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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    Differences in energy utilization efficiency of digested protein, fat and carbohydrates in snakehead (Channa striata)
    Phan, L.T.T. ; Masagounder, K. ; Mas-Muñoz, J. ; Schrama, J.W. - \ 2021
    Aquaculture 532 (2021). - ISSN 0044-8486
    Bioenergetics: Net energy - Channa striata - Digestible nutrients - Energy efficiency - Energy evaluation - Energy metabolism
    This study aimed to assess if the relationship between digestible energy (DE) intake and energy retention (RE) is dependent on dietary macronutrient composition; and to quantify the energy utilization efficiency of digested protein (dCP), fat (dFat) and carbohydrates (dCarb) for growth in snakehead (Channa striata). This was achieved by conducting a 42-day feeding trial on snakehead (29.1 g) with a 4 × 2 factorial design. Nutrient digestibility, nitrogen and energy balances were measured. Four diets were formulated, which had contrasting levels of protein, fat and carbohydrates. Each diet was tested at 2 feeding levels, in order to estimate within each feeding level the relationship between DE and RE. Snakehead (a carnivore) is well able to digest starch. Starch digestibility ranged from 93% to 99.5%. The linear relationship between RE and DE intake was affected by diet. Diets with a high Carb content had a lower slope (0.45 versus 0.53 to 0.56), which indicates that DE is less efficiently used for RE. Multiple regression of RE as a function of dCP, dFat and dCarb (in g.kg-0.8.d−1) intake was also applied to estimate the energy utilization efficiency of each digestible macronutrient. A linear relationship was found between RE and dCP, dFat and dCarb. Snakehead are a lean fish, which we observed prioritise digestible protein intake for protein gain. The estimated energy efficiencies of dCP, dFat and dCarb (respectively, kNE;dCP, kNE;dFat, and kNE;dCarb) for energy retention were 53, 79 and 5%, respectively. Snakehead can digest starch at the high level but cannot metabolise digested starch for growth efficiently.
    Tell me what you imagine and I will tell you what you want
    Munoz Vilches, N.C. - \ 2020
    Wageningen : Marketing and Consumer Behaviour (MCB)
    Study about Food Choice Determinants According to Six Types of Conditioning Motivations in a Sample of 11,960 Participants
    Guina, Raquel P.F. ; Bartkiene, Elena ; Ucs, Viktória S. ; Tarcea, Monica ; Ljubičic´, Marija ; Ernelič-Bizjak, Maša C. ; Isoldi, Kathy ; El-Kenawy, Ayman ; Ferreira, Vanessa ; Straumite, Evita ; Korzeniowska, Małgorzata ; Vittadini, Elena ; Leal, Marcela ; Frez-Munõz, Lucia ; Papageorgiou, Maria ; Djekíc, Ilija ; Ferreira, Manuela ; Correia, Paula ; Cardoso, Ana Paula ; Duarte, Joaõ - \ 2020
    Foods 9 (2020)7. - ISSN 2304-8158
    Eating determinants - Emotions - Feeding behavior - Healthy diet - Instrument validation - Socio-cultural environment

    Many aspects linked to personal characteristics, society and culture constitute some of the motivators that drive food choice. The aim of this work was to determine in what extent the eating behaviors of individuals are shaped by six different types of determinants, namely: Health, emotions, price and availability, society and culture, environment and politics, and marketing and commercials. This is a descriptive cross-sectional study, involving a non-probabilistic sample of 11,960 participants from 16 countries. The objective of this work was to validate the questionnaire, so as to make it suitable for application in different contexts and different countries. For that, six scales were considered for validation by confirmatory factor analysis with structural equation modelling. The obtained results showed that the six individual scales evaluated presented good or very good fitting indices, with saturation in goodness-of-fit index in all cases. The values of chi-square ratio were 6.921 (for health), 0.987 (environment), 0.610 (emotions) and 0.000 in the remaining cases (convenience, society, marketing). Furthermore, the fit was perfect, with saturation for all indices, in three of the six models (convenience, society and marketing). The results of this wok allowed the validation of the six scales, and the assessing of different types of factors that can influence food choices and eating behaviors, namely in the categories: Health, emotions, price and availability, society and culture, environment and politics, and marketing and commercials.Â

    Pleasure or Health? The Role of Mental Simulation in Desire and Food Choices
    Muñoz-Vilches, Naomí C. ; Trijp, Hans C.M. Van; Piqueras-Fiszman, Betina - \ 2020
    Foods 9 (2020)8. - ISSN 2304-8158
    Many times, desire possesses us and impedes us from making healthier food choices. From a grounded cognition perspective, we investigated the role of two types of mental simulation (process and outcome) in desire and food choice to understand the processes that modulate them and find strategies that encourage healthier food choices. In addition to these explicit measures, we used two implicit methods to measure approach-avoidance tendencies and visual attention. Our results showed that imagining the consumption of vice and virtue foods increased desire for the product imagined and seemed to favor the choice of a vice food. However, at an implicit level, the motivation to approach and avoid food products was neutral. Imagining the post-consumption of a vice food decreased desire for the imagined food and although it tempted people at an implicit level, it made people more prone to choose a virtue food. When a vice food was imagined, attentional bias increased for all types of food regardless of the simulation. When a virtue food was imagined, there was no effect on choice, motivation nor attentional bias. In conclusion, simply imagining certain foods is a potential solution for promoting healthier and thoughtful choices.
    Data and code of the paper "Deploying machine learning to assist digital humanitarians: making image annotation in OpenStreetMap more efficient" submitted to IJGIS
    Vargas Munoz, John ; Tuia, Devis ; Falcão, Alexandre X. - \ 2020
    University of Campinas
    image annotation algorithms - OpenStreetMap data
    Animal models for COVID-19
    Munoz-Fontela, César ; Dowling, William E. ; Funnell, Simon G.P. ; Gsell, Pierre S. ; Riveros Balta, Ximena ; Albrecht, Randy A. ; Andersen, Hanne ; Baric, Ralph S. ; Carroll, Miles W. ; Cavaleri, Marco ; Qin, Chuan ; Crozier, Ian ; Dallmeier, Kai ; Waal, Leon de; Wit, Emmie de; Delang, Leen ; Dohm, Erik ; Duprex, W.P. ; Falzarano, Darryl ; Finch, Courtney L. ; Frieman, Matthew B. ; Graham, Barney S. ; Gralinski, Lisa ; Guilfoyle, Kate ; Haagmans, Bart L. ; Hamilton, Geraldine A. ; Hartman, Amy L. ; Herfst, Sander ; Kaptein, Suzanne J.F. ; Klimstra, William ; Knezevic, Ivana ; Krause, Phillip R. ; Kuhn, Jens H. ; Grand, Roger Le; Lewis, Mark ; Liu, Wen-Chun ; Maisonnasse, Pauline ; McElroy, Anita K. ; Munster, Vincent ; Oreshkova, N.D. ; Rasmussen, Angela L. ; Rocha-Pereira, Joana ; Rockx, Barry ; Rodriguez, Estefania ; Rogers, Thomas ; Salguero, Francisco J. ; Schotsaert, Michael ; Stittelaar, Koert ; Thibaut, Hendrik Jan ; Tseng, Chien-Te ; Vergara-Alert, Júlia ; Beer, Martin ; Brasel, Trevor ; Chan, Jasper F.W. ; Garcia-Sastre, Adolfo ; Neyts, Johan ; Perlman, Stanley ; Reed, Douglas S. ; Richt, Jürgen A. ; Roy, Chad J. ; Segalés, Joaquim ; Vasan, Seshadri S. ; Henao-Restrepo, Ana Maria ; Barouch, Dan H. - \ 2020
    Nature 586 (2020)7830. - ISSN 0028-0836 - p. 509 - 515.
    Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is the aetiological agent of coronavirus disease 2019 (COVID-19), an emerging respiratory infection caused by the introduction of a novel coronavirus into humans late in 2019 (first detected in Hubei province, China). As of 18 September 2020, SARS-CoV-2 has spread to 215 countries, has infected more than 30 million people and has caused more than 950,000 deaths. As humans do not have pre-existing immunity to SARS-CoV-2, there is an urgent need to develop therapeutic agents and vaccines to mitigate the current pandemic and to prevent the re-emergence of COVID-19. In February 2020, the World Health Organization (WHO) assembled an international panel to develop animal models for COVID-19 to accelerate the testing of vaccines and therapeutic agents. Here we summarize the findings to date and provides relevant information for preclinical testing of vaccine candidates and therapeutic agents for COVID-19.
    Deploying machine learning to assist digital humanitarians: making image annotation in OpenStreetMap more efficient
    Vargas Muñoz, John E. ; Tuia, Devis ; Falcão, Alexandre X. - \ 2020
    International Journal of Geographical Information Science (2020). - ISSN 1365-8816 - 21 p.
    Locating populations in rural areas of developing countries has attracted the attention of humanitarian mapping projects since it is important to plan actions that affect vulnerable areas. Recent efforts have tackled this problem as the detection of buildings in aerial images. However, the quality and the amount of rural building annotated data in open mapping services like OpenStreetMap (OSM) is not sufficient for training accurate models for such detection. Although these methods have the potential of aiding in the update of rural building information, they are not accurate enough to automatically update the rural building maps. In this paper, we explore a human-computer interaction approach and propose an interactive method to support and optimize the work of volunteers in OSM. The user is asked to verify/correct the annotation of selected tiles during several iterations and therefore improving the model with the new annotated data. The experimental results, with simulated and real user annotation corrections, show that the proposed method greatly reduces the amount of data that the volunteers of OSM need to verify/correct. The proposed methodology could benefit humanitarian mapping projects, not only by making more efficient the process of annotation but also by improving the engagement of volunteers.
    Halotolerance mechanisms of the methanotroph Methylomicrobium alcaliphilum
    Bordel, Sergio ; Pérez, Rebeca ; Rodríguez, Elisa ; Cantera, Sara ; Fernández-González, Nuria ; Martínez, María A. ; Muñoz, Raúl - \ 2020
    Biotechnology and Bioengineering 117 (2020)11. - ISSN 0006-3592 - p. 3459 - 3474.
    ectoine - halotolerance - metabolism - metanotrophy - respiratory chains - RNA-seq

    Methylomicrobium alcaliphilum is an alkaliphilic and halotolerant methanotroph. The physiological responses of M. alcaliphilum to high NaCl concentrations, were studied using RNA sequencing and metabolic modeling. This study revealed that M. alcaliphilum possesses an unusual respiratory chain, in which complex I is replaced by a Na+ extruding NQR complex (highly upregulated under high salinity conditions) and a Na+ driven adenosine triphosphate (ATP) synthase coexists with a conventional H+ driven ATP synthase. A thermodynamic and metabolic model showing the interplay between these different components is presented. Ectoine is the main osmoprotector used by the cells. Ectoine synthesis is activated by the transcription of an ect operon that contains five genes, including the ectoine hydroxylase coding ectD gene. Enzymatic tests revealed that the product of ectD does not have catalytic activity. A new Genome Scale Metabolic Model for M. alcaliphilum revealed a higher flux in the oxidative branch of the pentose phosphate pathway leading to NADPH production and contributing to resistance to oxidative stress.

    OpenStreetMap: Challenges and Opportunities in Machine Learning and Remote Sensing
    Vargas Munoz, John E. ; Srivastava, Shivangi ; Tuia, Devis ; Falcao, Alexandre X. - \ 2020
    IEEE Geoscience and Remote Sensing Magazine (2020). - ISSN 2473-2397
    Climate change impacts on agricultural suitability and yield reduction in a Mediterranean region
    Abd-Elmabod, Sameh K. ; Muñoz-Rojas, Miriam ; Jordán, Antonio ; Anaya-Romero, Mariá ; Phillips, Jonathan D. ; Laurence, Jones ; Zhang, Zhenhua ; Pereira, Paulo ; Fleskens, Luuk ; Ploeg, Martine van der; Rosa, Diego de la - \ 2020
    Geoderma 374 (2020). - ISSN 0016-7061
    Crop yield - Decision support systems - GIS - Global warming - Land suitability

    Climate change impacts are a serious threat to food provisioning, security and the economy. Thus, assessing agricultural suitability and yield reduction under climate change is crucial for sustainable agricultural production. In this study, we used two sub-models of the agro-ecological decision support system MicroLEIS (Terraza and Cervatana) to evaluate the impacts of climate change on land capability and yield reduction or wheat and sunflower as major rainfed crops in different Mediterranean soil types (in Andalucia, Southern Spain). The Terraza sub-model provides an experimental prediction for the bioclimate deficiency and yield reduction, while the Cervatana sub-model predicts the general land use suitability for specific agricultural uses. Sixty-two districts in Southern Spain were modeled and mapped using soil data and the A1B climate scenario (balanced scenario) for three 30-year periods ending in 2040, 2070 and 2100, respectively. Our results showed that the majority of agricultural soils were suitable for wheat production, and less for sunflowers, especially under projected climate change scenarios. Extreme impacts of climate change were observed in the soil types Typic Xerofluvents and Calcic Haploxerepts, where the land capability was reduced from Good and Moderate classes to the Marginal class. This was especially observed in sunflower crops by 2100. Yield reduction of sunflower was much higher than the reduction for wheat, especially under the projected climate periods, where the results for 2100 showed the severest effect on crop yields with about 95% of the sunflower area showing yield reductions. This high variability of the evaluation results demonstrates the importance of using soil factors, climate and crop information in conjunction in decision-making regarding the formulation of site-specific soil use and management strategies.

    Prevalent root-derived phenolics drive shifts in microbial community composition and prime decomposition in forest soil
    Zwetsloot, Marie ; Munoz Ucros, Juana ; Wickings, Kyle ; Wilhelm, Roland C. ; Sparks, Jed ; Buckley, Daniel H. ; Bauerle, Taryn L. - \ 2020
    Soil Biology and Biochemistry 145 (2020). - ISSN 0038-0717
    Phenolic compounds perform various functions in soil ranging from microbial substrate to toxin and form the basis of several plant-mediated processes. The aim of this study was to investigate how phenolics commonly exuded by tree roots influence soil organic matter (SOM) decomposition and interact with other labile forms of carbon (C) abundant in root exudates. Therefore, we performed a 38-day incubation experiment and assessed whether phenolic compounds (benzoic acid, caffeic acid and catechin) facilitated or inhibited SOM decomposition in a glucose-amended forest soil. Changes in decomposition, substrate use, fungal and bacterial community composition, and microbial abundance and activity were measured over time using 13C-stable-isotope tracing, DNA-based molecular methods and enzyme assays. Our findings showed that phenolics inhibited microbial activity and abundance to varying degrees. Yet, benzoic acid was the only compound producing a substantial priming effect leading to a 21% increase in SOM decomposition, which was amplified in glucose-amended soils. This stimulation in microbial activity was associated with an increase in β-1,4-glucosidase activity and the bacterial genera Paraburkholderia and Caballeronia of the Burkholderiaceae family. Phenolics drove microbial community shifts in glucose-amended soils with negligible interactive effects. In conclusion, phenolic priming of SOM decomposition is associated with microbial community shifts and amplified in the presence of glucose. This evidence emphasizes the need for considering phenolics and interactions among root exudates as priming mechanisms in the rhizosphere and other soil environments where aromatics and phenolic compounds are abundant.
    Cumulative Burden of Colorectal Cancer–Associated Genetic Variants Is More Strongly Associated With Early-Onset vs Late-Onset Cancer
    Archambault, Alexi N. ; Su, Yu Ru ; Jeon, Jihyoun ; Thomas, Minta ; Lin, Yi ; Conti, David V. ; Win, Aung Ko ; Sakoda, Lori C. ; Lansdorp-Vogelaar, Iris ; Peterse, Elisabeth F.P. ; Zauber, Ann G. ; Duggan, David ; Holowatyj, Andreana N. ; Huyghe, Jeroen R. ; Brenner, Hermann ; Cotterchio, Michelle ; Bézieau, Stéphane ; Schmit, Stephanie L. ; Edlund, Christopher K. ; Southey, Melissa C. ; MacInnis, Robert J. ; Campbell, Peter T. ; Chang-Claude, Jenny ; Slattery, Martha L. ; Chan, Andrew T. ; Joshi, Amit D. ; Song, Mingyang ; Cao, Yin ; Woods, Michael O. ; White, Emily ; Weinstein, Stephanie J. ; Ulrich, Cornelia M. ; Hoffmeister, Michael ; Bien, Stephanie A. ; Harrison, Tabitha A. ; Hampe, Jochen ; Li, Christopher I. ; Schafmayer, Clemens ; Offit, Kenneth ; Pharoah, Paul D. ; Moreno, Victor ; Lindblom, Annika ; Wolk, Alicja ; Wu, Anna H. ; Li, Li ; Gunter, Marc J. ; Gsur, Andrea ; Keku, Temitope O. ; Pearlman, Rachel ; Bishop, D.T. ; Castellví-Bel, Sergi ; Moreira, Leticia ; Vodicka, Pavel ; Kampman, Ellen ; Giles, Graham G. ; Albanes, Demetrius ; Baron, John A. ; Berndt, Sonja I. ; Brezina, Stefanie ; Buch, Stephan ; Buchanan, Daniel D. ; Trichopoulou, Antonia ; Severi, Gianluca ; Chirlaque, María Dolores ; Sánchez, Maria José ; Palli, Domenico ; Kühn, Tilman ; Murphy, Neil ; Cross, Amanda J. ; Burnett-Hartman, Andrea N. ; Chanock, Stephen J. ; Chapelle, Albert de la; Easton, Douglas F. ; Elliott, Faye ; English, Dallas R. ; Feskens, Edith J.M. ; FitzGerald, Liesel M. ; Goodman, Phyllis J. ; Hopper, John L. ; Hudson, Thomas J. ; Hunter, David J. ; Jacobs, Eric J. ; Joshu, Corinne E. ; Küry, Sébastien ; Markowitz, Sanford D. ; Milne, Roger L. ; Platz, Elizabeth A. ; Rennert, Gad ; Rennert, Hedy S. ; Schumacher, Fredrick R. ; Sandler, Robert S. ; Seminara, Daniela ; Tangen, Catherine M. ; Thibodeau, Stephen N. ; Toland, Amanda E. ; Duijnhoven, Franzel J.B. van; Visvanathan, Kala ; Vodickova, Ludmila ; Potter, John D. ; Männistö, Satu ; Weigl, Korbinian ; Figueiredo, Jane ; Martín, Vicente ; Larsson, Susanna C. ; Parfrey, Patrick S. ; Huang, Wen Yi ; Lenz, Heinz Josef ; Castelao, Jose E. ; Gago-Dominguez, Manuela ; Muñoz-Garzón, Victor ; Mancao, Christoph ; Haiman, Christopher A. ; Wilkens, Lynne R. ; Siegel, Erin ; Barry, Elizabeth ; Younghusband, Ban ; Guelpen, Bethany Van; Harlid, Sophia ; Zeleniuch-Jacquotte, Anne ; Liang, Peter S. ; Du, Mengmeng ; Casey, Graham ; Lindor, Noralane M. ; Marchand, Loic Le; Gallinger, Steven J. ; Jenkins, Mark A. ; Newcomb, Polly A. ; Gruber, Stephen B. ; Schoen, Robert E. ; Hampel, Heather ; Corley, Douglas A. ; Hsu, Li ; Peters, Ulrike ; Hayes, Richard B. - \ 2020
    Gastroenterology 158 (2020)5. - ISSN 0016-5085 - p. 1274 - 1286.e12.
    Colon Cancer - EOCRC - Penetrance - SNP

    Background & Aims: Early-onset colorectal cancer (CRC, in persons younger than 50 years old) is increasing in incidence; yet, in the absence of a family history of CRC, this population lacks harmonized recommendations for prevention. We aimed to determine whether a polygenic risk score (PRS) developed from 95 CRC-associated common genetic risk variants was associated with risk for early-onset CRC. Methods: We studied risk for CRC associated with a weighted PRS in 12,197 participants younger than 50 years old vs 95,865 participants 50 years or older. PRS was calculated based on single nucleotide polymorphisms associated with CRC in a large-scale genome-wide association study as of January 2019. Participants were pooled from 3 large consortia that provided clinical and genotyping data: the Colon Cancer Family Registry, the Colorectal Transdisciplinary Study, and the Genetics and Epidemiology of Colorectal Cancer Consortium and were all of genetically defined European descent. Findings were replicated in an independent cohort of 72,573 participants. Results: Overall associations with CRC per standard deviation of PRS were significant for early-onset cancer, and were stronger compared with late-onset cancer (P for interaction = .01); when we compared the highest PRS quartile with the lowest, risk increased 3.7-fold for early-onset CRC (95% CI 3.28–4.24) vs 2.9-fold for late-onset CRC (95% CI 2.80–3.04). This association was strongest for participants without a first-degree family history of CRC (P for interaction = 5.61 × 10–5). When we compared the highest with the lowest quartiles in this group, risk increased 4.3-fold for early-onset CRC (95% CI 3.61–5.01) vs 2.9-fold for late-onset CRC (95% CI 2.70–3.00). Sensitivity analyses were consistent with these findings. Conclusions: In an analysis of associations with CRC per standard deviation of PRS, we found the cumulative burden of CRC-associated common genetic variants to associate with early-onset cancer, and to be more strongly associated with early-onset than late-onset cancer, particularly in the absence of CRC family history. Analyses of PRS, along with environmental and lifestyle risk factors, might identify younger individuals who would benefit from preventive measures.

    Comparative assessment of two biotrickling filters for siloxanes removal: Effect of the addition of an organic phase
    Pascual, Celia ; Cantera, Sara ; Muñoz, Raúl ; Lebrero, Raquel - \ 2020
    Chemosphere 251 (2020). - ISSN 0045-6535
    Biogas upgrading - Biotrickling filter - Silicone oil - Siloxanes - Two-phase partitioning bioreactor

    Biogas produced at wastewater treatment plants and landfills contains trace levels of volatile methyl siloxanes (VMS) that are responsible for abrasion, corrosion and erosion of equipment during biogas storage and combustion. This research comparatively evaluated the removal of the most common VMS (L2, L3, D4, and D5) under aerobic conditions in a conventional biotrickling filter (BTF) and a two-phase partitioning BTF (TP-BTF) with silicone oil (at 30%) as organic phase. The TP-BTF showed a superior performance compared to the conventional BTF, increasing the total VMS removal from <30% in the BTF up to ∼70% in the TP-BTF. The highest REs in the TP-BTF were recorded for D4 and D5, reaching values of 80–90%, corresponding to ECs between 0.12 and 0.17 g m−3.h−1. Slightly lower values were obtained for L3 (70–80%), and the lowest performance was recorded for L2 (20–60%) due to the high vapor pressure of this siloxane and therefore its lower affinity by the organic phase. Surprisingly, despite the different inocula used, a similar microbial community was found by the end of operation of both BTFs, with KMBC-112, Reynarella and Chitinophaga as the dominant genera.

    Tell me what you imagine and I will tell you what you want: The effects of mental simulation on desire and food choice
    Muñoz-Vilches, Naomí C. ; Trijp, Hans C.M. van; Piqueras-Fiszman, Betina - \ 2020
    Food Quality and Preference 83 (2020). - ISSN 0950-3293

    Many people struggle with the classical choice of eating a mouth-watering snack versus a healthier product. One of the reasons behind this is that unhealthier products are appealing for their direct gratification; they deliver pleasure. The present research investigates the effect of mental simulation as a relatively new strategy to possibly shift the balance between direct gratification and the consideration of longer-term benefits necessary to make healthier choices. Specifically we distinguish between imagining the consumption process versus the outcome of eating a specific product, hereafter referred to as mental simulations. In two studies, we show that participants under process simulation, i.e., imagining the process of eating, had a higher desire for the imagined product compared to a control condition, but in a choice task between a healthy and an unhealthier product, more people chose the unhealthier product over the healthier one. On the other hand, outcome simulation, i.e., imagining the outcome of eating, also generated a higher desire for the imagined product, but in this case people chose the healthier option. In terms of underlying process, we explored the role of valence of the imagined experience on desire for the imagined product. This is the first study giving insights into the processes that could be behind the impact of mental simulation on desire and food choices. Although the results are not conclusive, we propose that further research in attentional biases, and possibly emotional activation could enlighten the effect of mental simulation in food desires and choice between healthy and unhealthy alternatives.

    Influence of sociodemographic factors on eating motivations–modelling through artificial neural networks (ANN)
    Guiné, Raquel P.F. ; Ferrão, Ana Cristina ; Ferreira, Manuela ; Correia, Paula ; Mendes, Mateus ; Bartkiene, Elena ; Szűcs, Viktória ; Tarcea, Monica ; Sarić, Marijana Matek ; Černelič-Bizjak, Maša ; Isoldi, Kathy ; EL-Kenawy, Ayman ; Ferreira, Vanessa ; Klava, Dace ; Korzeniowska, Małgorzata ; Vittadini, Elena ; Leal, Marcela ; Frez-Muñoz, Lucia ; Papageorgiou, Maria ; Djekić, Ilija - \ 2020
    International Journal of Food Sciences and Nutrition 71 (2020)5. - ISSN 0963-7486 - p. 614 - 627.
    cross-cultural survey - Food choice - healthy diet - neuronal modelling

    This study aimed at investigating the influence of some sociodemographic factors on the eating motivations. A longitudinal study was carried conducted with 11960 participants from 16 countries. Data analysis included t-test for independent samples or ANOVA, and neural network models were also created, to relate the input and output variables. Results showed that factors like age, marital status, country, living environment, level of education or professional area significantly influenced all of the studied types of eating motivations. Neural networks modelling indicated variability in the food choices, but identifying some trends, for example the strongest positive factor determining health motivations was age, while for emotional motivations was living environment, and for economic and availability motivations was gender. On the other hand, country revealed a high positive influence for the social and cultural as well as for environmental and political and also for marketing and commercial motivations.

    A systematic comparison of ectoine production from upgraded biogas using Methylomicrobium alcaliphilum and a mixed haloalkaliphilic consortium
    Cantera, Sara ; Phandanouvong-Lozano, Vienvilay ; Pascual, Celia ; García-Encina, Pedro A. ; Lebrero, Raquel ; Hay, Anthony ; Muñoz, Raúl - \ 2020
    Waste Management 102 (2020). - ISSN 0956-053X - p. 773 - 781.
    Biogas-biorefinery - Ectoine - Haloalkaliphilic methanotrophs - Methane treatment

    Biogas is the byproduct of anaerobic digestion with the highest valorization potential, however its full exploitation is limited by the lack of tax incentives and the inherent presence of pollutants. The development of technologies for biogas conversion into added-value products is crucial in order to ensure the competitiveness of this bioresource. This study constitutes the first proof of concept of upgraded biogas bioconversion into the high profit margin product ectoine. Ectoine represents the most expensive product synthesized by microorganisms with a retail value of 1000 $ kg-1 and a yearly increasing demand that currently entails a total market opportunity of 15000 M€. First, the production of ectoine from upgraded biogas was assessed in batch bioreactors. The presence of H2S did not exert a negative effect on the growth of the haloalkaliphilic ectoine producers, and ectoine yields up to 49 mg g biomass-1 were obtained. A second experiment conducted in continuous bubble column bioreactors confirmed the feasibility of the process under continuous mode (with ectoine yields of 109 mg g biomass-1). Finally, this study revealed that the removal of toxic compounds (i.e. medium dilution rate of 0.5 day-1) and process operation with a consortium composed of methylotrophic/non-methylotrophic ectoine producers enhanced upgraded biogas bioconversion. This research discloses the basis for the application of this innovative technology and could boost the economic performance of anaerobic digestion.

    MIBiG 2.0: a repository for biosynthetic gene clusters of known function
    Kautsar, S.A. ; Blin, Kai ; Shaw, Simon ; Navarro Munoz, J.C. ; Terlouw, Barbara ; Hooft, J.J.J. van der; Santen, Jeffrey A. Van; Tracanna, V. ; Suarez Duran, Hernando ; Pascal Andreu, V. ; Selem Mojica, Nelly ; Alanjary, Mohammad ; Robinson, Serina ; Lund, George ; Epstein, Samuel C. ; Sisto, Ashley C. ; Charkoudian, Louise K. ; Collemare, Jérôme ; Linington, Roger G. ; Weber, Tilmann ; Medema, M.H. - \ 2020
    Nucleic acids research 48 (2020)D1. - ISSN 0305-1048 - p. D454 - D458.
    Fueled by the explosion of (meta)genomic data, genome mining of specialized metabolites has become a major technology for drug discovery and studying microbiome ecology. In these efforts, computational tools like antiSMASH have played a central role through the analysis of Biosynthetic Gene Clusters (BGCs). Thousands of candidate BGCs from microbial genomes have been identified and stored in public databases. Interpreting the function and novelty of these predicted BGCs requires comparison with a well-documented set of BGCs of known function. The MIBiG (Minimum Information about a Biosynthetic Gene Cluster) Data Standard and Repository was established in 2015 to enable curation and storage of known BGCs. Here, we present MIBiG 2.0, which encompasses major updates to the schema, the data, and the online repository itself. Over the past five years, 851 new BGCs have been added. Additionally, we performed extensive manual data curation of all entries to improve the annotation quality of our repository. We also redesigned the data schema to ensure the compliance of future annotations. Finally, we improved the user experience by adding new features such as query searches and a statistics page, and enabled direct link-outs to chemical structure databases. The repository is accessible online at https://mibig.secondarymetabolites.org/.
    Fine-grained landuse characterization using ground-based pictures: a deep learning solution based on globally available data
    Srivastava, Shivangi ; Vargas Muñoz, John E. ; Lobry, Sylvain ; Tuia, Devis - \ 2020
    International Journal of Geographical Information Science 34 (2020)6. - ISSN 1365-8816 - p. 1117 - 1136.
    We study the problem of landuse characterization at the urban-object level using deep learning algorithms. Traditionally, this task is performed by surveys or manual photo interpretation, which are expensive and difficult to update regularly. We seek to characterize usages at the single object level and to differentiate classes such as educational institutes, hospitals and religious places by visual cues contained in side-view pictures from Google Street View (GSV). These pictures provide geo-referenced information not only about the material composition of the objects but also about their actual usage, which otherwise is difficult to capture using other classical sources of data such as aerial imagery. Since the GSV database is regularly updated, this allows to consequently update the landuse maps, at lower costs than those of authoritative surveys. Because every urban-object is imaged from a number of viewpoints with street-level pictures, we propose a deep-learning based architecture that accepts arbitrary number of GSV pictures to predict the fine-grained landuse classes at the object level. These classes are taken from OpenStreetMap. A quantitative evaluation of the area of Île-de-France, France shows that our model outperforms other deep learning-based methods, making it a suitable alternative to manual landuse characterization.
    Growth and yield models for balsa wood plantations in the coastal lowlands of Ecuador
    Cañadas-López, Álvaro ; Rade-Loor, Diana ; Siegmund-Schultze, Marianna ; Moreira-Muñoz, Geovanny ; Vargas-Hernández, Jesús ; Wehenkel, Christian - \ 2019
    Forests 10 (2019)9. - ISSN 1999-4907
    Mean annual increment - Native tree - Silvicultural models - Site index - Stand density index - Underutilized tree - Volume

    Balsa trees are native to neotropical forests and frequently grow on fallow, degraded land. Balsa can be used for economic and ecological rehabilitation of farmland with the aim of restoring native forest ecosystems. Although Ecuador is the world's largest producer of balsa, there is a lack of knowledge about production indicators for management of balsa stands in the country. The aim of this study was to develop growth and yield models (i.e., site index (SI) curves and stem volume models) for balsa plantations in the coastal lowlands of Ecuador. Balsa trees growing in 2161 plots in seven provinces were sampled. Here we present the first growth and yield models for the native, although underutilized, balsa tree. Three curve models were fitted to determine SI for balsa stands, differentiating five site quality classes. Eight volume models were compared to identify the best fit model for balsa stands. The mean annual increment was used to assess balsa production. The generalized algebraic difference approach (GADA) equation yielded one of the best results for the height-age and diameter-age models. The Newnham model was the best volume model for balsa in this comparative study. The maximum annual increment (i.e., for the best stand index) was reached in the second year of plantation. The fitted models can be used to support management decisions regarding balsa plantations. However, the models are preliminary and must be validated with independent samples. Nevertheless, the very fast development of the native balsa tree is particularly promising and should attract more attention from forest owners and politicians.

    A new environmental governance
    Delgado, Luisa E. ; Zorondo-Rodríguez, Francisco ; Bachmann-Vargas, Pamela ; Soto, Carmiña ; Avila Foucat, Veronique S. ; Gutierrez, Ricardo A. ; Muñoz-Barriga, Andrea ; Ferreiro, Oscar E. - \ 2019
    In: Social-ecological Systems of Latin America / Delgado, Luisa E., Marin, Victor H., Springer International Publishing - ISBN 9783030284510 - p. 117 - 135.
    Adaptation - Complexity - Environmental governance - Latin America - Public policies - Social-ecological systems
    At present, there is no unified theoretical framework to deal with environmental governance issues. Consequently, there is a diversity of interpretations of the concept at the public-political arena both nationally and internationally. Recent Latin American efforts have given a step forward conceptualizing environmental governance from the South and systematizing experiences to illustrate a diverse contemporaneous reality. At a regional scale, within the last decades, discursive turns in national policies such as the introduction of the sustainable development concept have triggered an increase in studies and applications of environmental governance (e.g., forest's governance, climate change, marine coastal zones) including the use of the ecosystem services concept. The instrumentation of public actions in relation to environmental governance derives from the states. However, if analyzed with a beyond-the-States view, governance can be understood as a process involving the participation of governmental and non-governmental actors reaching decisions, for mutual benefits, through negotiation processes. However, there is not, still, within the countries of the region, inclusive and participative governance oriented toward the sustainable use of natural resources. Although there are many challenges, in this chapter we discuss two of them: (1) to build an analytical framework to understand the environmental governance modes currently available in Latin America and (2) to generate a new sociopolitical interdisciplinary framework involving both natural and sociopolitical systems as a contribution to a new analytical framework for environmental governance. In other words, new environmental governance for Latin America.
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