1980 …2020
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Research Output 1980 2020

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Article
2020

A global database for metacommunity ecology, integrating species, traits, environment and space

Jeliazkov, A., Mijatovic, D., Chantepie, S., Andrew, N., Arlettaz, R., Barbaro, L., Barsoum, N., Bartonova, A., Belskaya, E., Bonada, N., Brind’Amour, A., Carvalho, R., Castro, H., Chmura, D., Choler, P., Chong-Seng, K., Cleary, D., Cormont, A., Cornwell, W., de Campos, R. & 60 others, de Voogd, N., Doledec, S., Drew, J., Dziock, F., Eallonardo, A., Edgar, M. J., Farneda, F., Hernandez, D. F., Frenette-Dussault, C., Fried, G., Gallardo, B., Gibb, H., Gonçalves-Souza, T., Higuti, J., Humbert, J. Y., Krasnov, B. R., Saux, E. L., Lindo, Z., Lopez-Baucells, A., Lowe, E., Marteinsdottir, B., Martens, K., Meffert, P., Mellado-Díaz, A., Menz, M. H. M., Meyer, C. F. J., Miranda, J. R., Mouillot, D., Ossola, A., Pakeman, R., Pavoine, S., Pekin, B., Pino, J., Pocheville, A., Pomati, F., Poschlod, P., Prentice, H. C., Purschke, O., Raevel, V., Reitalu, T., Renema, W., Ribera, I., Robinson, N., Robroek, B., Rocha, R., Shieh, S. H., Spake, R., Staniaszek-Kik, M., Stanko, M., Tejerina-Garro, F. L., ter Braak, C., Urban, M. C., van Klink, R., Villéger, S., Wegman, R., Westgate, M. J., Wolff, J., Żarnowiec, J., Zolotarev, M. & Chase, J. M., 8 Jan 2020, In : Scientific Data. 7, 1, 6.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Ecology
ecology
Ecosystems
biodiversity
Ecosystem

Benthic invertebrate and microbial biodiversity in sub-tropical urban rivers: Correlations with environmental variables and emerging chemicals

Peng, F. J., Pan, C. G., Zhang, N. S., ter Braak, C. J. F., Salvito, D., Selck, H., Ying, G. G. & Van den Brink, P. J., 20 Mar 2020, In : Science of the Total Environment. 709, 136281.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Biodiversity
invertebrate
Rivers
biodiversity
macroinvertebrate

Compositional turnover and variation in Eemian pollen sequences in Europe

Felde, V. A., Flantua, S. G. A., Jenks, C. R., Benito, B. M., de Beaulieu, J. L., Kuneš, P., Magri, D., Nalepka, D., Risebrobakken, B., ter Braak, C. J. F., Allen, J. R. M., Granoszewski, W., Helmens, K. F., Huntley, B., Kondratienė, O., Kalniņa, L., Kupryjanowicz, M., Malkiewicz, M., Milner, A. M., Nita, M. & 8 others, Noryśkiewicz, B., Pidek, I. A., Reille, M., Salonen, S., Šeirienė, V., Winter, H., Tzedakis, P. C. & Birks, J. B., Jan 2020, In : Vegetation History and Archaeobotany. 29, 1, p. 101-109 9 p.

Research output: Contribution to journalArticleAcademicpeer-review

Eemian
turnover
pollen
vegetation
Southern European region
2019
Open Access
Attention Deficit Disorder with Hyperactivity
Biomarkers
Diet
Food
Research

Differently Pre-treated Alfalfa Silages Affect the in vitro Ruminal Microbiota Composition

Hartinger, T., Edwards, J. E., Gómez Expósito, R., Smidt, H., ter Braak, C. J. F., Gresner, N. & Südekum, K. H., 3 Dec 2019, In : Frontiers in Microbiology. 10, 2761.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Silage
Medicago sativa
Microbiota
Sucrose
Fermentation

Investigating microbial associations from sequencing survey data with co-correspondence analysis

Alric, B., ter Braak, C. J. F., Desdevises, Y., Lebredonchel, H. & Dray, S., 13 Dec 2019, In : Molecular Ecology Resources.

Research output: Contribution to journalArticleAcademicpeer-review

correspondence analysis
Ecosystem
microbial communities
microbial community
Microbial Interactions
1 Citation (Scopus)

New robust weighted averaging- and model-based methods for assessing trait–environment relationships

ter Braak, C. J. F., Nov 2019, In : Methods in Ecology and Evolution. 10, 11, p. 1962-1971 10 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
methodology
testing
method
inflation
autocorrelation

Relating ultrasonic vocalizations from a pair of rats to individual behavior: A composite link model approach

Vendrig, N. J., Hemerik, L., Pinter, I. J. & ter Braak, C. J. F., 1 Feb 2019, In : Statistica Neerlandica. 73, 1, p. 139-156

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Composite
Generalized Linear Model
Cage
Model
Deviance
2018
6 Citations (Scopus)

Algorithms and biplots for double constrained correspondence analysis

Ter Braak, C. J. F., Šmilauer, P. & Dray, S., Jun 2018, In : Environmental and Ecological Statistics. 25, 2, p. 171-197

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Biplot
Correspondence Analysis
correspondence analysis
Linear Combination
software

Een eureka-moment dat nog een beetje natrilt: over zwaartekrachtgolven en Bayesiaans rekenen

ter Braak, C. J. F., Jun 2018, In : Stator, periodiek van VVS. 19, 2, p. 14-17

Research output: Contribution to journalArticleProfessional

Open Access
1 Citation (Scopus)

Integrating spatial and phylogenetic information in the fourth-corner analysis to test trait–environment relationships

Braga, J., ter Braak, C. J. F., Thuiller, W. & Dray, S., Dec 2018, In : Ecology. 99, 12, p. 2667-26764 2530.

Research output: Contribution to journalArticleAcademicpeer-review

autocorrelation
phylogenetics
phylogeny
testing
preserves
6 Citations (Scopus)

Simple parametric tests for trait–environment association

ter Braak, C. J. F., Peres-Neto, P. R. & Dray, S., Sep 2018, In : Journal of Vegetation Science. 29, 5, p. 801-811

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
testing
test
environmental factors
niche
niches
2017
18 Citations (Scopus)

A critical issue in model-based inference for studying trait-based community assembly and a solution

ter Braak, C. J. F., Peres-Neto, P. & Dray, S., 2017, In : PeerJ. 5, e2885.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Linear Models
linear models
testing
simulation models
Correlation methods
2 Citations (Scopus)

Biodiversity analyses for risk assessment of genetically modified potato

Lazebnik, J., Dicke, M., ter Braak, C. J. F. & van Loon, J. J. A., 2017, In : Agriculture, Ecosystems and Environment. 249, p. 196-205

Research output: Contribution to journalArticleAcademicpeer-review

potato
risk assessment
Phytophthora infestans
genotype
arthropod
2 Citations (Scopus)

Flow thresholds for leaf retention in hydrodynamic wakes downstream of obstacles

de Brouwer, J. H. F., Eekhout, J. P. C., Besse-Lototskaya, A. A., Hoitink, A. J. F., ter Braak, C. J. F. & Verdonschot, P. F. M., 6 Oct 2017, In : Ecohydrology. 10, 7, 10 p., e1883.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
hydrodynamics
flow velocity
leaves
woody debris
entrainment
5 Citations (Scopus)

Flow velocity tolerance of lowland stream caddisfly larvae (Trichoptera)

de Brouwer, J. H. F., Besse-Lototskaya, A. A., Ter Braak, C. J. F., Kraak, M. H. S. & Verdonschot, P. F. M., 2017, In : Aquatic Sciences. 79, 3, p. 419-425

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
caddisfly
Trichoptera
flow velocity
lowlands
tolerance
4 Citations (Scopus)
Open Access
Log-linear Models
Score Test
Test Statistic
Permutation
Testing
34 Citations (Scopus)

Linking trait variation to the environment: Critical issues with community-weighted mean correlation resolved by the fourth-corner approach

Peres-Neto, P. R., Dray, S. & ter Braak, C., 2017, In : Ecography. 40, 7, p. 806-816

Research output: Contribution to journalArticleAcademicpeer-review

niche
niches
community ecology
hypothesis testing
biogeography
1 Citation (Scopus)

Response variable selection in principal response curves using permutation testing

Vendrig, N. J., Hemerik, L. & Ter Braak, C. J. F., 2017, In : Aquatic Ecology. 51, 1, p. 131-143

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
testing
ranking
simulation
methodology
method
2016
1 Citation (Scopus)

A risk assessment-driven quantitative comparison of gene expression profiles in PBMCs and white adipose tissue of humans and rats after isoflavone supplementation

van der Velpen, V., van 't Veer, P., Islam, M. A., ter Braak, C. J. F., Leeuwen, F. X. R., Afman, L. A., Hollman, P. C. H., Schouten, A. & Geelen, M. M. E. E., 2016, In : Food and Chemical Toxicology. 95, p. 203-210

Research output: Contribution to journalArticleAcademicpeer-review

quantitative risk assessment
White Adipose Tissue
white adipose tissue
Isoflavones
isoflavones
13 Citations (Scopus)

Combining exposure and effect modeling into an integrated probabilistic environmental risk assessment for nanoparticles

Jacobs, R., Meesters, J. A. J., ter Braak, C. J. F., van de Meent, D. & van der Voet, H., 2016, In : Environmental Toxicology and Chemistry. 35, 12, p. 2958-2967

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Risk assessment
Nanoparticles
Uncertainty
risk assessment
modeling
34 Citations (Scopus)

Networking Our Way to Better Ecosystem Service Provision

Feb 2016, In : Trends in Ecology and Evolution. 31, 2, p. 105-115

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
service provision
networking
ecosystem service
ecosystem services
social sciences
2015
14 Citations (Scopus)

Analysing chemical-induced changes in macroinvertebrate communities in aquatic mesocosm experiments: a comparison of methods

Szöcs, E., van den Brink, P. J., Lagadic, L., Caquet, T., Roucaute, M., Auber, A., Bayona, Y., Liess, M., Ebke, P., Ippolito, A., ter Braak, C. J. F., Brock, T. C. M. & Schäfer, R. B., 2015, In : Ecotoxicology. 24, 4, p. 760-769

Research output: Contribution to journalArticleAcademicpeer-review

mesocosm
macroinvertebrate
Linear Models
experiment
Experiments
44 Citations (Scopus)

Dispersal versus environmental filtering in a dynamic system: Drivers of vegetation patterns and diversity along stream riparian gradients

Fraaije, R. G. A., ter Braak, C. J. F., Verduyn, B., Verhoeven, J. T. A. & Soons, M. B., 2015, In : Journal of Ecology. 103, 6, p. 1634-1646

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
vegetation
seeds
biogeography
seed
biodiversity
45 Citations (Scopus)

Early plant recruitment stages set the template for the development of vegetation patterns along a hydrological gradient

Fraaije, R. G. A., ter Braak, C. J. F., Verduyn, B., Breeman, L. B. S., Verhoeven, J. T. A. & Soons, M. B., 2015, In : Functional Ecology. 29, 7, p. 971-980

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
vegetation
riparian zone
riparian areas
seedling
germination
11 Citations (Scopus)
Open Access
risk assessment
Risk Assessment
food
Risk assessment
Nanoparticles
25 Citations (Scopus)

Macroinvertebrate survival during cessation of flow and streambed drying in a lowland stream

Verdonschot, R. C. M., van Oosten-Siedlecka, A. M., ter Braak, C. J. F. & Verdonschot, P. F. M., 2015, In : Freshwater Biology. 60, 2, p. 282-296

Research output: Contribution to journalArticleAcademicpeer-review

stream channels
macroinvertebrates
macroinvertebrate
lowlands
drying
1 Citation (Scopus)

Parametric estimation of P(X >Y) for normal distributions in the context of probabilistic environmental risk assessment.

Jacobs, R., Bekker, A. A., van der Voet, H. & ter Braak, C. J. F., 2015, In : PeerJ. 3, e1164.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Normal Distribution
environmental assessment
Normal distribution
Risk assessment
Sample Size
28 Citations (Scopus)

Topics in constrained and unconstrained ordination

ter Braak, C. J. F. & Smilauer, P., 2015, In : Plant Ecology. 216, 5, p. 683-696

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
ordination
least squares
analysis of variance
linear models
environmental factors
2014
17 Citations (Scopus)

A Unimodal Species Response Model Relating Traits to Environment with Application to Phytoplankton Communities.

Jamil, T., Kruk, C. & ter Braak, C. J. F., 2014, In : PLoS ONE. 9, 5, 14 p., e97583.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Phytoplankton
niches
phytoplankton
Flagella
Temperature
150 Citations (Scopus)

Combining the fourth-corner and the RLQ methods for assessing trait responses to environmental variation

Dray, S., Choler, P., Dolédec, S., Peres-Neto, P. R., Thuiller, W., Pavoine, S. & ter Braak, C. J. F., 2014, In : Ecology. 95, p. 14-21

Research output: Contribution to journalArticleAcademicpeer-review

multivariate analysis
methodology
environmental factors
complementarity
environmental gradient
18 Citations (Scopus)

Image-based particle filtering for navigation in a semi-structured agricultural environment.

Hiremath, S., van Evert, F. K., ter Braak, C. J. F., Stein, A. & van der Heijden, G. W. A. M., 2014, In : Biosystems Engineering. 121, p. 85-95

Research output: Contribution to journalArticleAcademicpeer-review

robots
navigation
Navigation
Robots
Zea mays
63 Citations (Scopus)

Laser range finder model for autonomous navigation of a robot in a maize field using a particle filter

Hiremath, S. A., van der Heijden, G. W. A. M., van Evert, F. K., Stein, A. & ter Braak, C. J. F., 2014, In : Computers and Electronics in Agriculture. 100, p. 41-50

Research output: Contribution to journalArticleAcademicpeer-review

Range finders
robots
navigation
Navigation
laser
8 Citations (Scopus)
Open Access
Sampling Studies
Systems Biology
probability distribution
Probability distributions
Uncertainty
103 Citations (Scopus)

Reset of a critically disturbed microbial ecosystem: faecal transplant in recurrent Clostridium difficile infection

Fuentes Enriquez de Salamanca, S., van Nood, E., Tims, S., Heikamp-de Jong, I., ter Braak, C. J. F., Keller, J. J., Zoetendal, E. G. & de Vos, W. M., 2014, In : ISME Journal. 8, p. 1621-1633

Research output: Contribution to journalArticleAcademicpeer-review

Clostridium Infections
Clostridium difficile
microbial ecology
Microbiota
feces
3 Citations (Scopus)

Sclerotium rolfsii dynamics in soil as affected by crop sequences

Leoni, C., ter Braak, C. J. F., Gilsanz, J. C., Dogliotti, S., Rossing, W. A. H. & van Bruggen, A. H. C., 2014, In : Applied Soil Ecology. 75, p. 95-105

Research output: Contribution to journalArticleAcademicpeer-review

Athelia rolfsii
sclerotia
cropping sequence
Manure
Soil
2013
43 Citations (Scopus)

A 3D Analysis of Flight Behavior of Anopheles gambiae sensu stricto Malaria Mosquitoes in Response to Human Odor and Heat

Spitzen, J., Spoor, C. W., Grieco, F., ter Braak, C. J. F., Beeuwkes, J., van Brugge, S. P., Kranenbarg, S., Noldus, L., van Leeuwen, J. L. & Takken, W., 2013, In : PLoS ONE. 8, 5, e62995.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Anopheles gambiae
Odors
Culicidae
malaria
Malaria
23 Citations (Scopus)

An automated system for the recognition of various specific rat behaviours

van Dam, E. A., van der Harst, J. E., ter Braak, C. J. F., Tegelenbosch, R. A. J., Spruijt, B. M. & Noldus, L. P. J. J., 2013, In : Journal of Neuroscience Methods. 218, 2, p. 214-224

Research output: Contribution to journalArticleAcademicpeer-review

Pharmaceutical Preparations
Rodentia
Amphetamine
Diazepam
Neurosciences
46 Citations (Scopus)
forest cover
law enforcement
protected area
conservation areas
conditionality
14 Citations (Scopus)

Fusarium oxysporum f.sp. cepae dynamics: in-plant multiplication and crop sequence simulations

Leoni, C., de Vries, M., ter Braak, C. J. F., van Bruggen, A. H. C. & Rossing, W. A. H., 2013, In : European Journal of Plant Pathology. 137, 3, p. 545-561

Research output: Contribution to journalArticleAcademicpeer-review

cropping sequence
Fusarium oxysporum
black beans
cowpeas
onions
9 Citations (Scopus)

Gene Ontology consistent protein function prediction: the FALCON algorithm applied to six eukaryotic genomes

Kourmpetis, Y. A. I., van Dijk, A. D. J. & ter Braak, C. J. F., 2013, In : Algorithms for Molecular Biology. 8, 1, 10.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Gene Ontology
Labeling
Ontology
Annotation
Genome
12 Citations (Scopus)

Generalized linear mixed models can detect unimodal species-environment relationships

Jamil, T. & ter Braak, C. J. F., 2013, In : PeerJ. 1, 14 p., e95.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Linear Models
logit analysis
Phylogeny
niches
statistical analysis
104 Citations (Scopus)

Hydrologic data assimilation using particle Markov chain Monte Carlo simulation: Theory, concepts and applications

Vrugt, J. A., ter Braak, C. J. F. & Diks, C. G. H., 2013, In : Advances in Water Resources. 51, p. 457-478

Research output: Contribution to journalArticleAcademicpeer-review

Markov chain
data assimilation
simulation
calibration
particle

Predicting changes in ecosystem functioning from shifts in plant traits

Ozinga, W. A., Schaminee, J. H. J., Hennekens, S. M., Prinzing, A., ter Braak, C. J. F. & van Groenendael, J. M., 2013, In : NWO newsletter. december, p. 24-25

Research output: Contribution to journalArticleProfessional

Open Access
81 Citations (Scopus)

Selecting traits that explain species–environment relationships: a generalized linear mixed model approach

Jamil, T., Ozinga, W. A., Kleyer, M. & ter Braak, C. J. F., 2013, In : Journal of Vegetation Science. 24, 6, p. 988-1000

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
meadows
methodology
grazing intensity
ecological value
meadow
2012
70 Citations (Scopus)

Arctic warming on two continents has consistent negativ effects on lichen diversity and mixed effects on bryophyte diversity

Lang, S. I., Cornelissen, J. H. C., Shaver, G. R., Ahrens, M., Callaghan, T. V., Molau, U., ter Braak, C. J. F., Hölzer, A. & Aerts, R., 2012, In : Global Change Biology. 18, 3, p. 1096-1107

Research output: Contribution to journalArticleAcademicpeer-review

bryophyte
lichen
warming
Ecosystems
tundra
73 Citations (Scopus)

Improved testing of species traits-environment relationships in the fourth corner problem

ter Braak, C. J. F., Cormont, A. & Dray, S., 2012, In : Ecology. 93, 7, p. 1525-1526

Research output: Contribution to journalArticleAcademicpeer-review

ordination
testing
ecology
statistical analysis
environmental factors

Legumes affect alpine tundra community composition via multiple biotic interactions

Soudzilovskaia, N. A., Aksenova, A. A., Makarov, M. I., Onipchenko, V. G., Logvinenko, O. A., ter Braak, C. J. F. & Cornelissen, J. H. C., 2012, In : Ecosphere. 3, 4, 15 p., 33.

Research output: Contribution to journalArticleAcademicpeer-review

alpine tundra
tundra
community composition
legumes
nutrition
22 Citations (Scopus)

QTL linkage analysis of connected populations using ancestral marker and pedigree information

Bink, M. C. A. M., Radu Totir, L., ter Braak, C. J. F., Winkler, C. R., Boer, M. P. & Smith, O. S., 2012, In : Theoretical and Applied Genetics. 124, 6, p. 1097-1113

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Quantitative Trait Loci
Pedigree
pedigree
linkage (genetics)
quantitative trait loci
2 Citations (Scopus)

Selection properties of Type II maximum likelihood (empirical bayes) linear models with individual variance components for predictors

Jamil, T. & ter Braak, C. J. F., 2012, In : Pattern Recognition Letters. 33, 9, p. 1205-1212

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Maximum likelihood
Textbooks
Pattern recognition
Learning systems
Experiments