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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Loss of transglutaminase 2 sensitizes for diet-induced obesity-related inflammation and insulin resistance due to enhanced macrophage c-Src signaling
Sághy, Tibor ; Köröskényi, Krisztina ; Hegedűs, Krisztina ; Antal, Miklós ; Bankó, Csaba ; Bacsó, Zsolt ; Papp, Attila ; Stienstra, Rinke ; Szondy, Zsuzsa - \ 2019
Cell Death & Disease 10 (2019)6. - ISSN 2041-4889

Transglutaminase 2 (TG2) is a multifunctional protein that promotes clearance of apoptotic cells (efferocytosis) acting as integrin β3 coreceptor. Accumulating evidence indicates that defective efferocytosis contributes to the development of chronic inflammatory diseases. Obesity is characterized by the accumulation of dead adipocytes and inflammatory macrophages in the adipose tissue leading to obesity-related metabolic syndrome. Here, we report that loss of TG2 from bone marrow-derived cells sensitizes for high fat diet (HFD)-induced pathologies. We find that metabolically activated TG2 null macrophages express more phospho-Src and integrin β3, unexpectedly clear dying adipocytes more efficiently via lysosomal exocytosis, but produce more pro-inflammatory cytokines than the wild type ones. Anti-inflammatory treatment with an LXR agonist reverts the HFD-induced phenotype in mice lacking TG2 in bone marrow-derived cells with less hepatic steatosis than in wild type mice proving enhanced lipid clearance. Thus it is interesting to speculate whether LXR agonist treatment together with enhancing lysosomal exocytosis could be a beneficial therapeutic strategy in obesity.

The complete genome sequence of the phytopathogenic fungus Sclerotinia sclerotiorum reveals insights into the genome architecture of broad host range pathogens
Derbyshire, Mark ; Denton-Giles, Matthew ; Hegedus, Dwayne ; Seifbarghi, Shirin ; Rollins, Jeffrey ; Kan, Jan van; Seidl, Michael F. ; Faino, Luigi ; Mbengue, Malick ; Navaud, Olivier - \ 2017
Genome Biology and Evolution 9 (2017)3. - ISSN 1759-6653 - p. 593 - 618.
Effector - Pacbio - Repeat-induced point mutation - Sclerotinia sclerotiorum - Two-speed

Sclerotinia sclerotiorum is a phytopathogenic fungus with over 400 hosts including numerous economically important cultivated species. This contrasts many economically destructive pathogens that only exhibit a single or very few hosts. Many plant pathogens exhibit a "two-speed" genome. So described because their genomes contain alternating gene rich, repeat sparse and gene poor, repeat-rich regions. In fungi, the repeat-rich regions may be subjected to a process termed repeat-induced point mutation (RIP). Both repeat activity and RIP are thought to play a significant role in evolution of secreted virulence proteins, termed effectors. We present a complete genome sequence of S. sclerotiorum generated using Single Molecule Real-Time Sequencing technology with highly accurate annotations produced using an extensive RNA sequencing data set. We identified 70 effector candidates and have highlighted their in planta expression profiles. Furthermore, we characterized the genome architecture of S. sclerotiorum in comparison to plant pathogens that exhibit "two-speed" genomes. We show that there is a significant association between positions of secreted proteins and regions with a high RIP index in S. sclerotiorum but we did not detect a correlation between secreted protein proportion and GC content. Neither did we detect a negative correlation between CDS content and secreted protein proportion across the S. sclerotiorum genome. We conclude that S. sclerotiorum exhibits subtle signatures of enhanced mutation of secreted proteins in specific genomic compartments as a result of transposition and RIP activity. However, these signatures are not observable at the whole-genome scale.

Autographa californica multiple nucleopolyhedrovirus AC83 is a per os infectivity factor (PIF) protein required for occlusion-derived virus (ODV) and budded virus nucleocapsid assembly as well as assembly of the PIF complex in ODV envelopes
Javed, Muhammad Afzal ; Biswas, Siddhartha ; Willis, Leslie G. ; Harris, Stephanie ; Pritchard, Caitlin ; Oers, Monique M. van; Cameron Donly, B. ; Erlandson, Martin A. ; Hegedus, Dwayne D. ; Theilmann, David A. - \ 2017
Journal of Virology 91 (2017)5. - ISSN 0022-538X
AC83 - AcMNPV - Baculovirus - Chitin binding domain - Fluorescence microscopy - Nucleocapsid assembly - Occlusion-derived virus - Per os infection - PIF - PIF complex - ZF domain - Zinc finger proteins

Baculovirus occlusion-derived virus (ODV) initiates infection of lepidopteran larval hosts by binding to the midgut epithelia, which is mediated by per os infectivity factors (PIFs). Autographa californica multiple nucleopolyhedrovirus (AcMNPV) encodes seven PIF proteins, of which PIF1 to PIF4 form a core complex in ODV envelopes to which PIF0 and PIF6 loosely associate. Deletion of any pif gene results in ODV being unable to bind or enter midgut cells. AC83 also associates with the PIF complex, and this study further analyzed its role in oral infectivity to determine if it is a PIF protein. It had been proposed that AC83 possesses a chitin binding domain that enables transit through the peritrophic matrix; however, no chitin binding activity has ever been demonstrated. AC83 has been reported to be found only in the ODV envelopes, but in contrast, the Orgyia pseudotsugata MNPV AC83 homolog is associated with both ODV nucleocapsids and envelopes. In addition, unlike known pif genes, deletion of ac83 eliminates nucleocapsid formation. We propose a new model for AC83 function and show AC83 is associated with both ODV nucleocapsids and envelopes. We also further define the domain required for nucleocapsid assembly. The cysteine-rich region of AC83 is also shown not to be a chitin binding domain but a zinc finger domain required for the recruitment or assembly of the PIF complex to ODV envelopes. As such, AC83 has all the properties of a PIF protein and should be considered PIF8. In addition, pif7 (ac110) is reported as the 38th baculovirus core gene.

A role for seed storage proteins in Arabidopsis seed longevity
Nguyen, T.P. ; Cueff, G. ; Hegedus, D.D. ; Rajjou, L. ; Bentsink, L. - \ 2015
Journal of Experimental Botany 66 (2015)20. - ISSN 0022-0957 - p. 6399 - 6413.
Proteomics approaches have been a useful tool for determining the biological roles and functions of individual proteins and identifying the molecular mechanisms that govern seed germination, vigour and viability in response to ageing. In this work the dry seed proteome of four Arabidopsis thaliana genotypes, that carry introgression fragments at the position of seed longevity quantitative trait loci and as a result display different levels of seed longevity, was investigated. Seeds at two physiological states, after-ripened seeds that had the full germination ability and aged (stored) seeds of which the germination ability was severely reduced, were compared. Aged dry seed proteomes were markedly different from the after-ripened and reflected the seed longevity level of the four genotypes, despite the fact that dry seeds are metabolically quiescent. Results confirmed the role of antioxidant systems, notably vitamin E, and indicated that protection and maintenance of the translation machinery and energy pathways are essential for seed longevity. Moreover, a new role for seed storage proteins (SSPs) was identified in dry seeds during ageing. Cruciferins (CRUs) are the most abundant SSPs in Arabidopsis and seeds of a triple mutant for three CRU isoforms (crua crub cruc) were more sensitive to artificial ageing and their seed proteins were highly oxidized compared with wild-type seeds. These results confirm that oxidation is involved in seed deterioration and that SSPs buffer the seed from oxidative stress, thus protecting important proteins required for seed germination and seedling formation.
RNA interference in Lepidoptera: An overview of successful and unsuccessful
Terenius, O. ; Papanicolaou, A. ; Garbutt, J.S. ; Eleftherianos, I. ; Huvenne, H. ; Kanginakudru, S. ; Albrechtsen, M. ; An, Chunju ; Aymeric, J.L. ; Barthel, A. ; Bebas, P. ; Bitra, K. ; Bravo, A. ; Chevalier, F. ; Collinge, D.P. ; Crava, C.M. ; Maagd, R.A. de; Duvic, B. ; Erlandson, M. ; Faye, I. ; Felfoldi, G. ; Fujiwara, H. ; Futahashi, R. ; Gandhe, A.S. ; Gatehouse, H.S. ; Gatehouse, L.N. ; Giebultowicz, J.M. ; Gomez, I. ; Grimmelikhuijzen, C.J.P. ; Groot, A.T. ; Hauser, F. ; Heckel, D.G. ; Hegedus, D.D. ; Hrycaj, S. ; Huang, L. ; Hull, J.J. ; Iatrou, K. ; Iga, M. ; Kanost, M.R. ; Kotwica, J. ; Li, Changyou ; Li, Jianghong ; Liu, Jisheng ; Lundmark, M. ; Matsumoto, S. ; Meyering-Vos, M. ; Millichap, P.J. ; Monteiro, A. ; Mrinal, N. ; Niimi, T. ; Nowara, D. ; Ohnishi, A. ; Oostra, V. ; Ozaki, K. ; Papakonstantinou, M. ; Popadic, A. ; Rajam, M.V. ; Saenko, S. ; Simpson, R.M. ; Soberon, M. ; Strand, M.R. ; Tomita, S. ; Toprak, U. ; Wang, Ping ; Wee, Choon Wei ; Whyard, S. ; Zhang, Wenqing ; Nagaraju, J. ; Ffrench-Constant, R.H. ; Herrero, S. ; Gordon, K. ; Swevers, L. ; Smagghe, G. - \ 2011
Journal of Insect Physiology 57 (2011)2. - ISSN 0022-1910 - p. 231 - 245.
double-stranded-rna - armyworm spodoptera-frugiperda - silkworm bombyx-mori - small silencing rnas - manduca-sexta - bacillus-thuringiensis - caenorhabditis-elegans - helicoverpa-armigera - immune-responses - messenger-rna
Gene silencing through RNA interference (RNAi) has revolutionized the study of gene function, particularly in non-model insects. However, in Lepidoptera (moths and butterflies) RNAi has many times proven to be difficult to achieve. Most of the negative results have been anecdotal and the positive experiments have not been collected in such a way that they are possible to analyze. In this review, we have collected detailed data from more than 150 experiments including all to date published and many unpublished experiments. Despite a large variation in the data, trends that are found are that RNAi is particularly successful in the family Saturniidae and in genes involved in immunity. On the contrary, gene expression in epidermal tissues seems to be most difficult to silence. In addition, gene silencing by feeding dsRNA requires high concentrations for success. Possible causes for the variability of success in RNAi experiments in Lepidoptera are discussed. The review also points to a need to further investigate the mechanism of RNAi in lepidopteran insects and its possible connection to the innate immune response. Our general understanding of RNAi in Lepidoptera will be further aided in the future as our public database at http://insectacentral.org/RNAi will continue to gather information on RNAi experiments
Application of CAP reform on dairy farming in the Netherlands
Vrolijk, H.C.J. ; Bont, C.J.A.M. de; Poppe, K.J. - \ 2004
In: Proceedings of International Seminar on application of the Common Agricultural Policy in the Enlarged European Union, Budapest, Hungary, 18-10-2004 / Popp, J., Kamarás Hegedus, N., Budapest : AKI - p. 134 - 151.
A tejtermelés szabályozásának alkalmazása Hollandiában a KAP Reform alapján
Vrolijk, H.C.J. ; Bont, C.J.A.M. de; Poppe, K.J. - \ 2004
In: Nemzetközi konferencia el¿adási, a közös agrárpolitika alkalmazása a kib¿vítet EU-ban / Popp, J., Kamarás Hegedus, N., Budapest : AKI - p. 9 - 28.
Flood forecasting by neural networks.
Veldkamp, A.H.G. ; Torfs, P.J.J.F. ; Warmerdam, P.M.M. ; Jellema, I. - \ 1994
In: Proc. 17th Conf. Danube Countries: Hydrological forecasting and hydrological bases of water management, M. Hegedüs (ed.). Vol. 1 - p. 291 - 297.
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