Staff Publications

Staff Publications

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    'Staff publications' is the digital repository of Wageningen University & Research

    'Staff publications' contains references to publications authored by Wageningen University staff from 1976 onward.

    Publications authored by the staff of the Research Institutes are available from 1995 onwards.

    Full text documents are added when available. The database is updated daily and currently holds about 240,000 items, of which 72,000 in open access.

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    Comparative Metabolomics and Molecular Phylogenetics of Melon (Cucumis melo, Cucurbitaceae) Biodiversity
    Moing, Annick ; Allwood, J.W. ; Aharoni, Asaph ; Baker, John ; Beale, M.H. ; Ben-Dor, Shifra ; Biais, B. ; Brigante, Federico ; Burger, Yosef ; Deborde, C. ; Erban, A. ; Doron-Faigenboim, Adi ; Gur, Amit ; Goodacre, R. ; Hansen, T. ; Jacob, Daniel ; Katzir, Nurit ; Kopka, Joachim ; Lewinsohn, Efraim ; Maucourt, Mickael ; Meir, Sagit ; Miller, Sonia ; Mumm, R. ; Oren, Elad ; Paris, Harry S. ; Rogachev, Ilana ; Rollin, Dominique ; Saar, Uzi ; Schjoerring, Jan K. ; Tadmor, Y. ; Tzuri, Galil ; Vos, C.H. de; Ward, J. ; Yeselson, Elena ; Hall, R.D. ; Schaffer, A. - \ 2020
    Metabolites 10 (2020)3. - ISSN 2218-1989 - 26 p.
    The broad variability of Cucumis melo (melon, Cucurbitaceae) presents a challenge to conventional classification and organization within the species. To shed further light on the infraspecific relationships within C. melo, we compared genotypic and metabolomic similarities among 44 accessions representative of most of the cultivar-groups. Genotyping-by-sequencing (GBS) provided
    over 20,000 single-nucleotide polymorphisms (SNPs). Metabolomics data of the mature fruit flesh and rind provided over 80,000 metabolomic and elemental features via an orchestra of six complementary metabolomic platforms. These technologies probed polar, semi-polar, and non-polar metabolite
    fractions as well as a set of mineral elements and included both flavor- and taste-relevant volatile and non-volatile metabolites. Together these results enabled an estimate of “metabolomic/elemental distance” and its correlation with the genetic GBS distance of melon accessions. This study indicates
    that extensive and non-targeted metabolomics/elemental characterization produced classifications that strongly, but not completely, reflect the current and extensive genetic classification. Certain melon Groups, such as Inodorous, clustered in parallel with the genetic classifications while other genome
    to metabolome/element associations proved less clear. We suggest that the combined genomic, metabolic, and element data reflect the extensive sexual compatibility among melon accessions and the breeding history that has, for example, targeted metabolic quality traits, such as taste and flavor.
    Different transcriptional response between susceptible and resistant common carp (Cyprinus carpio) fish hints on the mechanism of CyHV-3 disease resistance
    Tadmor-Levi, Roni ; Doron-faigenboim, Adi ; Marcos-hadad, Evgeniya ; Petit, Jules ; Hulata, Gideon ; Forlenza, Maria ; Wiegertjes, Geert F. ; David, Lior - \ 2019
    BMC Genomics 20 (2019)1. - ISSN 1471-2164
    Infectious disease outbreaks form major setbacks to aquaculture production and to further development of this important sector. Cyprinid herpes virus-3 (CyHV-3) is a dsDNA virus widely hampering production of common carp (Cyprinus carpio), one of the most farmed fish species worldwide. Genetically disease resistant strains are highly sought after as a sustainable solution to this problem. To study the genetic basis and cellular pathways underlying disease resistance, RNA-Seq was used to characterize transcriptional responses of susceptible and resistant fish at day 4 after CyHV-3 infection.
    Gibberellin Promotes Sweetpotato Root Vascular Lignification and Reduces Storage-Root Formation
    Singh, Vikram ; Sergeeva, L. ; Ligterink, W. ; Aloni, Roni ; Zemach, Hanita ; Doron-Faigenboim, Adi ; Yang, Jun ; Zhang, Peng ; Shabtai, Sara ; Firon, Nurit - \ 2019
    Frontiers in Plant Science 10 (2019). - ISSN 1664-462X
    gene expression, gibberellin, lignin, root anatomy, storage-root, sweetpotato, xylem, yield
    Sweet potato yield depends on a change in the developmental fate of adventitious roots into storage-roots. The mechanisms underlying this developmental switch are still unclear. We examined the hypothesis claiming that regulation of root lignification determines storage root formation. We show that application of the plant hormone gibberellin increased stem elongation and root gibberellin levels, while having inhibitory effects on root system parameters, decreasing lateral root number and length, and significantly reducing storage root number and diameter. Furthermore, gibberellin enhanced root xylem development,caused increased lignin deposition, and, at the same time, decreased root starch accumulation. In accordance with these developmental effects, gibberellin application upregulated expression levels of sweet potato orthologues of Arabidopsis vascular development regulators (IbNA075, IbVND7, and IbSND2) and of lignin biosynthesis genes(IbPAL, IbC4H, Ib4CL, IbCCoAOMT, and IbCAD), while down regulating starch biosynthesis genes (IbAGPase and IbGBSS) in the roots. Interestingly, gibberellin down regulated root expression levels of orthologues of the Arabidopsis BREVIPEDICELLUS transcription factor (IbKN2 and IbKN3), regulator of meristem maintenance. The results substantiate our hypothesis and mark gibberellin as an important player in regulation of sweet potato root development, suggesting that increased fiber formation and lignification inhibit storage root formation and yield. Taken together, our findings provide insight into the mechanisms underlying sweet potato storage-root formation and provide a valuable database of genes for further research.
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