., Denoyes-Rothan, B. (2016). Narrowing down the single homoeologous FaPFRU locus controlling flowering in cultivated octoploid strawberry using a selective mapping strategy. Plant Biotechnology Journal, 14 (11), 2176-2182. DOI : 10.1111/pbi.12574

Petit, J., Bres, C., Mauxion, J.-P., Wong Jun Tai, V., Martin, L. B. B., Fich, E. A., Joubès, J., Rose, J. K. C., Domergue, F., Rothan, C. (2016). The Glycerol-3-Phosphate Acyltransferase GPAT6 from Tomato Plays a Central Role in Fruit Cutin Biosynthesis. Plant Physiology, 171 (2), 894-913. DOI : 10.1104/pp.16.00409

Philippe, G., Gaillard, C., Petit, J., Geneix, N., Dalgalarrondo, M., Bres, C., Mauxion, J.-P., Franke, R., Rothan, C., Schreiber, L., Marion, D., Jamin Bakan, B. (2016). . Ester-crosslink Profiling of the Cutin Polymer of Wild Type and Cutin Synthase Tomato (Solanum lycopersicum L.) Mutants Highlights Different Mechanisms of Polymerization. Plant physiology, 170 (2), 807-820. DOI : 10.1104/pp.15.01620

Rothan, C., Just, D., Fernandez, L., Atienza, I., Ballias, P., Lemaire-Chamley, M. (2016). . Culture of the Tomato Micro-Tom Cultivar in Greenhouse. Methods in molecular biology (Clifton, N.J.), 1363, 57-64. DOI : 10.1007/978-1-4939-3115-6_6


Foucher, F., Hibrand-Saint Oyant, L., Hamama, L., Sakr, S., Nybom, H., Baudino, S., Caissard, J., Byrne, D., Smulder, J., Denoyes, B., Debener, T., Bruneau, A., De Riek, J., Matsumoto, S., Torres, A., Millan, T., Amaya, I., Yamada, K., Wincker, P., Zamir, D., Gouzy, J., Sargent, D., Bendahmane, M., Raymond, O., Vergne, P., Dubois, A., Just, D. (2015). Towards the Rose Genome Sequence and Its Use in Research and Breeding. Acta Horticulturae (1064), 167-175. DOI : 10.17660/ActaHortic.2015.1064.19


Ariizumi, T.; Kishimoto, S.; Kakami, R.; Maoka, T.; Hirakawa, H.; Suzuki, Y.; Ozeki, Y.; Shirasawa, K.; Bernillon, S.; Okabe, Y.; Moing, A.; Asamizu, E.; Rothan, C.; Ohmiya, A.; Ezura, H. Identification of the carotenoid modifying gene PALE YELLOW PETAL 1 as an essential factor in xanthophyll esterification and yellow flower pigmentation in tomato (Solanum lycopersicum). The Plant journal : for cell and molecular biology, 2014, 79 (3), 453-465. DOI : 10.1111/tpj.12570

Bermúdez, L.; de Godoy, F.; Baldet, P.; Demarco, D.; Osorio, S.; Quadrana, L.; Almeida, J.; Asis, R.; Gibon, Y.; Fernie, A. R.; Rossi, M.; Carrari, F. Silencing of the tomato Sugar Partitioning Affecting protein (SPA) modifies sink strength through a shift in leaf sugar metabolism. The Plant journal : for cell and molecular biology, 2014, 77 (5), 676-87. DOI : 10.1111/tpj.12418

Dumont, J.; Keski-Saari, S.; Keinänen, M.; Cohen, D.; Ningre, N.; Kontunen-Soppela, S.; Baldet, P.; Gibon, Y.; Dizengremel, P.; Vaultier, M.-N.; Jolivet, Y.; Oksanen, E.; Le Thiec, D. Ozone affects ascorbate and glutathione biosynthesis as well as amino acid contents in three Euramerican poplar genotypes. Tree physiology, 2014, 34 (3), 253-66. DOI : 10.1093/treephys/tpu004

Fernandez, L.; Le Cunff, L.; Tello, J.; Lacombe, T.; Boursiquot, J.-M.; Fournier-Level, A.; Bravo, G.; Lalet, S.; Torregrosa, L.; This, P.; Martinez-Zapater, J.-M. Haplotype diversity of VvTFL1A gene and association with cluster traits in grapevine (V. vinifera). BMC Plant Biology, 2014, 14, 209. DOI : 10.1186/s12870-014-0209-3

Kobayashi, M.; Nagasaki, H.; Garcia, V.; Just, D.; Bres, C.; Mauxion, JP.; Le Paslier, MC.; Brunel, D.; Suda, K.; Minakuchi, Y.; Toyoda, A.; Fujiyama, A.; Toyoshima, H.; Suzuki, T.; Igarashi, K.; Rothan, C.; Kaminuma, E.; Nakamura, Y.; Yano, K.; Aoki, K. Genome-wide analysis of intraspecific DNA polymorphism in 'Micro-Tom', a model cultivar of tomato (Solanum lycopersicum). Plant & Cell Physiology, 2014, 55 (2), 445-454. DOI : 10.1093/pcp/pct181

Petit, J.; Bres, C.; Just, D.; Garcia, V.; Mauxion, J.-P.; Marion, D.; Bakan, B.; Joubès, J.; Domergue, F.; Rothan, C. Analyses of tomato fruit brightness mutants uncover both cutin-deficient and cutin- abundant mutants and a new hypomorphic allele of GDSL lipase. Plant Physiology, 2014, 164 (2), 888-906. DOI : 10.1104/pp.113.232645


Baldet, P.; Bres, C.; Okabe, Y.; Mauxion, J.-P.; Just, D.; Bournonville, C.; Ferrand, C.; Mori, K.; Ezura, H.; Rothan, C. Investigating the role of vitamin C in tomato through TILLING identification of ascorbate-deficient tomato mutants. Plant Biotechnology (Tsukuba), 2013, 30 (3), 309-314. DOI : 10.5511/plantbiotechnology.13.0622b

Garchery, C.; Gest, N.; Do, P.T.; Alhagdow, M.; Baldet, P.; Menard, G.; Rothan, C.; Massot, C.; Gautier, H.; Aarrouf, J.; Fernie, A.R.; Stevens, R. A diminution in ascorbate oxidase activity affects carbon allocation and improves yield in tomato under water-deficit. Plant Cell Environment, 2013, 36(1):159-175. DOI: 10.1111/j.1365-3040.2012.02564.x

Gaston, A.; Perrotte, J.; Lerceteau-Köhler, E.; Rousseau-Gueutin, M.; Petit, A.; Hernould, M.; Rothan, C.; Denoyes, B. PFRU, a single dominant locus regulates the balance between sexual and asexual plant reproduction in cultivated strawberry. Journal of Experimental Botany, 2013, 64 (7), 1837-48. DOI: 10.1093/jxb/ert047

Hirakawa, H.; Shirasawa, K.; Ohyama, A.; Fukuoka, H.; Aoki, K.; Rothan, C.; Sato, S.; Isobe, S.; Tabata, S. Genome-wide SNP genotyping to infer the effects on gene functions in tomato. DNA research : an international journal for rapid publication of reports on genes and genomes, 2013, 20 (3), 221-33. DOI : 10.1093/dnares/dst005

Just, D.; Garcia, V.; Fernandez, L.; Bres, C.; Mauxion, J.-P.; Petit, J.; Jorly, J.; Assali, J.; Bournonville, C.; Ferrand, C.; Baldet, P.; Lemaire-Chamley, M.; Mori, K.; Okabe, Y.; Arizumi, T.; Ezura, H.; Rothan, C. Micro-Tom mutants for functional analysis of target genes and discovery of new alleles in tomato . Plant Biotechnology (Tsukuba), 2013, 30 (3), 225-231. DOI : 10.5511/plantbiotechnology.13.0622a

Kobayashi, M.; Nagasaki, H.; Garcia, V.; Just, D.; Bres, C.; Mauxion, JP.; Le Paslier, MC.; Brunel, D.; Suda, K.; Minakuchi, Y.; Toyoda, A.; Fujiyama, A.; Toyoshima, H.; Suzuki, T.; Igarashi, K.; Rothan, C.; Kaminuma, E.; Nakamura, Y.; Yano, K.; Aoki, K. Genome-wide analysis of intraspecific DNA polymorphism in 'Micro-Tom', a model cultivar of tomato (Solanum lycopersicum). Plant & Cell Physiology, 2013. DOI : 10.1093/pcp/pct181

Mori, K.; Lemaire-Chamley, M.; Asamizu, E.; Mizoguchi, T.; Ezura, H.; Rothan, C. Comparative analysis of common genes involved in early fruit development in tomato and grape. Plant Biotechnology (Tsukuba), 2013, 30 (3), 295-300. DOI : 10.5511/plantbiotechnology.13.0321a

Petit, J.; Bres, C.; Just, D.; Garcia, V.; Mauxion, J.-P.; Marion, D.; Bakan, B.; Joubès, J.; Domergue, F.; Rothan, C. Analyses of tomato fruit brightness mutants uncover both cutin-deficient and cutin- abundant mutants and a new hypomorphic allele of GDSL lipase. Plant Physiology, 2013. DOI : 10.1104/pp.113.232645

Shi,J.X.; Adato, A.; Alkan, N.; Lashbrooke, J.; Matas, A.J.; Meir, S.; Malitsky, S.; Martinc, L.B.B.; Isaacson, T.; Schreiber, L.; Granell, A.R.; Grausem, B.; Pinot, F.; Rose, J.C.; Rogachev, I.; Prusky, D.; Just, D.; Rothan, C.; Aharoni, A. The SlSHINE3 Transcription Factor Regulates Cuticle Formation and Epidermal Patterning of Tomato Fruit Epidermis. New Phytologist, 2013, 197(2), 468-480. DOI:  10.1111/nph.12032


Ben Akal-Ben Fatma, Y.; Pianelli, K.; Dieuaide Noubhani, M.; Le Menn, A.; Deborde, C.; Maucourt, M.; Andrieu, M.-H.; Rolin, D.; Rothan, C.; Moing, A.; Bouzid, S.; Cabasson, C. 1H-NMR metabolomics: Profiling method for a rapid and efficient screening of transgenic plants. African Journal of Biotechnology. 2012, 11 (52), 11386-11399. DOI : 10.5897/AJB12.088

Fitzpatrick, T.B.; Basset, G.J.C.; Borel, P.; Carrari, F.; DellaPenna, D.; Fraser, P.D.; Hellmann, H.; Osorio, S.; Rothan, C.; Valpuesta, V.; Veyrat, C.; Fernie, A.R. Vitamin deficiencies in humans: can plant science help?Plant Cell, 2012, 24(2), 395-414. DOI: 10.1105/tpc.111.093120

Girard, A.-L.; Mounet, F.; Lemaire-Champley, M.; Gaillard, C.; Elmorjani, K.; Vivancos, J.; Runavot, J.-L.; Quemener, B.; Petit, J.; Germain, V.; Rothan, C.; Marion, D.; Bakan, B. Tomato GDSL1 is required for cutin deposition in the fruit cuticle. Plant Cell, 2012, 24, 3119-3134. DOI: 10.1105/tpc.112.101055

Guillet, C.; Aboul-Soud, M.A.; Le Menn, A.; Viron. N.; Pribat, A.; Germain, V.; Just, D.; Baldet, P.; Rousselle, P.; Lemaire-Chamley, M.; Rothan, C. Regulation of the Fruit-Specific PEP Carboxylase SlPPC2 Promoter at Early Stages of Tomato Fruit Development. PLoS One, 2012, 7(5), e36795. DOI: 10.1371/journal.pone.0036795

Lerceteau-Köhler, E.; Moing, A.; Guérin, G.; Renaud, C.; Petit, A.; Rothan, C.; Denoyes, B. Genetic dissection of fruit quality traits in the octoploid cultivated strawberry highlights the role of homoeo-QTL in their control. Theoretical and Applied Genetics, 2012, 124 (6), 1059-1077. DOI: 10.1007/s00122-011-1769-3

Mounet, F.; Moing, A.; Kowalczyk, M.; Rohrmann, J.; Petit, J.; Garcia, V.; Maucourt, M.; Yano, K.; Deborde, C.; Aoki, K.; Berges, H.; Granell, A.; Fernie, A. R.; Bellini, C.; Rothan, C.; Lemaire-Chamley, M. Down-regulation of a single auxin efflux transport protein in tomato induces precocious fruit development. Journal of Experimental Botany, 2012, 63, 4901-4917. DOI: 10.1093/jxb/ers167

Pribat, A.; Sormani, R.; Rousseau-Gueutin, M.; Julkowska, M.M.; Testerink, C.; Joubès, J.; Castroviejo, M.; Laguerre, M; Meyer, C.; Germain, V.; Rothan, C. A novel class of PTEN protein in Arabidopsis displays unusual phosphoinositide phosphatase activity and efficiently binds phosphatidic acid. Biochemical Journal, 2012, 441 (1), 161-171. DOI: 10.1042/BJ20110776

Sato, S.; Tabata, S.; Hirakawa, H.; et al./ Tomato Genome Consortium. The tomato genome sequence provides insights into fleshy fruit evolution. Nature, 2012, 485 (7400), 635-641. DOI: 10.1038/nature11119


Okabe, Y.; Asamizu, E.; Saito, T.; Matsukura, C.; Ariizumi, T.; Bres, C.; Rothan, C.; Mizoguchi, T.; Ezura, H. Tomato TILLING technology: development of a reverse genetics tool for the efficient isolation of mutants from Micro-Tom mutant libraries. Plant and Cell Physiology, 2011, 52 (11), 1994-2005.

Voxeur, A.; Gilbert, L.; Rihouey, C.; Driouich, A.; Rothan, C.; Baldet, P.; Lerouge, P. Silencing of the GDP-D-mannose 3,5-epimerase affects the structure and cross-linking of the pectic polysaccharide rhamnogalacturonan II and plant growth in tomato. Journal of Biological Chemistry, 2011, 286 (10), 8014-8020.


Mathieu-Rivet, E.; Gevaudant, F.; Sicard, A.; Salar, S.; Do, P.T.; Mouras, A.; Fernie, A.R.; Gibon, Y.; Rothan, C.; Chevalier, C.; Hernould, M. Functional analysis of the anaphase promoting complex activator CCS52A highlights the crucial role of endo-reduplication for fruit growth in tomato. Plant Journal, 2010, 62 (5), 727-741.

Prudent, M.; Bertin, N.; Génard, M.; Munos, S.; Rolland, S.; Garcia, V.; Petit, J.; Baldet, P.; Rothan, C.; Causse, M. Genotype-dependent response to carbon availability in growing tomato fruit. Plant Cell and Environment, 2010, 33 (7) : 1186-1204.

Shirasawa, K.; Isobe, S.; Hirakawa, H.; Asamizu, E.; Fukuoka, H.; Just, D.; Rothan, C.; Sasamoto, S.; Fujishiro, T.; Kishida, Y.; Kohara, M.; Tsuruoka, H.; Wada, T.; Nakamura, Y.; Sato, S.; Tabata, S. SNP discovery and linkage map construction in cultivated tomato.DNA research : an international journal for rapid publication of reports on genes and genomes,2010, 17 (6) : 381-91.

Ouvrages et Chapitres d'ouvrages :


Rothan, C., Bres, C., Garcia, V., Just, D. (2016). Tomato resources for functional genomics. In: Causse, M., Giovannoni, J., Bouzayen, M., Zouine, M. (Eds.) , dir., The Tomato Genome (p. 75-94). Compendium of Plant Genomes. Berlin Heidelberg, DEU : Springer. DOI : 10.1007/978-3-662-53389-5


Baldet, P.; Ferrand, C.; Rothan, C. Vitamins in fleshy fruits. In: Pravendra Nath, Mondher Bouzayen, Autar K. Mattoo, Jean Claude Pech, dir., Fruit Ripening. Physiology, signalling ang genomics, 2014, p. 127-150. GBR : CABI Publishing.