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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The Missing Middle: Connected action on agriculture and nutrition across global, national and local levels to achieve Sustainable Development Goal 2
Veldhuizen, L.J.L. ; Giller, K.E. ; Oosterveer, P.J.M. ; Brouwer, I.D. ; Janssen, S.J.C. ; Zanten, H.H.E. van; Slingerland, M.A. - \ 2020
Global Food Security 24 (2020). - ISSN 2211-9124 - 6 p.
SDG2 - Food systems - Sustainable agriculture - Food security - Pathways - Stakeholders
Sustainable development goal 2 (SDG 2) challenges the world to connect food production and consumption in a way that matches local contexts and enables everyone to enjoy a healthy diet that is produced sustainably and contributes to the other SDGs. We identify a Missing Middle between food production and consumption, and between globally defined goals and local implementation practices that may hinder progress towards SDG 2. Examples of this Missing Middle and how it can be bridged demonstrate that key challenges should be addressed in a more integrated manner for more effective action on SDG 2. We encourage actors in food provisioning to start addressing the Missing Middle by collaborating with relevant stakeholders in specified cases.
Successful Host Adaptation of IncK2 Plasmids
Rozwandowicz, Marta ; Brouwer, Michael S.M. ; Mughini-Gras, Lapo ; Wagenaar, Jaap A. ; Gonzalez-Zorn, Bruno ; Mevius, Dik J. ; Hordijk, Joost - \ 2019
Frontiers in Microbiology 10 (2019). - ISSN 1664-302X
chicken - conjugation - IncK2 - plasmid - sigma-32

The IncK plasmid group can be divided into two separate lineages named IncK1 and IncK2. IncK2 is found predominantly in poultry while IncK1 was reported in various mammals, including animals and humans. The physiological basis of this distinction is not known. In this manuscript we examined fitness cost of IncK1 and IncK2 plasmids at 37 and 42°C, which resembles mammalian and chicken body temperatures, respectively. We analyzed conjugation frequency, plasmid copy number and plasmid fitness cost in direct competition. Additionally, we measured levels of σ-32 in Escherichia coli carrying either wild type or conjugation-deficient IncK plasmids. The results show that IncK2 plasmids have a higher conjugation frequency and lower copy number at 42°C compared to IncK1. While the overall fitness cost to the host bacterium of IncK2 plasmids was higher than that of IncK1, it was not affected by the temperature while the fitness cost of IncK1 was shown to increase at 42°C compared to 37°C. These differences correlate with an increased expression of σ-32, a regulator of heat-shock protein expression, in E. coli with IncK2 compared to cells containing IncK1. This effect was not seen in cells containing conjugation deficient plasmids. Therefore, it is hypothesized that the assembly of the functional T4S may lead to these increased levels of σ–32. Increased activation of CpxR at 42°C may explain why IncK2 plasmids, and not IncK1, are predominantly found in chicken isolates.

The shufflon of IncI1 plasmids is rearranged constantly during different growth conditions
Brouwer, Mike ; Jurburg, Stephanie ; Harders, Frank ; Kant, Arie ; Mevius, Dik ; Roberts, Adam P. ; Bossers, Alex - \ 2019
Wageningen University & Research
PRJEB30618 - ERP113093 - Escherichia coli
One of the factors that can affect conjugation of IncI1 plasmids, amongst others, is the genetic region known as the shufflon. This multiple inversion system modifies the pilus tip proteins used during conjugation, thus affecting the affinity for different recipient cells. Although recombination is known to occur in in vitro conditions, little is known about the regulation and the extend of recombination that occurs. To measure the recombination of the shufflon, we have amplified the entire shufflon region and sequenced the amplicons using nanopore long-read sequencing. This method was effective to determine the order of the segments of the shufflon and allow for the analysis of the shufflon variants that are present in a heterogeneous pool of templates. Analysis was performed over different growth phases and after addition of cefotaxime. Furthermore, analysis was performed in different E. coli host cells to determine if recombination is likely to be influenced. Recombination of the shufflon was constantly ongoing in all conditions that were measured, although no differences in the amount of different shufflon variants or the rate at which novel variants were formed could be found. As previously reported, some variants were abundant in the population while others were scarce. This leads to the conclusion that the shufflon is continuously recombining at a constant rate, or the method used here was not sensitive enough to detect differences in this rate. For one of the plasmids, the host cell appears to have an effect on the specific shufflon variants that were formed which were not predominant in another host, indicating that host factors may be involved. As previously reported, the pilV-A and pilV-A’ ORFs are formed at higher frequencies than other pilV ORFs. These results demonstrate that the recombination that occurs within the shufflon is not random. While any regulation of the shufflon affected by these in vitro conditions could not be revealed, the method of amplifying large regions for long-read sequencing for the analysis of multiple inversion systems proved effective.
Predicting strawberry shelf life based on input quality : GreenCHAINge Fruit & Vegetables WP3
Brouwer, Bastiaan ; Mensink, Manon ; Woltering, Ernst ; Pereira da Silva, Fatima - \ 2019
Wageningen : Wageningen Food & Biobased Research (Report / Wageningen Food & Biobased Research 1912) - 31
Postharvest quality of different papaya cultivars : GreenCHAINge Fruit & Vegetables WP2
Brouwer, Bastiaan ; Nijenhuis-de Vries, Mariska ; Pereira da Silva, Fátima I. ; Harchioui, Najim El ; Gabriëls, Suzan - \ 2019
Wageningen : Wageningen Food & Biobased Research (Rapport / Wageningen Food & Biobased Research 1916) - 40
Assessing quality and reducing batch variety in Golden Honeydew Melons : GreenCHAINge Fruit & Vegetables WP2
Brouwer, Bastiaan ; Gabriëls, Suzan ; Montsma, Matthijs - \ 2019
Wageningen : Wageningen Food & Biobased Research (Report / Wageningen Food & Biobased Research 1895) - 25
50 years of nutrition research. What next?
Feskens, Edith ; Kersten, Sander ; Brouwer, Inge - \ 2019
Eindrapportage Ondersteuningsfaciliteit Voedselzekerheid : 2017 - 2018
Brouwer, J.H. - \ 2019
Wageningen : Wageningen Centre for Development Innovation (WCDI-19-063 ) - 30 p.
The FAIR Funder pilot programme to make it easy for funders to require and for grantees to produce FAIR Data
Wittenburg, Peter ; Sustkova, Hana Pergl ; Montesanti, Annalisa ; Bloemers, Margreet ; Waard, S.H. de; Musen, Mark A. ; Graybeal, John ; Hettne, Kristina M. ; Jacobsen, Annika ; Pergl, Robert ; Hooft, Rob W.W. ; Staiger, Christine ; Gelder, Celia W.G. van; Knijnenburg, Sebastiaan L. ; Arkel, A.C. van; Meerman, Bert ; Wilkinson, Mark D. ; Sansone, S.A. ; Rocca-Serra, Philippe ; McQuilton, Peter ; Gonzalez-Beltran, Alejandra N. ; Aben, G.J.C. ; Henning, P. ; Menezes Alencar, Maria Simone de; Ribeiro, C. ; Silva, C.R.L. ; Sayao, Luis ; Sales, Luana ; Veiga, Viviane ; Lima, Jefferson ; Dib, Simone ; Xavier dos Santos, Paula dos; Murtinho, R. ; Tendel, Jakob ; Schaap, B.F. ; Brouwer, P.M. ; Gavai, A.K. ; Bouzembrak, Yamine ; Marvin, Hans J.P. ; Mons, Albert ; Kuhn, Tobias ; Gambardella, A.A. ; Miranda Azevedo, Ricardo de; Muhonen, Vesa ; Naald, Mira van der; Smit, N.W. ; Buys, M.J. ; Bruin, Taco F. de; Schoots, Fieke ; Goodson, H.J.E. ; Rzepa, Henry S. ; Jeffery, Keith G. ; Shanahan, Hugh P. ; Axton, M. ; Tkachenko, Veniamin ; Deslattes Maya, Anne ; Meyers, Natalie ; Conlon, Michael ; Haak, Laurel L. ; Schultes, Erik - \ 2019
arXiv - 13 p.
There is a growing acknowledgement in the scientific community of the importance of making experimental data machine findable, accessible, interoperable, and reusable (FAIR). Recognizing that high quality metadata are essential to make datasets FAIR, members of the GO FAIR Initiative and the Research Data Alliance (RDA) have initiated a series of workshops to encourage the creation of Metadata for Machines (M4M), enabling any self-identified stakeholder to define and promote the reuse of standardized, comprehensive machine-actionable metadata. The funders of scientific research recognize that they have an important role to play in ensuring that experimental results are FAIR, and that high quality metadata and careful planning for FAIR data stewardship are central to these goals. We describe the outcome of a recent M4M workshop that has led to a pilot programme involving two national science funders, the Health Research Board of Ireland (HRB) and the Netherlands Organisation for Health Research and Development (ZonMW). These funding organizations will explore new technologies to define at the time that a request for proposals is issued the minimal set of machine-actionable metadata that they would like investigators to use to annotate their datasets, to enable investigators to create such metadata to help make their data FAIR, and to develop data-stewardship plans that ensure that experimental data will be managed appropriately abiding by the FAIR principles. The FAIR Funders design envisions a data-management workflow having seven essential stages, where solution providers are openly invited to participate. The initial pilot programme will launch using existing computer-based tools of those who attended the M4M Workshop.
Inzameling plastic groeit, maar we leveren ook veel onbruikbaar materiaal in
Brouwer, M.T. - \ 2019
Eating behaviour of adolescent schoolgirls in Malang, East Java: A qualitative study
Sondari, Mulia ; Brouwer, Inge ; Februhartanty, Judhiastuty - \ 2019
Malaysian Journal of Nutrition 25 (2019). - ISSN 1394-035X - p. S87 - S96.
Adolescent schoolgirls - Eating behaviour - Indonesia - Malang

Introduction: Poor eating behaviour is known to lead to nutritional deficiency among adolescents. At the same time, poor eating behaviour characterised by dietary excesses could lead to overweight and obesity. The present study aimed to explore the eating behaviour of adolescent schoolgirls in Malang, East Java Province, Indonesia, and to determine the factors that influenced their eating behaviour. Methods: This was a qualitative study, guided by the Social Cognitive Theory (SCT), which focused on individual and environmental influences to better understand health-related behaviours, such as eating behaviour. Triangulation was applied to the study subjects (adolescent girls, their mothers, and school staff). The methods used included individual in-depth interviews and focus group discussions. Qualitative data analyses were performed using Atlas.ti 7. Results: Most participants showed poor eating behaviour that was characterised by skipping breakfast, frequent consumption of fast foods and the consumption of local food with low nutrient content. Their eating behaviour was influenced by individual factors including personal preferences, the price of the food, and by environmental factors, such as the family, school and neighbourhood. Conclusion: Our findings showed that adolescent girls in Malang appeared to be aware of healthy eating but they showed unsatisfactory eating practices. Interventions are suggested to improve the poor eating behaviour of the adolescents toward avoiding malnutrition consequences.

Patterns of community assembly in the developing chicken microbiome reveal rapid primary succession
Jurburg, Stephanie D. ; Brouwer, Michael S.M. ; Ceccarelli, Daniela ; Goot, Jeanet van der; Jansman, Alfons J.M. ; Bossers, Alex - \ 2019
MicrobiologyOpen 8 (2019)9. - ISSN 2045-8827 - p. e00821 - e00821.
broiler - chicken microbiome - community assembly - fecal microbiome - primary succession

The fine-scale temporal dynamics of the chicken gut microbiome are unexplored, but thought to be critical for chicken health and productivity. Here, we monitored the fecal microbiome of healthy chickens on days 1-7, 10, 14, 21, 28, and 35 after hatching, and performed 16S rRNA amplicon sequencing in order to obtain a high-resolution census of the fecal microbiome over time. In the period studied, the fecal microbiomes of the developing chickens showed a linear-log increase in community richness and consistent shifts in community composition. Three successional stages were detected: the first stage was dominated by vertically transmitted or rapidly colonizing taxa including Streptococcus and Escherichia/Shigella; in the second stage beginning on day 4, these taxa were displaced by rapid-growing taxa including Lachnospiraceae and Ruminococcus-like species variants; and in the third stage, starting on day 10, slow-growing, specialist taxa including Candidatus Arthrobacter and Romboutsia were detected. The patterns of displacement and the previously reported ecological characteristics of many of the dominant taxa observed suggest that resource competition plays an important role in regulating successional dynamics in the developing chicken gut. We propose that the boundaries between successional stages (3-4 and 14-21 days after hatching) may be optimal times for microbiome interventions.

The impact of collection portfolio expansion on key performance indicators of the Dutch recycling system for Post-Consumer Plastic Packaging Waste, a comparison between 2014 and 2017
Brouwer, Marieke ; Picuno, Caterina ; Thoden van Velzen, Eggo U. ; Kuchta, Kerstin ; Meester, Steven De; Ragaert, Kim - \ 2019
Waste Management 100 (2019). - ISSN 0956-053X - p. 112 - 121.
Collection portfolio expansion - Net recycling yields - Polymeric purity of recycled products - Post-consumer plastic packaging waste - Recycling

The recycling network of post-consumer plastic packaging waste (PCPPW) was studied for the Netherlands in 2017 with material flow analysis (MFA) and data reconciliation techniques. In comparison to the previous MFA of the PCPPW recycling network in 2014, the predominant change is the expansion of the collection portfolio from only plastic packages to plastic packages, beverage cartons and metal objects. The analysis shows that the amounts of recycled plastics products (as main washed milled goods) increased from 75 to 103 Gg net and the average polymeric purity of the recycled products remained nearly constant. Furthermore, the rise in the amounts of recycled products was accompanied with a rise in the total amount of rejected materials at cross docking facilities and sorting residues at the sorting facilities. This total amount grew from 19 Gg in 2014 to 70 Gg gross in 2017 and is over-proportional to the rise in recycled products. Hence, there is a clear trade-off between the growth in recycled plastics produced and the growth in rejects and residues. Additionally, since the polymeric purity of the recycled plastics did not significantly improve during the last years, most of the recycled plastics from PCPPW are still only suited for open-loop recycling. Although this recycling system for PCPPW is relatively advanced in Europe, it cannot be considered circular, since the net recycling yield is only 26 ± 2% and the average polymeric purity of the recycled plastics is 90 ± 7%.

Diet quality indices for research in low- and middle-income countries: A systematic review
Trijsburg, Laura ; Talsma, Elise F. ; Vries, Jeanne H.M. De; Kennedy, Gina ; Kuijsten, Anneleen ; Brouwer, Inge D. - \ 2019
Nutrition Reviews 77 (2019)8. - ISSN 0029-6643 - p. 515 - 540.
diet index - diet quality - dietary assessment - food systems research - low- and middle-income countries

Context: Dietary intake research has increasingly focused on improving diet quality in low- and middle-income countries (LMICs). Accompanying this is the need for sound metrics to assess diet quality. Objective: This systematic literature review aims to describe existing diet quality indices for general populations and highlights recommendations for developing such indices for food system research in LMICs. Data sources: Three electronic databases were searched for papers published between January 2008 and December 2017. Data extraction: Articles published in English and describing the development of an index to measure overall diet quality, irrespective of whether they were for high-income countries or LMICs, were included. Data analysis: Eighty-one indices were identified, over two thirds were based on national dietary guidelines from high-income countries. Of the 3 key diet quality dimensions, "diversity" was included in all 18 indices developed for LMICs, "moderation" was captured by most, and "nutrient adequacy" was included 4 times. Conclusions: Indices need to be developed that include all dimensions, include foods and/or food groups rather than nutrients, use an optimal range for individual components in the score, and express the intake of healthy and unhealthy components separately. Importantly, validation of the index should be part of its development. 2019 The Author(s) 2019. Published by Oxford University Press on behalf of the International Life Sciences Institute.

Prenatal infant feeding intentions and actual feeding practices during the first six months postpartum in rural Rwanda: a qualitative, longitudinal cohort study
Ahishakiye, J. ; Bouwman, L.I. ; Vaandrager, L. ; Koelen, M.A. ; Brouwer, I.D. - \ 2019
- 1 p.
Naar Drachten, dus twee zakken afval mee
Thoden van Velzen, Ulphard ; Brouwer, Marieke ; Alvarado Chacon, Fresia - \ 2019
Energie- en waterbesparing: Hoe zit het met de actiebereidheid van Nederlanders?
Brouwer, Stijn ; Vliet, B.J.M. van; Fujita, Y. ; Grijp, N. van der - \ 2019
Water Governance 2019 (2019)2. - ISSN 2211-0224 - p. 24 - 30.
Luchtvervuiling, natuuraantasting, en vooral klimaatverandering zijn vrijwel dagelijks voorpaginanieuws. Voor de aanpak ervan kijkt de overheid naar bedrijven, maatschappelijke organisaties en ook burgers. Het afgelopen decennium deden termen als energieke samenleving (Hajer, 2011), participatiesamenleving (Troonrede 2013) en doe-democratie (Ministerie van Binnenlandse Zaken, 2013) hun intrede. Beleidsmatig krijgt de maatschappelijke betrokkenheid vorm via bijvoorbeeld initiatieven verpakt als Green Deals1 (Gooskens et al, 2016), Klimaattafels en Regionale Energie Strategieën.2 Zo is het volgens de afspraken in het ontwerp Klimaatakkoord (uit eind 2018) de bedoeling dat op termijn 50% van de elektriciteitsproductie in handen is van lokale partijen.3,4 De burger wordt hierin niet alleen meer gezien als consument, afnemer of belastingbetaler, maar als medeverantwoordelijke voor de (duurzame) productie, beheer en opslag van met name elektriciteit. Ook in andere sectoren zoals water, voedsel en transport is deze tendens zichtbaar. Burgers worden uitgedaagd na te denken over de implicaties voor milieu en klimaat bij hun uiteenlopende keuzes rond voedsel (‘een dagje zonder vlees’), manier van reizen (‘vliegschaamte’), verwarmen (‘graadje lager’), koken (‘van het gas af’) tot tuininrichting (‘onttegelen’) en waterbeheer (‘minuutje korter douchen’).
Optimizing young child nutrition in Ethiopia : the effectiveness, acceptance and risks of micronutrient powders
Hafebo, A.S. - \ 2019
Wageningen University. Promotor(en): E.J.M. Feskens; I.D. Brouwer; S.J.M. Osendarp. - Wageningen : Wageningen University - ISBN 9789463439626 - 250 p.
Bloemisten verkopen nog altijd het ‘groene monster’, de Japanse duizendknoop
Dijk, Chris van - \ 2019
Hergebruiken of vervangen?
Brouwer, M.T. ; Bolck, C.H. - \ 2019
In: Plastic: Van zegen tot vloek / van Everdingen, Jannes, van Donk, Ellen, Poolen, Daniël, Buiter, Rob, Den Haag : Stichting Biowetenschappen en Maatschappij (Cahier Biowetenschappen en Maatschappij 2) - ISBN 9789073196957 - p. 64 - 73.
Volgens het ministerie van Infrastructuur en Waterstaat, zou Nederland
rond 2050 ‘afvalvrij’ moeten leven. Recycling van plastic is wat dat betreft
een hoopvolle optie, zegt de Wageningse onderzoekster Marieke Brouwer.
Ook biologisch afbreekbare plastics kunnen een rol spelen, zegt haar
collega Christiaan Bolck, ‘al is over die term de nodige verwarring.’
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