Publications Posters Lectures Web resources

Publications

• Alhagdow M, Mounet F, Gilbert L, Nunes-Nesi A, Garcia V, Just D, Petit J, Beauvoit B, Fernie AR, Rothan C, and Baldet P (2007) Silencing of the mitochondrial ascorbate synthesizing enzyme L-galactono-1,4-lactone dehydrogenase (L-GalLDH) affects plant and fruit development in tomato. Plant Physiology (on line preview).
• Barone A, Chiusano ML, Ercolano MR, Giuliano G, Grandillo S, Frusciante L (2008) Structural and functional genomics of tomato. International  Journal of Plant Genomics ID 820274: pp 1-12
• Bermúdez L Urias U, Milstein D, Kamenetzky L, Asis R, Fernie AR, Van Sluys MA, Carrari F, Rossi M (2008) A candidate gene survey of quantitative trait loci affecting chemical composition in tomato fruit. J Exp Bot (in press).
• Chaib, J., Devaux, M.F., Grotte, M.G.,  Robini, K., Causse, M., Lahaye, M., Marty, I. (2007) Genetic and physiologic relationships among physical, sensory, and morphological attributes of texture in tomato fruits. J. Exp. Bot. 58:1915-1925.
• Chang, S-B., Yang, T-J., Datema, E., van Vugt, J., Vosman, B., Kuipers, A., Meznikova-Skleni_ková, M.,  Szinay, D., Klein Lankhorst, R.M., Jacobsen, E. and de Jong,H. (2008). FISH mapping and molecular organization of the major repetitive sequences of tomato. Genome Res. (in press)
• D'Agostino, N., Traini, A., Frusciante, L.,  and Chiusano, M.L. (2007) Gene models from ESTs (GeneModelEST): an application on the Solanum lycopersicum genome BMC Bioinformatics, 8(Suppl 1):S9  
• D'Agostino, N., Aversano, M.,  Frusciante, L. and Chiusano, M.L. (2007) TomatEST database: in silico exploitation of EST data to explore expression patterns in tomato species Nucleic Acids Research :35(Database issue):D901-905
• Devaux MF, Bouchet B, Legland D, Guillon F, Lahaye M (2008) Macro- vision and grey level granulometry for quantification of tomato pericarp structure. Postharvest Biology and Technology 47: 199-209.
• Diretto G., Al-Babili S., Tavazza R., Papacchioli V., Beyer P., Giuliano G. (2007) Metabolic engineering of potato carotenoid content through tuber-specific overexpression of a bacterial mini-pathway. Plos ONE 2, e350.
• Diretto G., Fiore A., Giuliano G (2007) Metabolic engineering of carotenoid levels for improvement of plants as food. CAB Reviews 2, 39.
• Diretto G., Welsch R., Tavazza R., Mourgues F., Pizzichini D., Beyer, P. Giuliano G. (2007) Silencing of beta-carotene hydroxylase increases total carotenoid and beta-carotene levels in potato tubers. BMC Plant Biology 7, 11.
• Dubin, MJ, Bowler, C, Benvenuto, G. (2008) A modified Gateway cloning strategy for overexpressing tagged proteins in plants.Plant Methods. Jan 22;4:3
• Faurobert M., J. Chaïb M. Barre, D. Tricon, S. Muños,  M. Causse (2008) Genetic and proteomic approach of tomato fruit quality. SHE : First Symposium on Horticulture in Europe, Vienna, 17-20 February 2008. Invited conference, to be published in Acta Hort
• Giuliano G., Diretto, G. (2007) Of chromoplasts and chaperones. Trends Plant Sci, 12, 530-531.
• Giuliano G., Tavazza R., Diretto G., Beyer P., Taylor, M.A. (2008) Metabolic engineering of carotenoid biosynthesis in plants. Trends Biotechnol, 26, 139-145.
• Gonzalez N., Gévaudant F., Hernould M., Chevalier C. and Mouras A. (2007) The cell cycle-associated protein kinase WEE1 regulates cell size in relation to endoreduplication in developing tomato fruit. Plant Journal 51: 642-655.
• Grandillo S, Tanksley SD, Zamir D (2008) Exploitation of natural biodiversity through genomics. In Genomics Assisted Crop Improvement: Vol I Genomics Approaches and Platforms (R.K. Varshney and R. Tuberosa eds) Springer, The Netherlands: pp  121-150
• J. Chaib, MF Devaux, MG Grotte, K Robini, M. Causse, M. Lahaye, I. Marty. Genetic and physiologic relationships among physical, sensory, and morphological attributes of texture in tomato fruits. (2007) J. Exp. Bot. 58:1915-1925.
• Klee K. et al., Apollo2Go: a web service adapter for the Apollo genome viewer to enable distributed genome annotation. BMC Bioinformatics 2007, 8 :320 doi:10.1186/1471-2105-8-320
• Kloosterman B., Navarro C., Bijsterbosch G., Lange T., Prat S., Visser R.G.F. and Bachem C.W.B. (2007). StGA2ox1 is induced prior to stolon swelling and controls GA levels during potato tuber development. Plant J. 52, 362-373.    
• Kloosterman, B., De Koeyer, D., Griffiths, R., Flinn, B., Steuernagel, B., Scholz, U., Sonnewald, S., Sonnewald, U., Bryan, G.J., Prat, S., Bánfalvi, Z., Hammond, J.P., Geigenberger, P., Nielsen, K.L., Visser, R.G.F. and Bachem, C.W.B. (2008) Genes driving potato tuber initiation and growth: Identification based on transcriptional changes using the POCI array. Funct. Intergr. Genom. (in press)
• Kourmpetis, Y., van der Burgt, A., Bink, M.C.A.M., ter Braak, C.J.F., van Ham, R.C.H.J. 2007. The use of multiple hierarchically independent Gene Ontology terms in gene function prediction and genome annotation. In Silico Biol. 7, 0050.

• Lippman ZB, Cohen O, Alvarez JP, Abu-Abied M, Pekker I, et al. (2008) The making of a compound inflorescence in tomato and related nightshades. PLoS Biol 6(11): e288. doi:10.1371/journal.pbio.0060288

• Lippman, K., Semel, Y. and Zamir, D. (2007) An integrated view of quantitative trait variation using tomato interspecific introgression lines. Current Opinion in Genetics and Development 17: 545-552.
• Mihaleva, V.V, Vorst, O., Maliepaard, C.A., Verhoeven, H.A., de Vos, C.H.R., Hall, R.D., van Ham R.C.H.J. (2008) Accurate mass error correction in liquid chromatography time-of-flight mass spectrometry based metabolomics. Metabolomics 4:171-182.
• Minoia S, Petrozza A, D'Onofrio O, Piron F, Mosca G, Sozio G, Cellini F, Bendahmane A, Carriero F. (2010) A new mutant genetic resource for tomato crop improvement by TILLING technology. BMC Res Notes. 3:69.
  
• Morris WL, Ross HA, Ducreux LJM, Bradshaw JE, Bryan GJ, Taylor MA (2007) Umami compounds are a determinant of the flavor of potato (Solanum tuberosum L.). J Agric Food Chem 55: 9627-9633
• Qiu D., Diretto G., Tavazza R., Giuliano G. (2007) Improved protocol for Agrobacterium mediated transformation of tomato and production of transgenic plants containing carotenoid biosynthetic gene CsZCD. Scientia Horticulturae 112, 172-175.
• Quemener, B,  D. Bertrand, I. Marty, M. Causse, M. Lahaye. J. (2007)  Fast data preprocessing for chromatographic fingerprints of tomato cell wall polysaccharides using chemometric methods            Chromatography A 1141:41-49.
• Schauer N, Semel Y, Balbo I, Steinfath M, Repeilber D, Selbig J, Pleban T, Zamir D, Fernie AR (2008). Mode of inheritance of primary metabolic traits in tomato. Plant Cell 20: 509-523.
• Stevens R, Buret M, Duffé P, Garchery C, Baldet P, Rothan C and Causse M (2007) Candidate genes and QTLS affecting fruit ascorbic acid content in three tomato populations. Plant Physiology 143(4):1943-53.
• Szinay D, Chang S-B, Khrustaleva L, Peters S, Schijlen E, Stiekema WJ, van Ham RCHJ, de Jong H and Klein Lankhorst RM (2008) High-resolution chromosome mapping of BACs using multi-colour FISH and pooled-BAC FISH as a backbone for sequencing tomato chromosome 6. The Plant Journal, in press.
• Taylor M et al. (2007) Molecular Dissection of Sensory Traits In The Potato Tuber. The American Journal of Potato Research (in press)
• Tripodi P, Frusciante L, Tanksley SD, Grandillo S (2007) Anchoring of Solanum habrochaites (acc. LA1777) ILs to a whole genome PCR-based map and identification of QTL for agronomic traits. Proceedings of the 51st Italian Society of Agricultural Genetics Annual Congress. Riva del Garda, Italy - 23/26 September, 2007. ISBN 978-88-900622-7-8
• The BioMoby Consortium. Interoperability with Moby 1.0—It's better than sharing your toothbrush! Brief Bioinform 2008 doi:10.1093/bib/bbn003

Posters

• Asis R, Urias U, Milstein D, Kamenetzky L, Fernie AR, Van Sluys MA, Rossi M e Carrari F.(2007): Development of rapid strategies for testing of candidate crop QTLs.  58º Congresso Nacional de Botânica. São Paulo, SP, Brasil.
• Carbone F, Facella P, Tavazza R, Perrotta G, Dolce D, Giliberto L, Fraser P, Bramley P, Schauer N, Fernie A, Giuliano G: Functional characterization of the tomato cryptochrome family. The 4th Solanaceae Genome Workshop, Jeju Island, South Korea, September 2007.
• Devaux MF, Legland D, Kieu K, Bouchet B, Guillon F, Lahaye M. IUFOS, Generic tools to quantify the cellular structure of plant tissue by image analysis at the macroscopic and microscopic scales. 13th World Congress of Food Science and Technology, 17-21 September 2006, Nantes, France.
• Gonzalez N., Gévaudant F., Hernould M., Mouras A., Chevalier C. (2007) The cell cycle-associated protein kinase WEE1 regulates cell size in relation to endoreduplication in developing tomato fruit. EMBO Conference "From basic genomics to systems biology". May 2-4, 2007. Gent, Belgium
• Kanellis, A. K. Biosynthesis and Oxidation of Vitamin C in Ripening Fruit. Workshop on “Health promoting compounds in fruit and vegetables: biosynthesis, metabolism, availability and human health: FROM PLANT TO HUMAN GENES”, Prague, Research Institute of Crop Production November 27-28, 2006
• Kanellis, A. K. V. Fotopoulos, M.S. Kalamaki, I. Pateraki, E. Ioannidi, M. Sanmartin, and F. Chatzopoulou. Plant ascorbic acid biosynthesis and metabolism. International Conference “Effects of pre- and post-harvest factors on health promoting components and quality of fruit and vegetables”. May 22 –23, 2006, Skierniewice, Poland.
•  Lahaye M, Quemener B, Devaux MF, Chaib J, Bertrand D, Marty I, Causse M. Phenotyping of cell wall in relation with tomato fruit texture. 1st International fungal/plant cell wall meeting, Biarritz, France March 10-14, 2007.
• LEPICIER M, C COIRET, C FRIGUET, S LÊ, B NAVEZ, M CAUSSE (2008) Comparing Sets of Consumer Preferences from Different Countries: Application to Tomatoes liking. 10th edition of the European Symposium     on Statistical Methods for the Food Industry, Louvain-la-Neuve, Belgium, Jan 23-25th 2008
• Mathieu E., Gévaudant F., Mouras A., Hernould M., Chevalier C. (2007) Molecular mechanisms governing tomato fruit size: functional analysis of the CCS52 genes during tomato fruit development. EMBO Conference "From basic genomics to systems biology". May 2-4 2007. Gent, Belgium
• Minoia, S.,  Piron, F., Mosca, G., Petrozza, A., Cellini, F., Carriero F., and Bendahmane, A. TILLING in Tomato: A reverse genetic approach for tomato crop improvment.  The 4th Solanaceae Genome Workshop 2007, Jeju, Korea
• Moise A, Quinonero G, Tichit L, Guillon F, Causse M, Lahaye M, Marty I, Analysis of a tomato orthologous QUASIMODO gene predominantly expressed in tomato fruit development. 1st International fungal/plant cell wall meeting, Biarritz, France March 10-14, 2007.
• Moise A, Quinonero G, Tichit L, Guillon F, Lahaye M, Marty I. Differential regulation of two b-D-xylosidase genes during tomato fruit development and their relation to firmness. 1st International fungal/plant cell wall meeting, Biarritz, France March 10-14, 2007  
• Mounet F, Moing A, Petit J, Maucourt M, Garcia V, Deborde C, Rolin D, Rothan C, Lemaire-Chamley M (2006) Contribution of tomato fruit tissues to the acquisition of the fleshy trait. XV FESPB Congress, 17-21 July 2006, Lyon, France
• Mounet Fabien, Annick Moing, Johann Petit, Michaël Maucourt, Virginie Garcia, Stéphane Bernillon, Catherine Deborde, Cécile Cabasson, Philippe Gallusci, Dominique Rolin, Christophe Rothan, Gwénaëlle Legall, Ian Colquhoun, Marianne Defernez, and Martine Lemaire-Chamley (2007) Cell expansion in tomato mesocarp and locular tissues: integration of transcriptome and metabolome data. Metabolomics Society 3rd Annual Conference. Manchester, UK, 11-14 June 2007
• Piron, F., Minoia, S., Bres, C., Just, D., Causse, M., Rothan, C., Cellini, F., Carriero, F. and Bendahmane, A. TILLING Genes in Tomato: From data mining to characterisation of mutant phenotypes.  The 4th Solanaceae Genome Workshop 2007, Jeju, Korea
• Urias U, Milstein D, Van Sluys MA, Carrari F, Rossi M (2007): Characterization of candidate genes associated with metabolic and quality QTLs of Solanum pennellii fruits. I Simpósio Brasileiro de Genética Molecular de Plantas. Natal, RN, Brasil.
• Urias U, Milstein D, Van Sluys MA, Carrari F, Rossi M (2006).Identificação de genes candidatos ligados a QTLs para mudanças metabólicas e de qualidade de frutos de tomate   Simpósio Internacional de Iniciação Científica da Universidade de São Paulo (SIIC). Riberão Preto, 13 de novembro.

Lectures

• Bovy A.G.  et al. Metabolomics as a tool to screen the biochemical diversity in tomato. Oral presentation at the XVIth Eucarpia meeting, Wageningen May 12-16, 2008.
• Bowler, C. Invited lecture at the University of Minnesota on the role of DET1 during tomato fruit development.
• Bowler, C. Invited lecture at the Society of Experimental Biology, UK on the role of DET1 during tomato fruit development.
• Broglia, V. Martín Montiel, D. Isola, M. y Gilardón, E. Análisis histológico de cutícula de frutos de tomate en líneas de premejora. XXI Jornadas Argentinas de Botánica. Corrientes. 21 al 24/9/07. (Histological analysis of tomato fruits cuticles in prebreeding lines).  
• Bryan GJ et al. Analysis of sensory and volatile traits in potato. Division of Primary Industries / La Trobe University , Melbourne, Australia, 8th October 2007.
• Bryan GJ et al. Analysis of sensory and volatile traits in potato. Department of Agriculture and Food Western Australia, Australia, 16th October 2007.
• Bryan, GJ 2007 Understanding complex resistance and quality traits in potato  Department of Primary Industries, La Trobe, Bundoora, Australia (Invited seminar).
• Bryan, GJ 2007 Understanding complex resistance and quality traits in potato   Department of Agriculture and Food Western Australia (DAFWA), Perth, Australia (Invited seminar).
• Chevalier C . Altering the cell cycle towards endoreduplication contributes to the regulation of cell size and final fruit size in tomato. Japan SOL meeting. December 14-15, 2007. Shizuoka, Japan (Invited Conference).
• Chevalier C . Altering the cell cycle towards endoreduplication contributes to the regulation of cell size and final fruit size in tomato. University of Tsukuba, Japan. December 17, 2007. (Invited Seminar).
• Gilardón E. Agriculturally important genes derived from tomato wild species. (Genes de importancia agronómica provenientes de especies silvestres de tomate).  Participant in the roundtable Genetic resourses in Solanaceae and their use in crop breeding. . XXXVI Congress of the Argentine Genetics Society. Pergamino, Argentina. 23 to 26/9/07
• Gilardón E.  Agricultural important genes derived from a cross between Solanum lycopersicum L. and S. habrochaites Knapp and Spooner (Solanaceae). Participant in the symposium “LAT-SOL: biodiversity aspects”. 58º Botany National. Sao Paulo (Brasil). 28 October to 2 November 2007.
• Giuliano G: Functional characterization of the tomato cryptochrome family. National Istitute for Basic Biology, Japan, March 2007. Invited Lecture.
• Giuliano G: Introductory remarks, Secondary Metabolism session. The 4th Solanaceae Genome Workshop, Jeju Island, South Korea, September 2007. Oral Communication.  
• Giuliano G: Metabolic engineering of carotenoids in potato and tomato: “golden” crops and pleiotropic effects. The 2nd Japanese Solanaceae Genome workshop, Kazusa, March 2007. Invited lecture.
• Giuliano, G: Functional characterization of the tomato cryptochrome family. Kyoto University, Japan, September 2007. Invited Lecture.
• Giuliano, G: Metabolic Engineering of Carotenoid Biosynthesis in Solanaceae. RIKEN, Japan, September 2007. Invited Lecture.
• Gonzalez N, Gevaudant F, Chevalier C, Mounet F, Moing A, Rolin D, Bres C, Garcia V, Just D, Petit J, Lemaire-Chamley M, Rothan C (2006). Relationship between early fruit development and fruit composition in tomato. International Symposium on Tomato Genome research, Feb 4-5, 2006-02-17 University of Tsukuba, Japan
• Granell A, Osorio S, Pons C, Zuñiga S, Perez A, Fernandez V. Progress made in the Sequencing of Euchromatic regions of Chr9. Searching new seed and extension BACs. Workshop Tomato Genome Sequencing and Annotation, Jeju Island, Korea 2007.
• Klein Lankhorst RM. The EU-SOL Project. Lecture at the 15th Plant and Animal Genome Conference, San Diego, USA, 2007
• Klein Lankhorst RM. The use of FISH in sequencing chromosome 6. Workshop Tomato Genome Sequencing and Annotation. Jeju Island, Korea ,2007.
• Klein Lankhorst RM.  The sequence of the tomato genome and beyond. Lecture at the First Brazilian Symposium on Plant Molecular Genetics, Natal, 2007
• Klein Lankhorst RM.  The EU-SOL Project. Oral presentation at the EraPG Funding Workshop, PlantGEM 6, Tenerife, 2007
• Klein Lankhorst, R.M. The EU-SOL Project. Lecture at the Japan SOL meeting. Shizuoka, Japan, December 15, 2007
• Klein Lankhorst, R.M. The EU-SOL Project. Lecture at the Kazusa DNA Research Institute Japan, December 14, 2007
• Klein Lankhorst, RM. The Solanaceae Project SOL. Lecture at Plant GEM 6, Tenerife, Spain, 2007
• Knapp, S.  Are potato and tomato just another couple of model organisms? Seminar in UK-China Symposium on Solanaceae Biodiversity and Genomics, Wuhan Botanical Garden, Wuhan, China 17 September 2007
• Knapp, S.  Seminar on integrated Solanaceae research at NHM London, 12 September 2007
• Mellidou, I., M. W Davey, A. Siomos, W. Keulemans, and A. K. Kanellis. Ascorbic acid functional biosynthetic pathways in tomato fruit. “4th Solanaceae Genome Workshop”, Sept. 9-13, 2007 Jeju, Korea.
• Pierre Baldet, Moftah Alhagdow, Fabien Mounet, Adriano Nunes-Nesi1, Fabienne Guillon2, Marc Lahaye2, Alisdair Fernie1 & Christophe Rothan (2006) Silencing of key ascorbic acid enzymeS, GDP-mannose epimerase (GME) and galactono-1,4-lactone dehydrogenase (GalLDH) affect strongly plant and fruit development in tomato. 8th International Congress for plant molecular biology. August 20-25th 2006, Adelaide  
• Rothan C , Mounet F, Aboul-Soud M, Gonzalez N, Gevaudant F, Hernould M, Moing A, Rolin D, Bres C, Garcia V, Just D, Petit J, Lemaire-Chamley M, Chevalier C (2007) Early fruit development in tomato. 4th Solanaceae Genome Workshop, Sept 9-13, 2007, Jeju Island, Korea.
• Rothan C , Mounet F, Gilbert L, Alhagdow M, Aboul-Soud M, Moing A, Rolin D, Bres C, Garcia V, Just D, Petit J, Lemaire-Chamley M, Baldet P (2007) Genomic approaches for studying early fruit development in tomato. Invited Seminars, University of Tsukuba, University of Tohoku, University of Okayama, Oct 10-22-26, 2007, Sendai, Japan
• Seymour, G. Brief overview of EUSOL project. Solanaceae Research Community in the UK meeting, 14 December 2007, Imperial College London.
• Stevens R, Buret M, Duffé P, Garchery C, Baldet P, Rothan C and Causse C (2007) Candidate genes and QTLs affecting fruit vitamin C content in three tomato populations. 4th Solanaceae Genome Workshop, Sept 9-13, 2007, Jeju Island, Korea.
• Taylor, MA 2007 Molecular Dissection of Sensory Traits in the Tuber (Invited speaker)  91st Meeting of the Potato Association of America August 12-16 2007 Idaho Falls USA  
• Taylor, MA  2007 Analysis of gene expression associated with quality traits in S. tuberosum Group Phureja versus S. tuberosum Group Tuberosum (Oral presentation). Potato Oligo Chip (POCI) Workshop.  27th - 28th March 2007, WICC Wageningen, Netherlands.
• Tikunov, Y.M. et al. Metabolic profiling of L.esculentum x L.chmielewskii IL population: volatile metabolites. Oral presentation at the EU-SOL WP1 meeting, Bordeaux, 03.04.08.
• Van Schreick, M. Molecular Genetics Tools and Applications. 4th Solanaceae Genome Workshop, Sept 9-13, 2007, Jeju Island, Korea
• Zamir, D. The SOL vision. SOL India – Hyderabad, India (Nov 2006).
• Zamir, D. An evolving SOL vision. SOL Spain – Valencia, Spain (Dec 2006)
• Zamir, D. Breeding by design – high throughput phenotyping. The 2nd International Conference of Plant Molecular Breeding: From Genomics to Plant Improvement (March 2007)
• Zamir, D. Improving plant breeding using exotic genetic libraries. Aaronsohn-ITMI International Conference, Tiberias, Israel (April 2007)
• Zamir, D. A systems approach to complex phenotypes. The Heyne Lecture – Kansas State University (April 2007)
• Zamir, D. Introgression line resolution of complex traits in tomato. John Innes Friday Seminar – UK (May 2007)
• Zamir, D. Introgression Line Resolution of Complex Traits in Tomato. SOL China -Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing (May 2007)
• Zamir, D. Overdominance for yield in tomato. The International Conference on Polyploidy, Heterosis and Epigenetics – Beijing China (May 2007).
• Zamir, D. Systems approach to complex phenotypes. TeMasek Life Sciences Laboratory, Singapore. Biotechnology: Innovative applications from basic research. January 2008:
• Zamir, D. Where have all the QTL gone? Molecular Mapping & Marker Assisted Selection in Plants. Vienna, Feb 2008.

Non-reviewed papers

• Klein Lankhorst, RM. (2007) Back to the roots of tomatoes and potatoes. Wageningen Update 3/07, p.p. 12-13.

Web resources

• Partner WU-PSG contributed to a Dutch education website on genomics (http://www.watisgenomics.nl) with an article explaining the research implemented.
• Partner INTA. The tomato mitochondrial genome site (http://www.mitochondrialgenome.org/) available for the consortium members.
• Partners NHM, MPIZ, WUR and Lis: EU-SOL L3-Portal (http://www.eu-sol.net)