Publications
AgFood 2007 (download pdf)
THE FOLLOWING CUMULATIVE LIST DETAILS ALL PARTNER PUBLICATIONS BASED UPON OR DIRECTLY DERIVED FROM PROJECT ACTIVITIES
Note: This list comprises all publications from the partners directly based on META-PHOR as well as those publications submitted by the partners considered to have been at least partly reliant on exploitation of results (protocols, methods, tools etc) derived from META-PHOR work.
2006
Burger, Y., U. Sa’ar, H. S. Paris, E. Lewinsohn, N. Katzir, Y. Tadmor,
and A. A. Schaffer. 2006. Genetic variability as a source of new valuable
fruit quality traits in Cucumis melo. Israel Journal of Plant Sciences 54:233-242.
Burger, Y., U. Sa'ar, H. S. Paris, E. Lewinsohn, N. Katzir, Y. Tadmor, and
A. A. Schaffer. 2006. Genetic variability for valuable fruit quality traits
in Cucumis melo. Israel Journal of Plant Sciences 54:233-242.
Ibdah, M., Y. Azulay, V. Portnoy, B. Wasserman, E. Bar, A. Meir, Y. Burger,
J. Hirschberg, A. A. Schaffer, N. Katzir, Y. Tadmor, and E. Lewinsohn. 2006.
Functional characterization of CmCCD1, a carotenoid cleavage dioxygenase
from melon. Phytochemistry 67:1579-1589.
Katzir, N., V. Portnoy, Y. Benyamini, Y. Yariv, G. Tzuri, M. Pompan-Lotan,
O. Larkov, E. Bar, M. Ibdah, Y. Azulay, U. Ravid, Y. Burger, A. A. Schaffer,
Y. Tadmor, and E. Lewinsohn. 2006. Functional genomics of genes involved
in the formation of melon aroma. Proceedings of Cucurbitaceae 2006:31-38.
Lewinsohn, E. 2006. Genetic engineering to modify the aroma of fruits and
flowers. P.^Pp. 9 in Crops: Growth, Quality and Biotechnology. V. Plant
Breeding and Biotechnology Application in Crops., R. Dris, ed. WFL Publishers,
Helsinki, Finland.
2007
Bovy, A., E. Schijlen, and R. D. Hall. 2007. Metabolic engineering of flavonoids
in tomato (Solanum lycopersicum): the potential for metabolomics. Metabolomics
3:399-412.
Burger, Y., A. Schaffer, U. Sa’ar, H. Paris, E. Lewinsohn, N. Katzir,
and Y. Tadmor. 2007. Genetic variability, as a tool for fruit quality research
and valuable traits in Cucumis melo Yevul Sih (in Hebrew).
Burger, Y., and A. A. Schaffer. 2007. The contribution of sucrose metabolism
enzymes to sucrose accumulation in Cucumis melo. Journal of the American
Society for Horticultural Science 132:704-712.
De Vos, R. C. H., S. Moco, A. Lommen, J. J. B. Keurentjes, R. J. Bino, and
R. D. Hall. 2007. Untargeted large-scale plant metabolomics using liquid
chromatography coupled to mass spectrometry. Nature Protocols 2:778-791.
Ellis, D. I., W. B. Dunn, J. L. Griffin, J. W. Allwood, and R. Goodacre.
2007. Metabolic fingerprinting as a diagnostic tool. Pharmacogenomics 8:1243-1266.
Fiehn, O., L. W. Sumner, S. Y. Rhee, J. Ward, J. Dickerson, B. M. Lange,
G. Lane, U. Roessner, R. Last, and B. Nikolau. 2007. Minimum reporting standards
for plant biology context information in metabolomic studies. Metabolomics
3:195-201.
Goodacre, R., D. Broadhurst, A. K. Smilde, B. S. Kristal, J. D. Baker, R.
Beger, C. Bessant, S. Connor, G. Calmani, A. Craig, T. Ebbels, D. B. Kell,
C. Manetti, J. Newton, G. Paternostro, R. Somorjai, M. Sjostrom, J. Trygg,
and F. Wulfert. 2007. Proposed minimum reporting standards for data analysis
in metabolomics. Metabolomics 3:231-241.
Grumet , R., N. Katzir, H. A. Little, V. Portnoy, and J. Burger. 2007. New
insights into reproductive development in melon (Cucumis melo L.). International
Journal of Plant Developmental Biology 1:253-264
Hall, R. D. 2007. Food metabolomics: META-PHOR - A new European research
initiative. Agro Food Industry Hi-Tech 18:14-16.
Hardy, N. W., and C. F. Taylor. 2007. A roadmap for the establishment of
standard data exchange structures for metabolomics. Metabolomics 3:243-248.
Laursen, K. H., T. H. Hansen, O. P. Persson, J. K. Schjoerring, and S. Husted.
2007. A semiquantitative ICP-MS based method for high-throughput analysis
of plant samples. Proceeding from 19th Nordic Atomic Spectroscopy and Trace
Element Conference (NASTEC):42.
Lommen, A., G. van der Weg, M. C. van Engelen, G. Bor, L. A. P. Hoogenboom,
and M. W. F. Nielen. 2007. An untargeted metabolomics approach to contaminant
analysis: Pinpointing potential unknown compounds. Analytica Chimica Acta
584:43-49.
Moco, S., R. J. Bino, R. C. H. De Vos, and J. Vervoort. 2007. Metabolomics
technologies and metabolite identification. Trac-Trends in Analytical Chemistry
26:855-866.
Moco, S., E. Capanoglu, Y. Tikunov, R. J. Bino, D. Boyacioglu, R. D. Hall,
J. Vervoort, and R. C. H. De Vos. 2007. Tissue specialization at the metabolite
level is perceived during the development of tomato fruit. Journal of Experimental
Botany 58:4131-4146.
Mounet, F., M. Lemaire-Chamley, M. Maucourt, C. Cabasson, J. L. Giraudel,
C. Deborde, R. Lessire, P. Gallusci, A. Bertrand, M. Gaudillere, C. Rothan,
D. Rolin, and A. Moing. 2007. Quantitative metabolic profiles of tomato
flesh and seeds during fruit development: complementary analysis with ANN
and PCA. Metabolomics 3:273-288.
Sanchez, D. H., M. R. Siahpoosh, U. Roessner, M. Udvardi, and J. Kopka.
2007. Plant Metabolomics reveals conserved and divergent metabolic responses
to salinity. Physiologia Plantarum:In press.
Shewry, P., J. L. Ward, M. H. Beale, J. Baker, M. Baudo, and J. Napier.
2007. Are GM and conventionally bred cereals really different ? Trends in
Food Science and Technology 18:201-209.
Siems, K., and D. Wolf. 2007. Burning the Hay to Find the Needle - Data
Mining Strategies in Natural Product Dereplication. CHIMIA 61:339-345.
Sumner, L. W., A. Amberg, D. Barrett, M. H. Beale, R. Beger, C. A. Daykin,
T. W. M. Fan, O. Fiehn, R. Goodacre, J. L. Griffin, T. Hankemeier, N. Hardy,
J. Harnly, R. Higashi, J. Kopka, A. N. Lane, J. C. Lindon, P. Marriott,
A. W. Nicholls, M. D. Reily, J. J. Thaden, and M. R. Viant. 2007. Proposed
minimum reporting standards for chemical analysis : Chemical Analysis Working
Group (CAWG) Metabolomics Standards Initiative (MSI). Metabolomics 3:211-221.
Tatsis, E. C., S. Boeren, V. Exarchou, A. N. Troganis, J. Vervoort, and
I. P. Gerothanassis. 2007. Identification of the major constituents of Hypericum
perforatum by LC/SPE/NMR and/or LC/MS. Phytochemistry 68:383-393.
Ward, J. L., J. M. Baker, and M. H. Beale. 2007. Recent applications of
NMR spectroscopy in plant metabolomics. Febs Journal 274:1126-1131.
Wolf, D., and K. Siems. 2007. Burning the hay to find the needle data mining
strategies in natural product dereplication. Chimia 61:339-345.
2008
Allwood, J. W., W. B. Dunn, S. C. C. Wong, A. H. Kingston Smith, R. M. Jarvis,
S. J. Gaskell, R. Goodacre, and L. A. J. Mur. 2008. Unbiased metabolomics
reveals that expression of the type III effector HopAB2 in Arabidopsis leads
to metabolite changes that are consistent with the activation of sugar export
Phytochem:in press.
Allwood, J. W., D. I. Ellis, and R. Goodacre. 2008. Metabolomic Technologies
and Their Application to the Study of Plants and Plant-Host Interactions.
Physiologia Plantarum:In press.
Allwood, J. W., A. Erban, S. De Koning, W. B. Dunn, A. Luendemann, A. Lommen,
L. Kay, R. Löscher, J. Kopka, and R. Goodacre. 2008 Inter-laboratory
reproducibility of gas chromatography – electron impact – time
of flight – mass spectrometry (GC-EI-TOF-MS) based metabolomics Anal.
Chem.:in press.
Assunta Sansone, S., P. Rocca-Serra, M. Brandizi, A. Brazma, D. Field, J.
Fostel, A. G. Garrow, J. Gilbert, F. Goodsaid, N. Hardy, P. Jones, A. Lister,
M. Muller, N. Morrison, T. Rayner, N. Sklyar, C. Taylor, W. Tong, G. Warner,
and S. Wiemann. 2008. The First RSBI (ISA-TAB) Workshop: "Can a Simple
Format Work for Complex Studies?" (doi:10.1089/omi.2008.0019). OMICS:
A Journal of Integrative Biology 12:143-149.
Beale, M. H., J. L. Ward, and J. M. Baker. 2008. Establishing substantial
equivalence: metabolomics. In Methods in Biotechnology - Transgenic Wheat,
Barley and Oats: production and characterization. (Eds H. W. Jones and P.
R. Shewry) Humana Press:in press.
Biais, B., J. W. Allwood, C. Deborde, M. Maucourt, B. Beauvoit, Y. Xu, W.
B. Dunn, D. Jacob, R. Goodacre, D. Rolin, and A. Moing. 2008. Direct correlation
of 1H-NMR and GC-EI-TOF-MS profiling data reveals significant spatial localisations
and metabolite gradients in Charentais melon fruit Anal. Chem
Burger , Y., H. S. Paris, R. Cohen, N. Katzir, and A. A. Schaffer. 2008.
Genetic diversity of Cucumis melo. Hort. Rev. .
Burger, Y., Y. Tadmor, E. Lewinsohn, A. Meir, U. Sa'ar, N. Katzir, H. S.
Paris, and A. A. Schaffer. 2008. Melon fruit color: More than just look.
Proc. Cucurbitaceae 2008: the 9th Eucarpia Meeting on Cucurbit Genetics
and Breeding (ed. M. Pitrat). Progress in Cucurbit Genetic and Breeding:529-533.
Capanoglu, E., J. Beekwilder, D. Boyacioglu, R. D. Hall, and C. H. R. De
Vos. 2008. Changes in Antioxidants and Metabolite Profiles During Production
of Tomato Paste. Journal of Agricultural Chemistry 56:964-973.
Fait, A., K. Hanhineva, R. Belleggia, N. Dai, I. Rogachev, A. R. Fernie,
and A. Aharoni. 2008 Reconfiguration of the achene and receptacle metabolic
networks during strawberry fruit development Plant Physiology:In press.
Fitzgerald, M. A., R. Sackville Hamilton, M. N. Carlingacion, H. Verhoeven,
V. J. Butardo, and ". 2008. Is there a second gene for fragrance in
rice? Plant Biotechnology Journal 6:416-423.
Fitzgerald, M. E., and R. D. Hall. 2008. Illuminating the gap. Rice Today:38-39.
Guy, C., F. Kaplan, J. Kopka, J. Selbig, and D. K. Hincha. 2008. Metabolomics
of temperature stress. Physiologia Plantarum 132:220-235.
Hall, R. D., I. Brouwer, and M. A. Fitzgerald. 2008. Plant Metabolomics
and its potential for human nutrition. Physiologia Plantarum 132:162-175.
Hanhineva, K., I. Rogachev, H. Kokko, S. Mintz-Oron, I. Venger, S. Kärenlampi,
and A. Aharoni. 2008 Non-targeted Analysis of Spatial Metabolite Composition
in Strawberry (Fragaria × ananassa) Flowers. Phytochemistry:In press.
Hansen, T. H., K. H. Laursen, J. K. Schjoerring, and S. Husted. 2008. Development
of a high-throughput micro-scaled digestion procedure for multi-elemental
analysis of biological samples. Analytical and Bioanalytical Chemistry.
Howarth, J. R., S. Parmar, J. Jones, C. E. Shepherd, D. Corol, A. M. Galster,
N. D. Hawkins, S. J. Miller, J. M. Baker, P. J. Verrier, J. L. Ward, M.
H. Beale, P. B. Barraclough, and M. J. Hawkesford. 2008. Co-ordinated expression
of amino acid metabolism pathway genes in response to N and S-deficiency
during wheat grain-filling. – J. Exp. Bot:In press
Jansen, J., J. W. Allwood, E. Marsden-Edwards, W. H. Van der Putten, R.
Goodacre, and N. M. Van Dam. 2008. Metabolomic analysis of the interaction
between plants and herbivores Metabolomics J
in press.
Katzir, N., R. Harel-Beja, V. Portnoy, G. Tzuri, S. Koren, E. Lev, E. Bar,
Y. Tadmor, Y. Burger, E. Lewinsohn, Z. Fei, J. Giovannoni, and A. Schaffer.
2008. Melon fruit quality: A genomic approach.Proc. Cucurbitaceae 2008:
the 9th Eucarpia Meeting on Cucurbit Genetics and Breeding (ed. M. Pitrat).
Progress in Cucurbit Genetic and Breeding:231-240.
Laursen, K. H., T. H. Hansen, D. P. Persson, J. K. Schjoerring, and S. Husted.
2008. Multi-elemental fingerprinting of plant tissue by semi-quantitative
ICP-MS and chemometrics. Journal of Analytical and Atomic Spectroscopy:submitted.
Lewinsohn, E., V. Portnoy, Y. Benyamini, E. Bar, R. Hrel-Beja, S. Gepstein,
G. J., A. A. Schaffer, J. Burger, Y. Tadmor, and N. Katzir. 2008. Sesquiterpene
aroma biosynthesis in melon (Cucumis melo) rinds. Proc. Cucurbitaceae 2008:
the 9th Eucarpia Meeting on Cucurbit Genetics and Breeding (ed. M. Pitrat).
Progress in Cucurbit Genetic and Breeding:249-255.
Lommen, A., H. H. Heskamp, M. K. van der Lee, G. van der Weg, H. G. J. Mol,
and M. W. Nielen. 2008. Metabolomics in residue analysis. Proceedings Euroresidue.
Luedemann, A., K. Strassburg, A. Erban, and J. Kopka. 2008. TagFinder for
the quantitative analysis of gas chromatography - mass spectrometry (GC-MS)-based
metabolite profiling experiments. Bioinformatics 24:732-737.
Malitsky, S., E. Blum, H. Less, I. Venger, M. Elbaz, S. Morin, Y. Eshed,
and A. Aharoni 2008 The "Inner" and "Outer" Circles
of the Transcriptome and Metabolome Effected by the Two Clades of Arabidopsis
Glucosinolate Biosynthesis Regulators. Plant Physiology:In press.
Mihaleva, V. V., O. Vorst, C. Maliepaard, H. A. Verhoeven, R. C. H. de Vos,
R. D. Hall, and R. van Ham. 2008. Accurate mass error correction in liquid
chromatography time-of-flight mass spectrometry based metabolomics. Metabolomics
4:171-182.
Mintz-Oron, S., T. Mandel, I. Rogachev, L. Feldberg, O. Lotan, M. Yativ,
R. Jetter, I. Venger, A. Adato, and A. Aharoni. 2008. Gene Expression and
Metabolism in Developing Tomato Fruit Peel. Plant Physiology 147:823-851.
Moco, S., J. Forshed, R. C. H. De Vos, R. J. Bino, and J. Vervoort. 2008.
Intra- and inter-metabolite correlation spectroscopy of tomato metabolomics
data obtained by liquid chromatography-mass spectrometry and nuclear magnetic
resonance. Metabolomics 4:202-215.
Moco, S., J. Forshed, R. C. H. De Vos, R. J. Bino, and J. Vervoort. 2008.
Intra- and inter-metabolite correlation spectroscopy of tomato metabolomics
data obtained by liquid chromatography-mass spectrometry and nuclear magnetic
resonance. Metabolomics 4:202-215.
Persson, D. P., T. H. Hansen, K. H. Laursen, J. K. Schjoerring, and S. Husted.
2008. Simultanous zink, iron, sulphur and phosphorus speciation analysis
of the barley grain using SEC-ICP-MS and LC-ESI-MS. Journal of Analytical
and Atomic Spectroscopy submitted.
Portnoy, V., Y. Benyamini, E. Bar, R. Harel-Beza, S. Gepstein, J. J. Giovannoni,
A. A. Schaffer, Y. Burger, Y. Tadmor, E. Lewinsohn, and N. Katzir. 2008.
The molecular and biochemical basis for varietal variation in sesquiterpene
content in melon (Cucumis melo L.) rinds. . Plant Molecular Biology 66:647-661.
Sanchez, D. H., H. Redestig, U. Kraemer, M. K. Udvardi, and J. Kopka. 2008.
Metabolome-ionome-biomass interactions: What can we learn about salt stress
by multiparallel phenotyping? Plant Signaling and Behavior 3:1-3.
Schijlen, E. G. W. M., J. Beekwilder, R. D. Hall, and I. M. Van der Meer.
2008. Boosting beneficial phyochemicals in vegetable crop plants. CAB Reviews
208:1-21.
Schjoerring, J. K., D. P. Persson, E. Lombi, T. H. Hansen, K. H. Laursen,
M. Schiller, J. N. Hegelund, and S. Husted. 2008. Zinc and iron distribution
and speciation in the cereal grain. Physiol. Plant 133:217.
Schwab, W., R. Davidovich-Rikanati, and E. Lewinsohn. 2008. Biosynthesis
of plant-derived flavor compounds. The Plant Journal 54:712-732.
Strehmel, N., J. Hummel, A. Erban, K. Strassburg, and J. Kopka. 2008. Retention
index thresholds for compound matching in GC-MS metabolite profiling. Journal
of Chromatography B-Analytical Technologies in the Biomedical and Life Sciences
871:182-190.
Tadmor, Y., N. Katzir, A. Meir, Y.-Y. A., U. Sa'ar, F. Baumkoler, T. Lavee,
E. Lewinsohn, A. Schaffer, J. Burger, and I. J. 2008. Induced mutagenesis
to augment the natural genetic variability of melon (Cucumis melo L.). Plant
Sciences 55:159 - 169.
Taylor, C. F., D. Field, S. Assunta Sansone, J. Aerts, R. Apweiler, M. Ashburner,
P.-A. Binz, M. Bogue, T. Booth, A. Brazma, R. R. Brinkman, C. A. Ball, E.
W. Deutsch, O. Fiehn, J. Fostel, P. Ghazal, F. Gibson, A. M. Clark, G. Grimes,
J. M. Hancock, N. W. Hardy, H. Hermjakob, R. K. Julian, T. Gray, C. Kettner,
C. Kinsinger, E. Kolker, M. Kuiper, M. Kane, J. Leebens-Mack, S. E. Lewis,
P. Lord, A.-M. Mallon, N. Le Novère, H. Masuya, R. McNally, A. Mehrle,
N. Morrison, N. Marthandan, J. Quackenbush, J. M. Reecy, D. G. Robertson,
P. Rocca-Serra, S. Orchard, H. Rosenfelder, J. Santoyo-Lopez, R. H. Scheuermann,
D. Schrober, H. Rodriguez, J. Snape, C. J. Stoeckert, K. Tipton, P. Sterk,
A. Untergasser, B. Smith, J. Vandesompele, and S. Wiemann. 2008. Promoting
coherent minimum reporting guidelines for biological and biomedical investigations:
(doi:10.1038/nbt.1411). MIBBI project Nature Biotechnology 26 889-896.
