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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    Monitoring of the soil quality and vegetation using data of remote sensing in the Ukraine: Project completion report
    Fraters, B. ; Kovar, K. ; Jong, S. de; Bartholomeus, H. ; Grekov, V. ; Panasenko, V. - \ 2012
    Bilthoven : RIVM (RIVM Letter Report 680271001) - 50
    Developments in monitoring the effectiveness of the EU Nitrates Directive Action Programmes : results of the second MonNO3 workshop, 10-11 June 2009
    Fraters, B. ; Kovar, K. ; Grant, R. ; Thorling, L. ; Reijs, J.W. - \ 2011
    Bilthoven : RIVM (RIVM report / Rijksinstituut voor Volksgezondheid en Milieu 680717019/2011) - 390
    agrarische bedrijfsvoering - waterverontreiniging - nitraten - mestbeleid - monitoring - eu regelingen - farm management - water pollution - nitrates - manure policy - monitoring - eu regulations
    Member States of the European Union are obliged both to monitor the quality of their waters and the effect of their Action Programmes on these waters and to report the results to the European Commission. These monitoring obligations have been interpreted differently by the various countries due to the lack of specific guidelines. Most countries, however, have increased their efforts to monitor water quality the last six years, primarily as a consequence of the discussion between the Member States and the European Commission on how the fertiliser policy should be designed and implemented. Similar to the first ‘MonNO3’ workshop, the second one has also contributed to the exchange of knowledge and information – at the international level – on monitoring the effects of the fertiliser policy. Attention was also paid to the use of monitoring data for purposes other than providing information on the status of and trends in water quality; for example, to use data for underpinning measures to be included in the fertiliser policy. In closing, the participants discussed possible amelioration and expansion of the monitoring networks.
    Functional and evolutionary insights from the genomes of three parasitoid nasonia species
    Werren, John H. ; Richards, Stephen ; Desjardins, Christopher A. ; Niehuis, Oliver ; Gadau, Jurgen ; Colbourne, John K. ; Beukeboom, Leo W. ; Desplan, Claude ; Elsik, Christine G. ; Grimmelikhuijzen, Cornelis J.P. ; Kitts, Paul ; Lynch, Jeremy A. ; Murphy, Terence ; Oliveira, Deodoro C.S.G. ; Smith, Christopher D. ; Zande, Louis De Van; Worley, Kim C. ; Zdobnov, Evgeny M. ; Aerts, Maarten ; Albert, Stefan ; Anaya, Victor H. ; Anzola, Juan M. ; Barchuk, Angel R. ; Behura, Susanta K. ; Bera, Agata N. ; Berenbaum, May R. ; Bertossa, Rinaldo C. ; Bitondi, Márcia M.G. ; Bordenstein, Seth R. ; Bork, Peer ; Bornberg-Bauer, Erich ; Brunain, Marleen ; Cazzamali, Giuseppe ; Chaboub, Lesley ; Chacko, Joseph ; Chavez, Dean ; Childers, Christopher P. ; Choi, Jeong Hyeon ; Clark, Michael E. ; Claudianos, Charles ; Clinton, Rochelle A. ; Cree, Andrew G. ; Cristino, Alexandre S. ; Dang, Phat M. ; Darby, Alistair C. ; Graaf, Dirk C. De; Devreese, Bart ; Dinh, Huyen H. ; Edwards, Rachel ; Elango, Navin ; Elhaik, Eran ; Ermolaeva, Olga ; Evans, Jay D. ; Foret, Sylvain ; Fowler, Gerald R. ; Gerlach, Daniel ; Gibson, Joshua D. ; Gilbert, Donald G. ; Graur, Dan ; Gründer, Stefan ; Hagen, Darren E. ; Han, Yi ; Hauser, Frank ; Hultmark, Da ; Hunter Iv, Henry C. ; Hurst, Gregory D.D. ; Jhangian, Shalini N. ; Jiang, Huaiyang ; Johnson, Reed M. ; Jones, Andrew K. ; Junier, Thomas ; Kadowaki, Tatsuhiko ; Kamping, Albert ; Kapustin, Yuri ; Kechavarzi, Bobak ; Kim, Jaebum ; Kim, Jay ; Kiryutin, Boris ; Koevoets, Tosca ; Kovar, Christie L. ; Kriventseva, Evgenia V. ; Kucharski, Robert ; Lee, Heewook ; Lee, Sandra L. ; Lees, Kristin ; Lewis, Lora R. ; Loehlin, David W. ; Logsdon, John M. ; Lopez, Jacqueline A. ; Lozado, Ryan J. ; Maglott, Donna ; Maleszka, Ryszard ; Mayampurath, Anoop ; Mazur, Danielle J. ; McClure, Marcella A. ; Moore, Andrew D. ; Morgan, Margaret B. ; Muller, Jean ; Munoz-Torres, Monica C. ; Muzny, Donna M. ; Nazareth, Lynne V. ; Neupert, Susanne ; Nguyen, Ngoc B. ; Nunes, Francis M.F. ; Oakeshott, John G. ; Okwuonu, Geoffrey O. ; Pannebakker, Bart A. ; Pejaver, Vikas R. ; Peng, Zuogang ; Pratt, Stephen C. ; Predel, Reinhard ; Pu, Ling Ling ; Ranson, Hilary ; Raychoudhury, Rhitoban ; Rechtsteiner, Andreas ; Reese, Justin T. ; Reid, Jeffrey G. ; Riddle, Megan ; Robertson, I.I.H.M. ; Romero-Severson, Jeanne ; Rosenberg, Miriam ; Sackton, Timothy B. ; Sattelle, David B. ; Schlüns, Helge ; Schmitt, Thomas ; Schneider, Martina ; Schüler, Andreas ; Schurko, Andrew M. ; Shuker, David M. ; Simões, Zila L.P. ; Sinha, Saurabh ; Smith, Zachary ; Solovyev, Victor ; Souvorov, Alexandre ; Springauf, Andreas ; Stafflinger, Elisabeth ; Stage, Deborah E. ; Stanke, Mario ; Tanaka, Yoshiaki ; Telschow, Arndt ; Vattathil, Carol Trent Selina ; Verhulst, I.I.E.C. ; Viljakainen, Lumi ; Wanner, Kevin W. ; Waterhouse, Robert M. ; Whitfield, James B. ; Wilkes, Timothy E. ; Williamson, Michael ; Willis, Judith H. ; Wolschin, Florian ; Wyder, Stefan ; Yamada, Takuji ; Yi, Soojin V. ; Zecher, Courtney N. ; Zhang, Lan ; Gibbs, Richard A. - \ 2010
    Science 327 (2010)5963. - ISSN 0036-8075 - p. 343 - 348.

    We report here genome sequences and comparative analyses of three closely related parasitoid wasps: Nasonia vitripennis, N. giraulti, and N. tongicomis. Parasitoids are important regulators of arthropod populations, including major agricultural pests and disease vectors, and Nasonia is an emerging genetic model, particularly for evolutionary and developmental genetics. Key findings include the identification of a functional DNA methylation tool kit; hymenopteran-spedfic genes including diverse venoms; lateral gene transfers among Pox viruses, Wolbachia, and Nasonia; and the rapid evolution of genes involved in nuclearmitochondrial interactions that are implicated in spedation. Newly developed genome resources advance Nasonia for genetic research, accelerate mapping and cloning of quantitative trait loci, and will ultimately provide tools and knowledge for further increasing the utility of parasitoids as pest insect-control agents.

    Genome sequence of the pea aphid Acyrthosiphon pisum
    Richards, Stephen ; Gibbs, Richard A. ; Gerardo, Nicole M. ; Moran, Nancy ; Nakabachi, Atsushi ; Stern, David ; Tagu, Denis ; Wilson, Alex C.C. ; Muzny, Donna ; Kovar, Christie ; Cree, Andy ; Chacko, Joseph ; Chandrabose, Mimi N. ; Dao, Marvin Diep ; Dinh, Huyen H. ; Gabisi, Ramatu Ayiesha ; Hines, Sandra ; Hume, Jennifer ; Jhangian, Shalini N. ; Joshi, Vandita ; Lewis, Lora R. ; Liu, Yih Shin ; Lopez, John ; Morgan, Margaret B. ; Nguyen, Ngoc Bich ; Okwuonu, Geoffrey O. ; Ruiz, San Juana ; Santibanez, Jireh ; Wright, Rita A. ; Fowler, Gerald R. ; Hitchens, Matthew E. ; Lozado, Ryan J. ; Moen, Charles ; Steffen, David ; Warren, James T. ; Zhang, Jingkun ; Nazareth, Lynne V. ; Chavez, Dean ; Davis, Clay ; Lee, Sandra L. ; Patel, Bella Mayurkumar ; Pu, Ling Ling ; Bell, Stephanie N. ; Johnson, Angela Jolivet ; Vattathil, Selina ; Williams, Rex L. ; Shigenobu, Shuji ; Dang, Phat M. ; Morioka, Mizue ; Fukatsu, Takema ; Kudo, Toshiaki ; Miyagishima, Shin Ya ; Jiang, Huaiyang ; Worley, Kim C. ; Legeai, Fabrice ; Gauthier, Jean Pierre ; Collin, Olivier ; Zhang, Lan ; Chen, Hsiu Chuan ; Ermolaeva, Olga ; Hlavina, Wratko ; Kapustin, Yuri ; Kiryutin, Boris ; Kitts, Paul ; Maglott, Donna ; Murphy, Terence ; Pruitt, Kim ; Sapojnikov, Victor ; Souvorov, Alexandre ; Thibaud-Nissen, Françoise ; Câmara, Francisco ; Guigó, Roderic ; Stanke, Mario ; Solovyev, Victor ; Kosarev, Peter ; Gilbert, Don ; Gabaldón, Toni ; Huerta-Cepas, Jaime ; Marcet-Houben, Marina ; Pignatelli, Miguel ; Moya, Andrés ; Rispe, Claude ; Ollivier, Morgane ; Quesneville, Hadi ; Permal, Emmanuelle ; Llorens, Carlos ; Futami, Ricardo ; Hedges, Dale ; Robertson, Hugh M. ; Alioto, Tyler ; Mariotti, Marco ; Nikoh, Naruo ; McCutcheon, John P. ; Burke, Gaelen ; Kamins, Alexandra ; Latorre, Amparo ; Ashton, Peter ; Calevro, Federica ; Charles, Hubert ; Colella, Stefano ; Douglas, Angela E. ; Jander, Georg ; Jones, Derek H. ; Febvay, Gérard ; Kamphuis, Lars G. ; Kushlan, Philip F. ; Macdonald, Sandy ; Ramsey, John ; Schwartz, Julia ; Seah, Stuart ; Thomas, Gavin ; Vellozo, Augusto ; Cass, Bodil ; Degnan, Patrick ; Hurwitz, Bonnie ; Leonardo, Teresa ; Koga, Ryuichi ; Altincicek, Boran ; Anselme, Caroline ; Atamian, Hagop ; Barribeau, Seth M. ; Vos, Martin De; Duncan, Elizabeth ; Evans, Jay ; Ghanim, Murad ; Heddi, Abdelaziz ; Kaloshian, Isgouhi ; Vincent-Monegat, Carole ; Parker, Ben J. ; Pérez-Brocal, Vicente ; Rahbé, Yvan ; Spragg, Chelsea J. ; Tamames, Javier ; Tamarit, Daniel ; Tamborindeguy, Cecilia ; Vilcinskas, Andreas ; Bickel, Ryan D. ; Brisson, Jennifer A. ; Butts, Thomas ; Chang, Chun Che ; Christiaens, Olivier ; Davis, Gregory K. ; Duncan, Elizabeth ; Ferrier, David ; Iga, Masatoshi ; Janssen, Ralf ; Lu, Hsiao Ling ; McGregor, Alistair ; Miura, Toru ; Smagghe, Guy ; Smith, James ; Zee, Maurijn Van Der; Velarde, Rodrigo ; Wilson, Megan ; Dearden, Peter ; Edwards, Owain R. ; Gordon, Karl ; Hilgarth, Roland S. ; Rider, Stanley Dean ; Srinivasan, Dayalan ; Walsh, Thomas K. ; Ishikawa, Asano ; Jaubert-Possamai, Stéphanie ; Fenton, Brian ; Huang, Wenting ; Rizk, Guillaume ; Lavenier, Dominique ; Nicolas, Jacques ; Smadja, Carole ; Zhou, Jing Jiang ; Vieira, Filipe G. ; He, Xiao Li ; Liu, Renhu ; Rozas, Julio ; Field, Linda M. ; Campbell, Peter ; Carolan, James C. ; Fitzroy, Carol I.J. ; Reardon, Karen T. ; Reeck, Gerald R. ; Singh, Karam ; Wilkinson, Thomas L. ; Huybrechts, Jurgen ; Abdel-Latief, Mohatmed ; Robichon, Alain ; Veenstra, Jan A. ; Hauser, Frank ; Cazzamali, Giuseppe ; Schneider, Martina ; Williamson, Michael ; Stafflinger, Elisabeth ; Hansen, Karina K. ; Grimmelikhuijzen, Cornelis J.P. ; Price, Daniel R.G. ; Caillaud, Marina ; Fleet, Eric Van; Ren, Qinghu ; Gatehouse, John A. ; Brault, Véronique ; Monsion, Baptiste ; Diaz, Jason ; Hunnicutt, Laura ; Ju, Ho Jong ; Pechuan, Ximo ; Aguilar, José ; Cortés, Teresa ; Ortiz-Rivas, Benjamín ; Martínez-Torres, David ; Dombrovsky, Aviv ; Dale, Richard P. ; Davies, T.G.E. ; Williamson, Martin S. ; Jones, Andrew ; Sattelle, David ; Williamson, Sally ; Wolstenholme, Adrian ; Cottret, Ludovic ; Sagot, Marie France ; Heckel, David G. ; Hunter, Wayne - \ 2010
    PloS Biology 8 (2010)2. - ISSN 1544-9173

    Aphids are important agricultural pests and also biological models for studies of insect-plant interactions, symbiosis, virus vectoring, and the developmental causes of extreme phenotypic plasticity. Here we present the 464 Mb draft genome assembly of the pea aphid Acyrthosiphon pisum. This first published whole genome sequence of a basal hemimetabolous insect provides an outgroup to the multiple published genomes of holometabolous insects. Pea aphids are host-plant specialists, they can reproduce both sexually and asexually, and they have coevolved with an obligate bacterial symbiont. Here we highlight findings from whole genome analysis that may be related to these unusual biological features. These findings include discovery of extensive gene duplication in more than 2000 gene families as well as loss of evolutionarily conserved genes. Gene family expansions relative to other published genomes include genes involved in chromatin modification, miRNA synthesis, and sugar transport. Gene losses include genes central to the IMD immune pathway, selenoprotein utilization, purine salvage, and the entire urea cycle. The pea aphid genome reveals that only a limited number of genes have been acquired from bacteria; thus the reduced gene count of Buchnera does not reflect gene transfer to the host genome. The inventory of metabolic genes in the pea aphid genome suggests that there is extensive metabolite exchange between the aphid and Buchnera, including sharing of amino acid biosynthesis between the aphid and Buchnera. The pea aphid genome provides a foundation for post-genomic studies of fundamental biological questions and applied agricultural problems.

    Adapting Landscapes for Climate Change: linking European policy to local level landscape development
    Opdam, P.F.M. - \ 2010
    In: Book of Abstracts of the International Conference in Landscape Ecology on Landscape structures, functions and management: response to global ecological change, Brno-Prague, Czech Republic, 3-6 September 2010 Landscape structures, functions and management: response to global ecological change. - Prague : CZ-IALE - p. 5 - 5.
    Towards an open and collaborative scientific society in Europe: who owns and who may use ecological data?
    Jongman, R.H.G. - \ 2010
    In: International Conference in Landscape Ecology on Landscape structures, functions and management: response to global ecological change, Prague-Brno, Czech Republic, 3-6 September 2010. - Prague : CZ-IALE, Benatska 2 - ISBN 9788025480649 - p. 52 - 52.
    Monitoring landscape structure and elements using LUCAS field databases versus remote sensing
    Mücher, S. ; Geijzendorffer, I.R. - \ 2010
    In: International Conference in Landscape Ecology on Landscape structures, functions and management: response to global ecological change, Brno - Prague, Czech Republic, 3-6 September 2010. - Prague : CZ-IALE, Benatska 2 - ISBN 9788025480649 - p. 41 - 41.
    Surveillance and monitoring of European annex 1 habitats
    Bunce, R.G.H. ; Bogers, M.M.B. ; Geijzendorffer, I.R. ; Evans, D. - \ 2010
    In: International Conference in Landscape Ecology on Landscape structures, functions and management: response to global ecological change, Prague-Brno, Czech Republic, 3-6 September 2010. - Prague : CZ-IALE, Benatska 2 - ISBN 9788025480649 - p. 38 - 38.
    Physical, ecological and socio-economic monitoring for input in scenarios on changing landscapes processes in human-made landscape
    Jongman, R.H.G. - \ 2010
    In: Landscape structures, functions and management: response to global ecological change, Prague, Czech Republic, 3-9 September 2010. - Prague, Czech Republic : CZ-IALE, Benatska 2 - ISBN 9788025480649 - p. 37 - 37.
    Climate change has started range shifts for many species, natural communities and established ecosystems. They follow their suitable climate space and further shifts are expected. Whether species or their aggregations will be able to colonize regions where climate conditions become suitable, so called „new climate space“, depends on species traits and habitat fragmentation and other natural and manmade barriers. At the same time, possible demographic change in human populations, economic phenomena such scale enlargement in agriculture,, health care and natural risks will affect the European cultural landscapes. One of the key tools of obtaining the relevant data is monitoring features of changes correlated with climate change patterns. We need monitoring programmes for land use change, species shifts and developing detailed scenarios. With the help of robust datasets we are able to identify areas where the spatial cohesion of the natural or cultural ecosystem pattern is expected to be insufficient to allow colonization of the new climatic space as well as where and how we could develop new adaptation strategies
    A standardized procedure for surveillance and monitoring European habitats and provision of spatial data
    Bunce, R.G.H. ; Metzger, M.J. ; Jongman, R.H.G. ; Brandt, J. ; Blust, G. de; Elena-Rossello, R. ; Groom, G.B. ; Halada, L. ; Hofer, G. ; Howard, D.C. ; Kovár, P. ; Mücher, C.A. ; Padoa-Schioppa, E. ; Paelinx, D. ; Palo, A. ; Pérez-Soba, M. ; Ramos, I.L. ; Roche, P. ; Skånes, H. ; Wrbka, T. - \ 2008
    Landscape Ecology 23 (2008)1. - ISSN 0921-2973 - p. 11 - 25.
    strategic ecological survey - land-cover - stratification - classification - biodiversity - principles - britain
    Both science and policy require a practical, transmissible, and reproducible procedure for surveillance and monitoring of European habitats, which can produce statistics integrated at the landscape level. Over the last 30 years, landscape ecology has developed rapidly, and many studies now require spatial data on habitats. Without rigorous rules, changes from baseline records cannot be separated reliably from background noise. A procedure is described that satisfies these requirements and can provide consistent data for Europe, to support a range of policy initiatives and scientific projects. The methodology is based on classical plant life forms, used in biogeography since the nineteenth century, and on their statistical correlation with the primary environmental gradient. Further categories can therefore be identified for other continents to assist large scale comparisons and modelling. The model has been validated statistically and the recording procedure tested in the field throughout Europe. A total of 130 General Habitat Categories (GHCs) is defined. These are enhanced by recording environmental, site and management qualifiers to enable flexible database interrogation. The same categories are applied to areal, linear and point features to assist recording and subsequent interpretation at the landscape level. The distribution and change of landscape ecological parameters, such as connectivity and fragmentation, can then be derived and their significance interpreted.
    Effectiveness of turf stripping as a measure for restoring species-rich fen meadows in suboptimal hydrological conditions
    Hoek, D. van der; Heijmans, M.M.P.D. - \ 2006
    In: Proceedings of the International Conference on Hydrology and Ecology: The Groundwater/Ecology Connection, Karlovy Vary, Czech Republic, 11-14 September 2006. - Czech Republic : Czech Association of Hydrogeologists - ISBN 9788090363519 - p. 121 - 124.
    Modelconcepten voor de interactie tussen verzadigd grondwater en oppervlaktewater
    Groenendijk, P. ; Lange, W.J. de; Kovar, K. - \ 2002
    Stromingen : vakblad voor hydrologen 8 (2002)2. - ISSN 1382-6069 - p. 11 - 28.
    grondwater - grondwaterstroming - bodemwaterbeweging - interacties - verzadigde stroming - modellen - drainage - groundwater - groundwater flow - soil water movement - drainage - interactions - saturated flow - models
    Uitgaande van de 3 kernbegrippen drainageflux, lekflux en voedingsflux is getracht een koppeling te vinden tussen het topsysteem en het diepe grondwater. Op weg naar deze koppeling zijn een aantal aannames gedaan
    De parameterisatie van de interactie tussen grondwater en oppervlaktewater voor landelijke en regionale grondwatermodellering
    Bakel, P.J.T. van; Lange, W.J. de; Pastoors, M.J.H. ; Groenendijk, P. ; Kovar, K. - \ 2002
    Stromingen : vakblad voor hydrologen 8 (2002)2. - ISSN 1382-6069 - p. 5 - 9.
    grondwater - grondwaterstroming - oppervlaktewater - interacties - modellen - geschiedenis - geohydrologie - groundwater - groundwater flow - surface water - interactions - models - history - geohydrology
    Alterra, RIVM en RIZA richtten de Ad hoc Werkgroep Concensus Hydrologie op, waarbij de interactie tussen grond- en oppervlaktewater centraal staat
    Automatic model calibration using a universal approximator
    Torfs, P.J.J.F. ; Bier, G. - \ 2000
    In: Calibration and Reliability in Groundwater Modelling: Coping with Uncertainty : ModelCARE'99 Conference, Zürich, 20-23 September 1999 / Stauffer, F., Kinzelbach, W., Kovar, K., Hoehn, E., Wallingford : IAHS Press - ISBN 9781901502367 - p. 236 - 242.
    Uncertainty in longitudinal dispersivity for transport in the unsaturated zone : evaluation of a tracer experiment
    Leijnse, A. ; Zee, S.E.A.T.M. van der - \ 2000
    In: ModelCARE 96 Calibration and reliability in groundwater modelling / Kovar, K., Wallingford : IAHS Publishers - p. 589 - 595.
    LISEM: a physically-based hydrological and soil erosion model incorporated in a GIS
    Roo, A.P.J. de; Wesseling, C.G. ; Jetten, V.G. ; Ritsema, C.J. - \ 1996
    In: Application of geographic information systems in hydrology and water resources management / Kovar, K., Nachtnebel, H.P., - p. 395 - 403.
    Estimation of groundwater recharge in areas with deep groundwater tables using transient groundwater flow modelling.
    Lanen, H.A.J. van; Weerts, A.H. ; Kroon, T. ; Dijksma, R. - \ 1996
    In: ModelCare 96 : calibration and reliability in groundwater modelling : poster papers [of the conference], Colorado School of Mines, Golden, Colorado, USA, september 24 - 26, 1996. - - p. 307 - 316.
    grondwaterstroming - grondwateraanvulling - modellen - krijt (geologische periode) - limburg - groundwater flow - groundwater recharge - models - cretaceous
    Spatial variability, risk and extent of soil pollution: conceptual approach of estimating the exposure of organisms to soil contamination.
    Marinussen, M.P.J.C. ; Zee, S.E.A.T.M. van der - \ 1994
    In: Proc. GQM93 Conf., K. Kovar (ed.). Tallinn, Estonia 1993. IAHS, Wallingford - p. 245 - 255.
    Groundwater modelling using GIS at the Amsterdam water supply.
    Olsthoorn, T.N. ; Kamps, P.T.W.J. ; Droesen, W.J. - \ 1993
    In: Application of geographic information systems in hydrology and water resources management, K. Kovar, H.P. Nachtnebel (eds.). IAHS Publ. No. 211 - p. 665 - 674.
    Application of fuzzy sets in ecohydrological expert modelling.
    Droesen, W.J. ; Geelen, L.H.W.T. - \ 1993
    In: Application of geographic information systems in hydrology and water resources management, K. Kovar, H.P. Nachtnebel (eds.). IAHS Publ. No. 211 - p. 3 - 12.
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