81 Works

Jumping out of trouble: Evidence for a cognitive map in guppies (Poecilia reticulata)

Hannah De Waele, Catarina Vila Pouca, Regina Vega-Trejo, David Mitchell, Ewoud Luiten, Lisanne Leenheer, Dimphy Van Boerdonck & Alexander Kotrschal
Spatial cognitive abilities allow individuals to remember the location of resources such as food patches, predator hide-outs, or shelters. Animals typically incorporate learnt spatial information or use external environmental cues to navigate their surroundings. A spectacular example of how some fishes move is through aerial jumping. For instance, fish that are trapped within isolated pools, cut off from the main body of water during dry periods, may jump over obstacles and direct their jumps to...

Pollination deficits and contributions of pollinators in apple production: a global meta-analysis

Aruhan Olhnuud, Yunhui Liu, David Makowski, Teja Tscharntke, Catrin Westphal, Panlong Wu, Meina Wang & Wopke Van Der Werf
1. Apple is one of the most widely cultivated fruit crops worldwide, and apple yield benefits from pollination by insects. The global decline in wild pollinator populations raises concern about the adequacy of pollination services in apple production. 2. Here, we present a global meta-analysis of pollination in apple. We assembled from the literature a dataset comprising results of 48 studies across five continents on fruit set and seed set in apple with insect pollination,...

Additional file 6 of PolyHaplotyper: haplotyping in polyploids based on bi-allelic marker dosage data

Roeland E. Voorrips & Giorgio Tumino
Additional file 6. Dataset2_script.R: An R script illustrating how Data set 2 was processed with PolyHaplotyper, and how the comparisons with SATlotyper and Happy_inf were made.

Additional file 2 of Metabolic engineering of Clostridium autoethanogenum for ethyl acetate production from CO

James C. Dykstra, Jelle van Oort, Ali Tafazoli Yazdi, Eric Vossen, Constantinos Patinios, John van der Oost, Diana Z. Sousa & Servé W. M. Kengen
Additional file 2: zip. GenBank files of plasmids used in this study, including: ppta-acka-atf1.gb, ppta-acka-eat1.gb, ppta-acka-treat1.gb, precas1-ald.gb, pthl-atf1.gb, SIBR-Cas pta.gb.

Effective pollination of greenhouse Galia musk melon (Cucumis melo L. var. reticulatus ser.) by afrotropical stingless bee species

Nkoba Kiatoko, Maria I. Pozo, Annette Van Oystaeyen, Frank van Langevelde, Felix Wäckers, Raina Suresh Kumar, Baerbel Hundt & Juliana Jaramillo
An increasing demand for pollination services highlights the need for research on alternative pollinators for greenhouse and open field food crops. We compared the foraging behaviour and effectiveness of seven endemic African Meliponinae (Meliponula bocandei, Dactylurina schmidti, Plebeina hildebrandti, Meliponula lendliana, Hypotrigona gribodoi, Meliponula ferruginea, Meliponula togoensis) as alternative pollinators to honey bees of greenhouse cultivated Cantaloupe melons. It was observed that honey bees started foraging sooner after introduction in the greenhouse (av. 4 days)...

Data from: Great tits do not compensate over time for a radio-tag-induced reduction in escape-flight performance

Barbara Tomotani, Florian Muijres, Bronwyn Johnston, Henk Van Der Jeugd & Marc Naguib
The use of biologging and tracking devices is widespread in avian behavioural and ecological studies. Carrying these devices rarely has major behavioural or fitness effects in the wild, yet it may still impact animals in more subtle ways, such as during high power demanding escape manoeuvres. Here, we tested whether or not great tits (Parus major) carrying a backpack radio-tag changed their body-mass or flight behaviour over time to compensate for the detrimental effect of...

Fire and forage quality: post-fire regrowth quality and pyric herbivory in subtropical grasslands of Nepal

Shyam Kumar Thapa, Joost F. De Jong, Anouschka R. Hof, Naresh Subedi, Laxmi Raj Joshi & Herbert H.T. Prins
Indiscriminate fire is rampant throughout subtropical South and Southeast Asian grasslands. However, very little is known about the role of fire and pyric herbivory on the functioning of highly productive subtropical monsoon grasslands lying within Cwa-climatic region. We collected grass samples from 60 m x 60 m plots and determined vegetation physical and chemical properties at regular 30-day intervals from April to July 2020, starting from 30 days after fire to assess post-fire regrowth forage...

Global data on fertilizer use by crop and by country

Cameron Ludemann, Armelle Gruere, Patrick Heffer & Achim Dobermann
Understanding how much inorganic fertilizer (referred to as fertilizer) is applied to different crops at national, regional and global levels is an essential component of fertilizer consumption analysis and demand projection. Good information on fertilizer use by crop (FUBC) is rarely available because it is difficult to collect and time-consuming to process and validate. To fill this gap, a first global FUBC report was published in 1992 for the 1990/1991 period, based on an expert...

Emerging stability of forest productivity by mixing two species buffers temperature destabilizing effect

Miren Del Rio, Ricardo Ruiz‐Peinado, Stig‐Olof Holm, Aris Jansons, Thomas Nord‐Larsen, Kris Verheyen, Andrés Bravo‐Oviedo, Hans Pretzsch, Ricardo Ruiz-Peinado, Hervé Jactel, Lluís Coll, Magnus Löf, Jorge Aldea, Christian Ammer, Admir Avdagić, Ignacio Barbeito, Kamil Bielak, Felipe Bravo, Gediminas Brazaitis, Jakub Cerný, Catherine Collet, Sonia Condés, Lars Drössler, Marek Fabrika, Michael Heym … & Andrés Bravo-Oviedo
The increasing disturbances in monocultures around the world are testimony to their instability under global change. Many studies have claimed that temporal stability of productivity increase with species richness, although the ecological fundaments have mainly been investigated through diversity experiments. To adequately manage forest ecosystems, it is necessary to have a comprehensive understanding of the effect of mixing species on the temporal stability of productivity and the way in which this it is influenced by...

Soil microbial diversity and community composition during conversion from conventional to organic agriculture

Sophie Van Rijssel, Guusje Koorneef, Ciska Veen, , Freddy C. Ten Hooven, Stefan Geisen & Wim Van Der Putten
It is generally assumed that the dependence of conventional agriculture on artificial fertilizers and pesticides strongly impacts the environment, while organic agriculture relying more on microbial functioning may mitigate these impacts. However, it is not well known how microbial diversity and community composition change in conventionally managed farmers’ fields that are converted to organic management. Here, we sequenced bacterial and fungal communities of 34 organic fields on sand and marine clay soils in a time...

Suppression of lncRNA GAS6-AS2 alleviates sepsis-related acute kidney injury through regulating the miR-136-5p/OXSR1 axis in vitro and in vivo

Hongrui Cui, Guangwei Ren, Xiuhong Hu, Baozhen Xu, Yuping Li, Zheli Niu & Liqin Mu
Acute kidney injury (AKI) is a common complication of sepsis and increase morbidity and mortality. Long non-coding RNA (LncRNA) GAS6-AS2 was related to inflammation and apoptosis in different diseases by regulating miRNAs and downstream genes, but its role in AKI remains unclear. Thus, we speculated that GAS6-AS2 might function in sepsis-related AKI via regulating target genes. Here, LPS or CLP was used to establish in vitro or in vivo sepsis-related AKI model. The interactions between...

Analysis of microplastics released from plastic take-out food containers based on thermal properties and morphology study

Jia-Ling Hu, Yipin Duan, Huai-Ning Zhong, Qin-Bao Lin, Tianlong Zhang, Chuang-Chuang Zhao, Sheng Chen, Ben Dong, Dan Li, Jing Wang, Ming-Zhen Mo, Jie Chen & Jian-Guo Zheng
Plastic take-out food containers may release microplastics (MPs) into food and pose a potential risk to food safety and human health. Here, after being subjected to hot water treatment, MPs released from three types of plastic food containers (polypropylene, PP; polyethylene, PE; expanded polystyrene, EPS) were identified by micro-Raman spectroscopy. The results showed that the size of released MPs ranged from 0.8–38 μm and over 96% MPs were smaller than 10 μm. Various MPs concentrations...

Number of growth days and not length of the growth period determines radial stem growth of temperate trees

Sophia Etzold, Frank Sterck, Arun Bose, Sabine Braun, Nina Buchmann, Werner Eugster, Arthur Gessler, Ansgar Kahmen, Richard Peters, Lorenz Walthert, Yann Vitasse, Kasia Zieminska, Haeni Matthias, Micah Wilhelm, Volodymyr Trotsiuk & Zweifel Roman
Radial stem growth dynamics at seasonal resolution are essential to understand how forests respond to climate change. We studied daily radial growth of 160 individuals of seven temperate tree species at 47 sites across Switzerland over eight years. Growth of all species peaked in the early part of the growth season and commenced shortly before the summer solstice, but with species-specific seasonal patterns. Day length set a window of opportunity for radial growth. Within this...

Adaptive potential of Coffea canephora from Uganda in response to climate change

Sinara De Aquino, Catherine Kiwuka, Rémi Tournebize, Pierre Marraccini, Cédric Mariac, Kévin Bethune, Marie Couderc, Philippe Cubry, Alan Andrade, Maud Lepelley, Olivier Darracq, Dominique Crouzillat, Niels Anten, Pascal Musoli, Stéphanie Manel, Olivier François, Yves Vigouroux, Alexandre De Kochko, Clément Gain & Valérie Poncet
Understanding vulnerabilities of plant populations to climate change could help preserve their biodiversity and reveal new elite parents for future breeding programs. To this end, landscape genomics is a useful approach for assessing putative adaptations to future climatic conditions, especially in long-lived species such as trees. We conducted a population genomics study of 207 Coffea canephora trees from seven forests along different climate gradients in Uganda. For this, we sequenced 323 candidate genes involved in...

Data from: Biodiversity and yield trade-offs for organic farming

Yi Zou, Shanxing Gong, Jenny Hodgson, Teja Tscharntke, Yunhui Liu, Wopke Van Der Werf, Péter Batáry & Johannes Knops
Organic farming supports higher biodiversity than conventional farming, but at the cost of lower yields. We conducted a meta-analysis quantifying the trade-off between biodiversity and yield, comparing conventional and organic farming. We developed a compatibility index to assess whether biodiversity gains from organic farming exceed yield losses, and a substitution index to assess whether organic farming would increase biodiversity in an area if maintaining total production under organic farming would require cultivating more land at...

Species-level tree crown maps improve predictions of tree recruit abundance in a tropical landscape

Cristina Barber, Sarah Graves, Jefferson Hall, Pieter Zuidema, Jodi Brandt, Stephanie Bohlman, Gregory Asner, Mario Bailón & T. Trevor Caughlin
Predicting forest recovery at landscape scales will aid forest restoration efforts. The first step in successful forest recovery is tree recruitment. Forecasts of tree recruit abundance, derived from the landscape-scale distribution of seed sources (i.e. adult trees), could assist efforts to identify sites with high potential for natural regeneration. However, previous work has revealed wide variation in the effect of seed sources on seedling abundance, from positive to no effect. We quantified the relationship between...

Considering inner and outer bark as distinctive tissues helps to disentangle the effects of bark traits on decomposition

Li Lin, Li Lin, Yao-Bin Song, Yikang Li, Leo Goudzwaard, Richard S.P. Van Logtestijn, Chenhui Chang, Rob Broekman, Jurgen Van Hal, Juan Zuo, Frank J. Sterck, Lourens Poorter, Ute Sass-Klaassen, Mariet M. Hefting & J. Hans C. Cornelissen
Revealing the ecological consequences of bark multifunctionality and its underlying traits has become a relatively new but essential focus in plant ecology. Although the enormous differences between the most crucial bark layers, i.e., inner and outer bark, in structure and functions have been widely recognized, the overall bark has been regarded as a homogenous tissue in most bark-related studies. This has led to poor knowledge on the functional independence, specialized contributions and possible linkages of...

Growth resilience of conifer species decreases with early, long-lasting and intense droughts but cannot be explained by hydraulic traits

Yanjun Song, Frank Sterck, Ute Sass-Klaassen, Chenxuan Li & Lourens Poorter
Drought events may reduce growth and survival of conifer trees. The effects of the intensity and timing of drought on the growth resilience, including growth reductions during drought and recovery of growth after drought, remains however highly uncertain. Growth resilience of 20 conifer species to 11 dry years was compared in a common garden experiment. We assessed 1) the relationships among growth resistance, recovery and resilience, 2) the impacts of different drought dimensions (intensity, onset...

Utilizing network pharmacological analysis to investigate the key targets and mechanisms of kaempferol against oxaliplatin-induced neurotoxicity

Hongxing Wang, Jing Quan, Youming Deng, Jie Chen, Ke Zhang & Zhan Qu
This study investigated the pharmacological mechanism of kaempferol in the treatment of oxaliplatin-induced neuropathic pain by network pharmacological method and cells experiment. The kaempferol and disease target genes were obtained from several databases, including TCMSP, SwissTargetPrediction, GeneCards, and CTD. Then, the common target genes of drugs and diseases were obtained using Venny online tools. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) functional analyses were carried out to obtain the enriched molecular...

Steering microbiomes by organic amendments towards climate-smart agricultural soils

Kristof Brenzinger, Ohana Y. A. Costa, Adrian Ho, Guusje Koorneef, Bjorn Robroek, Douwe Molenaar, Gerard Korthals & Paul L. E. Bodelier
We steered the soil microbiome via applications of organic residues (mix of cover crop residues, sewage sludge + compost, and digestate + compost) to enhance multiple ecosystem services in line with climate-smart agriculture. Our result highlights the potential to reduce greenhouse gases (GHG) emissions from agricultural soils by the application of specific organic amendments (especially digestate + compost). Unexpectedly, also the addition of mineral fertilizer in our mesocosms led to similar combined GHG emissions than...

Effects of oviposition in a non-host species on foraging behaviour of the parasitoid Cotesia glomerata

Jetske De Boer, Jessica De Bruijn, Louise Vet & Hans Smid
Parasitoids lay their eggs in or on a host, usually another insect. During foraging, parasitoids can encounter insects that differ in terms of host suitability and quality. At one extreme end of this spectrum are non-hosts that are unsuitable for offspring development. Non-hosts are generally ignored but parasitization does occur and occasionally also results in egg deposition. Here, we investigate how oviposition in a non-host influences subsequent foraging behaviour of a parasitoid and whether this...

Data from: Occupancy winners in tropical protected forests: a pantropical analysis

Asunción Semper-Pascual, Richard Bischof, Cyril Milleret, Lydia Beaudrot, Andrea F. Vallejo-Vargas, Jorge A. Ahumada, Emmanuel Akampurira, Robert Bitariho, Santiago Espinosa, Patrick A. Jansen, Cisquet Kiebou-Opepa, Marcela Guimarães Moreira Lima, Emanuel H. Martin, Badru Mugerwa, Francesco Rovero, Julia Salvado, Fernanda Santos, Eustrate Uzabaho & Douglas Sheil
The structure of forest mammal communities appears surprisingly consistent across the continental tropics, presumably due to convergent evolution in similar environments. Whether such consistency extends to mammal occupancy, despite variation in species characteristics and context, remains unclear. Here we ask whether we can predict occupancy patterns and, if so, whether these relationships are consistent across biogeographic regions. Specifically, we assessed how mammal feeding guild, body mass and ecological specialization relate to occupancy in protected forests...

Additional file 6 of PolyHaplotyper: haplotyping in polyploids based on bi-allelic marker dosage data

Roeland E. Voorrips & Giorgio Tumino
Additional file 6. Dataset2_script.R: An R script illustrating how Data set 2 was processed with PolyHaplotyper, and how the comparisons with SATlotyper and Happy_inf were made.

Additional file 8 of PolyHaplotyper: haplotyping in polyploids based on bi-allelic marker dosage data

Roeland E. Voorrips & Giorgio Tumino
Additional file 8. Dataset3_script.R: An R script illustrating how Data set 3 was processed with PolyHaplotyper, and how the comparisons with SATlotyper and Happy_inf were made.

Additional file 1 of Tick microbial associations at the crossroad of horizontal and vertical transmission pathways

Aleksandra Iwona Krawczyk, Sam Röttjers, Maria João Coimbra-Dores, Dieter Heylen, Manoj Fonville, Willem Takken, Karoline Faust & Hein Sprong
Additional file 1: Table S1. Details on studied forest sites. Table S2. The qPCR protocol for detection of tick symbionts and pathogens. Table S3. Bacterial loads of samples for the 16S rRNA sequencing; sample scheme. Table S4. Details on a positive control, primers, protocol, and in silico analysis used in the 16S rRNA quantification analyses. Table S5. OTU table. Table S6. Prevalence of veritcally and horizontally transmitted symbionts and pathogens per location. Table S7. Expected...

Registration Year

  • 2022

Resource Types

  • Dataset


  • Wageningen University & Research
  • Sun Yat-sen University
  • Fudan University
  • Capital Medical University
  • Shanghai Jiao Tong University
  • Huazhong University of Science and Technology
  • Tongji University
  • Zhejiang University
  • Wenzhou Medical University
  • Sichuan University