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.

    We have a manual that explains all the features 

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In-host adaptation and acquired triazole resistance in Aspergillus fumigatus: a dilemma for clinical management
Verweij, P. ; Zhang, J. ; Debets, A.J.M. ; Meis, J.F. ; Schoustra, S.E. ; Veerdonk, F.L. van de; Zwaan, B.J. ; Melchers, W.J.G. - \ 2016
The Lancet Infectious Diseases 16 (2016)11. - ISSN 1473-3099 - p. e251 - e260.
Aspergillus fumigatus causes a range of diseases in human beings, some of which are characterised by fungal persistence. A fumigatus can persist by adapting to the human lung environment through physiological and genomic changes. The physiological changes are based on the large biochemical versatility of the fungus, and the genomic changes are based on the capacity of the fungus to generate genetic diversity by spontaneous mutations or recombination and subsequent selection of the genotypes that are most adapted to the new environment. In this Review, we explore the adaptation strategies of A fumigatus in relation to azole resistance selection and the clinical implications thereof for management of diseases caused by Aspergillus spp. We hypothesise that the current diagnostic tools and treatment strategies do not take into account the biology of the fungus and might result in an increased likelihood of fungal persistence in patients. Stress factors, such as triazole exposure, cause mutations that render resistance. The process of reproduction-ie, sexual, parasexual, or asexual-is probably crucial for the adaptive potential of Aspergillus spp. As any change in the environment can provoke adaptation, switching between triazoles in patients with chronic pulmonary aspergillosis might result in a high-level pan-triazole-resistant phenotype through the accumulation of resistance mutations. Alternatively, when triazole therapy is stopped, an azole-free environment is created that could prompt selection for compensatory mutations that overcome any fitness costs that are expected to accompany resistance development. As a consequence, starting, switching, and stopping azole therapy has the risk of selecting for highly resistant strains with wildtype fitness. A similar adaptation is expected to occur in response to other stress factors, such as endogenous antimicrobial peptides; over time the fungus will become increasingly adapted to the lung environment, thereby limiting the probability of eradication. Our hypothesis challenges current management strategies, and future research should investigate the genomic dynamics during infection to understand the key factors facilitating adaptation of Aspergillus spp.
Comparative analysis of key socio-economic and environmental impacts of smallholder and plantation based jatropha biofuel production systems in Tanzania
Eijck, J. van; Romijn, H. ; Smeets, E.M.W. ; Bailis, R. ; Rooijakkers, M. ; Hooijkaas, N. ; Verweij, P. ; Faaij, A. - \ 2014
Biomass and Bioenergy 61 (2014). - ISSN 0961-9534 - p. 25 - 45.
agricultural landscapes - mathematical-theory - communication - certification - biodiversity - bioenergy - energy - trade - india
Two jatropha business models are compared on seven key sustainability areas of concern, which are operationalized into various quantitative and qualitative indicators. The assessment is based on two Tanzanian real-life cases, a wide range of primary and secondary sources are used. Results indicate that both the decentralized smallholder model and the centralized plantation model can lead to positive socio-economic and environmental impacts, but substantial differences are also apparent. The smallholder model scores better on land rights, GHG balance and biodiversity and it reaches more people, whereas the plantation model creates more employment and higher (local prosperity) benefits for smaller numbers of people, and could lead to higher yields. Negative impacts of the smallholder model are minimal, whereas the plantation model could lead to decreased food security, loss of land rights and biodiversity. This could permanently affect the livelihood situation of the local population, but this is not inevitable as there is considerable scope for implementing mitigating policies. The way in which a particular model is implemented in practice, its management and company values, can have a major influence. However, the biggest hurdle towards achieving sustained positive societal impacts in both models is their marginal profitability at current yields, costs and prices. Still, these results are highly sensitive to uncertain yields and oil prices. Better outcomes in the future are therefore not foreclosed. A reliable sustainability assessment requires many location-specific and operational company data. More quantitative indicators are ideally required to improve assessment of social impacts and effects on environment.
Breaking the Link between Environmental Degradation and Oil Palm Expansion: A Method for Enabling Sustainable Oil Palm Expansion
Smit, H.H. ; Meijaard, E. ; Laan, C. van der; Mantel, S. ; Budiman, A. ; Verweij, P. - \ 2013
PLoS ONE 8 (2013)9. - ISSN 1932-6203 - 12 p.
land-use - conservation - deforestation - biodiversity - biomass - kalimantan - landscape - biofuels - malaysia - amazon
Land degradation is a global concern. In tropical areas it primarily concerns the conversion of forest into non-forest lands and the associated losses of environmental services. Defining such degradation is not straightforward hampering effective reduction in degradation and use of already degraded lands for more productive purposes. To facilitate the processes of avoided degradation and land rehabilitation, we have developed a methodology in which we have used international environmental and social sustainability standards to determine the suitability of lands for sustainable agricultural expansion. The method was developed and tested in one of the frontiers of agricultural expansion, West Kalimantan province in Indonesia. The focus was on oil palm expansion, which is considered as a major driver for deforestation in tropical regions globally. The results suggest that substantial changes in current land-use planning are necessary for most new plantations to comply with international sustainability standards. Through visualizing options for sustainable expansion with our methodology, we demonstrate that the link between oil palm expansion and degradation can be broken. Application of the methodology with criteria and thresholds similar to ours could help the Indonesian government and the industry to achieve its pro-growth, pro-job, pro-poor and pro-environment development goals. For sustainable agricultural production, context specific guidance has to be developed in areas suitable for expansion. Our methodology can serve as a template for designing such commodity and country specific tools and deliver such guidance.
Indirect land use change: review of existing models and strategies for mitigation
Wicke, B. ; Verweij, P. ; Meijl, H. van; Vuuren, D.P. van; Faaij, A.P.C. - \ 2012
Biofuels 3 (2012)1. - ISSN 1759-7269 - p. 87 - 100.
This study reviews the current status, uncertainties and shortcomings of existing models of land use change (LUC) and associated GHG emissions as a result of biofuel production. The study also identifies options for improving the models and conducting further analysis. Moreover, because the extent of indirect LUC related to biofuels largely depends on other land uses, particularly agriculture, this study explores strategies for mitigating overall LUC and its effects. Despite recent improvements and refinements of the models, this review finds large uncertainties, primarily related to the underlying data and assumptions of the market-equilibrium models. Thus, there is still considerable scope for further scientific improvements of the modeling efforts. In addition, analyzing how overall LUC and its effects can be minimized is an important topic for further research and can deliver more concrete input for developing proper policy strategies. Future studies should investigate the impact of sustainability criteria and the effects of strategies for mitigating LUC, such as increasing agricultural efficiency, optimizing bioenergy production chains, using currently unused residues and byproducts, and producing feedstocks on degraded and marginal land.
Bioenergy revisited: Key factors in global potentials of bioenergy
Dornburg, V. ; Vuuren, D. ; Ven, G.W.J. van de; Langeveld, C.A. ; Meeusen, M. ; Banse, M.A.H. ; Oorschot, M. van; Ros, J. ; Born, G.J. van den; Aiking, H. ; Londo, M. ; Mozaffarian, H. ; Verweij, P. ; Lysen, E. ; Faaij, A. - \ 2010
Energy & Environmental Science 3 (2010)3. - ISSN 1754-5692 - p. 258 - 267.
land-use scenarios - biomass energy - environmental-impact - water-use - palm oil - exploration - biofuels - habitat - willow - diet
he growing use of bioenergy goes hand in hand with a heated public debate, in which conflicting claims are made regarding the amount of biomass that can be sustainably used for this purpose. This article assesses the current knowledge on biomass resource potentials and interrelated factors such as water availability, biodiversity, food demand, energy demand and agricultural commodity markets. A sensitivity analysis of the available information narrows the range of biomass potentials from 0–1500 EJ/yr to approximately 200–500 EJ/yr in 2050. In determining the latter range, water limitations, biodiversity protection and food demand are taken into consideration. Key factors are agricultural efficiency and crop choice. In principle, global biomass potentials could meet up to one third of the projected global energy demand in 2050.
Spuitende boeren maken schimmels levensgevaarlijk voor mensen
Visser, E. de; Verweij, P. ; Kema, G.H.J. - \ 2009
De Volkskrant (2009). - p. Kennis 1 - Kennis 1.
Chapter three Bridging the gaps between design and use: Developing tools to support environmental management and policy
McIntosh, B.S. ; Giupponi, C. ; Voinov, A.A. ; Smith, C. ; Matthews, K.B. ; Monticino, M. ; Kolkman, M.J. ; Crossman, N. ; Ittersum, M.K. van; Haase, D. ; Haase, A. ; Mysiak, J. ; Groot, J.C.J. ; Sieber, S. ; Verweij, P. ; Quinn, N. ; Waeger, P. ; Gaber, N. ; Hepting, D. ; Scholten, H. ; Sulis, A. ; Delden, H. van; Gaddis, E. ; Assaf, H. - \ 2008
In: Developments in integrated environmental assessment / Jakeman, A.J., Voinov, A.A., Rizzoli, A.E., Chen, S.H., Elsevier (Environmental Modelling, Software and Decision Support Volume 3) - ISBN 9780080568867 - p. 33 - 48.
Integrated assessment models, decision support systems (DSS) and Geographic Information Systems (GIS) are examples of a growing number of computer-based tools designed to provide decision and information support to people engaged in formulating and implementing environmental policy and management. It is recognised that environmental policy and management users are often not as receptive to using such tools as desired but that little research has been done to uncover and understand the reasons. There is a diverse range of environmental decision and information support tools (DISTs) with uses including organisational and participatory decision support, and scientific research. The different uses and users of DISTs each present particular needs and challenges to the tool developers. The lack of appreciation of the needs of end-users by developers has contributed to the lack of success of many DISTs. Therefore it is important to engage users and other stakeholders in the tool development process to help bridge the gap between design and use. Good practice recommendations for developers to involve users include being clear about the purpose of the tool, working collaboratively with other developers and stakeholders, and building social and scientific credibility
Assessment of global biomass potentials and their links to food, water, biodiversity, energy demand and economy: Inventory and analysis of existing studies. Supporting document
Dornburg, V. ; Faaij, A. ; Verweij, P. ; Langeveld, H. ; Ven, G.W.J. van de; Wester, P. ; Keulen, H. van; Diepen, K. van; Meeusen, M.J.G. ; Banse, M.A.H. ; Ros, J. ; Vuuren, D. van; Born, G.J. van den; Oorschot, M. van; Smout, F. ; Vliet, J.M. van; Aiking, H. ; Londo, M. ; Mozaffarian, H. ; Smekens, H. - \ 2008
Bilthoven : Milieu- en Natuurplanbureau (WAB report 500102014) - 202 p.
This Supporting Document contains the result of the inventory phase of the study: ¿Biomass Assessment: Assessment of global biomass potentials and their links to food, water, biodiversity, energy demand and materials¿. The study was commissioned and supported by the Netherlands Research Program on Climate Change (NRP-CC), subprogram Scientific Assessment and Policy Analysis (WAB).
Biomas Assessment : Assessment of global biomass potentials and their links to food, water, biodiversity, energy demand and economy. Main report
Dornburg, V. ; Faaij, A. ; Verweij, P. ; Langeveld, H. ; Ven, G.W.J. van de; Wester, P. ; Keulen, H. van; Diepen, K. van; Meeusen, M.J.G. ; Banse, M.A.H. ; Ros, J. ; Vuuren, D. van; Born, G.J. van den; Oorschot, M. van; Smout, F. ; Vliet, J.M. van; Aiking, H. ; Londo, M. ; Mozaffarian, H. ; Smekens, H. - \ 2008
Bilthoven : Milieu- en Natuurplanbureau (WAB report 500102012) - 108 p.
This study provides a comprehensive assessment of global biomass potential estimates, focusing on the various factors affecting these potentials, such as food supplies, water use, biodiversity, energy demands and agro-economics. In addition, a number of studies analysing GHG balances of bioenergy are discussed. After an extensive inventory of recent studies in the different areas (food, water, biodiversity, agro-economics and energy demand); this study integrates the complicated linkages between the various factors, quantifying the consequences of the linkages and knowledge found in the inventory within the limits of the presently available models. The results are translated into an overview of the uncertainties in biomass resource potential estimates and summarises the available knowledge and knowledge gaps. This analysis leads to policy relevant recommendations for sustainable biomass use in the future including R&D needs. Social, legal and institutional aspects of biomass production and use ¿ although of large political relevance ¿ have not been part of this study. Including these aspects might reduce the available biomass potentials compared to technical estimates discussed in this study
Integrating agriculture, forestry and other land use in future climate regimes; methodological issues and plicy options
Trines, E. ; Höhne, N. ; Jung, M. ; Skutsch, M. ; Petsonk, A. ; Silva-Chavez, G. ; Smith, P. ; Nabuurs, G.J. ; Verweij, P. ; Schlamadinger, B. - \ 2006
Bilthoven : MNP (Report 500102002) - 154 p.
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