Research Output 1969 2019

2019
2 Citations (Scopus)

Adapting INTACT to analyse cell-type-specific transcriptomes and nucleocytoplasmic mRNA dynamics in the Arabidopsis embryo

Palovaara, J. & Weijers, D., Mar 2019, In : Plant Reproduction. 32, 1, p. 113-121 9 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Transcriptome
Arabidopsis
transcriptome
embryo (plant)
Embryonic Structures
3 Citations (Scopus)

Alternative coenzymes for biocatalysis

Guarneri, A., van Berkel, W. J. H. & Paul, C. E., Dec 2019, In : Current Opinion in Biotechnology. 60, p. 63-71

Research output: Contribution to journalReview articleAcademicpeer-review

Biocatalysis
Coenzymes
Enzymes
Flavins
Chemical reactivity

Analysis and modeling of enhanced green fluorescent protein diffusivity in whey protein gels

Luo, Q., Sewalt, E., Borst, J. W., Westphal, A. H., Boom, R. M. & Janssen, A. E. M., Jun 2019, In : Food Research International. 120, p. 449-455 10.087.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
pepsin
whey protein
green fluorescent protein
diffusivity
food matrix
5 Citations (Scopus)

A Robust Auxin Response Network Controls Embryo and Suspensor Development through a bHLH Transcriptional Module

Radoeva, T., Lokerse, A. S., Llavata-Peris, C. I., Wendrich, J., Xiang, D., Liao, C-Y., Vlaar, L., Boekschoten, M., Hooiveld, G., Datla, R. & Weijers, D., Jan 2019, In : The Plant Cell. 31, p. 52-67

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Indoleacetic Acids
embryo (plant)
Embryonic Development
auxins
Embryonic Structures
3 Citations (Scopus)

A SOSEKI-based coordinate system interprets global polarity cues in Arabidopsis

Yoshida, S., van der Schuren, A., van Dop, M., van Galen, L., Saiga, S., Adibi, M., Möller, B., ten Hove, C. A., Marhavy, P., Smith, R., Friml, J. & Weijers, D., 1 Feb 2019, In : Nature Plants. 5, 2, p. 160-166 7 p.

Research output: Contribution to journalLetterAcademicpeer-review

Arabidopsis
proteins
cell division
translation (genetics)
animals

Astin C Production by the Endophytic Fungus Cyanodermella asteris in Planktonic and Immobilized Culture Conditions

Vassaux, A., Tarayre, C., Arguëlles-Arias, A., Compère, P., Delvigne, F., Fickers, P., Jahn, L., Lang, A., Leclère, V., Ludwig-Müller, J., Ongena, M., Schafhauser, T., Telek, S., Théatre, A., van Berkel, W. J. H., Vandenbol, M., van Pée, K. H., Willems, L., Wohlleben, W. & Jacques, P., 1 Aug 2019, In : Biotechnology Journal. 14, 8, 1800624.

Research output: Contribution to journalArticleAcademicpeer-review

Fungi
Endophytes
Immobilized Cells
Sodium Hydroxide
Hyphae

Asymmetric redundancy of ZERZAUST and ZERZAUST HOMOLOG in different accessions of arabidopsis thaliana

Vaddepalli, P., Fulton, L. & Schneitz, K., 1 Jul 2019, In : G3: Genes, Genomes, Genetics. 9, 7, p. 2245-2252 8 p.

Research output: Contribution to journalArticleAcademicpeer-review

Arabidopsis
Clustered Regularly Interspaced Short Palindromic Repeats
Duplicate Genes
Cell Wall
Genes

Development of omics-based protocols for the microbiological characterization of multi-strain formulations marketed as probiotics: the case of VSL#3

Mora, D., Filardi, R., Arioli, S., Boeren, S., Aalvink, S. & de Vos, W. M., 12 Aug 2019, In : Microbial Biotechnology.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Probiotics
Single-Cell Analysis
High-Throughput Nucleotide Sequencing
Metagenomics
Proteins

Dimerization of Proline Dehydrogenase from Thermus thermophilus Is Crucial for Its Thermostability

Huijbers, M. M. E., Wu, J. W., Westphal, A. H. & van Berkel, W. J. H., 1 May 2019, In : Biotechnology Journal. 14, 5, 1800540.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Proline Oxidase
Thermus thermophilus
Dimerization
Maltose-Binding Proteins
Ions

DNA-guided DNA cleavage at moderate temperatures by Clostridium butyricum Argonaute

Hegge, J. W., Swarts, D. C., Chandradoss, S. D., Cui, T. J., Kneppers, J., Jinek, M., Joo, C. & van der Oost, J., 20 Jun 2019, In : Nucleic acids research. 47, 11, p. 5809-5821 13 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Clostridium butyricum
DNA Cleavage
Argonaute Proteins
Temperature
DNA
4 Citations (Scopus)

DOF2.1 Controls Cytokinin-Dependent Vascular Cell Proliferation Downstream of TMO5/LHW

Smet, W., Sevilem, I., de Luis Balaguer, M. A., Wybouw, B., Mor, E., Miyashima, S., Blob, B., Roszak, P., Jacobs, T. B., Boekschoten, M., Hooiveld, G., Sozzani, R., Helariutta, Y. & De Rybel, B., 4 Feb 2019, In : Current Biology. 29, 3, p. 520-529.e6

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Cytokinins
Cell proliferation
blood vessels
cytokinins
Blood Vessels

Editorial: Actinobacteria, a source of biocatalytic tools

Tischler, D., Van Berkel, W. J. H. & Fraaije, M. W., 16 Apr 2019, In : Frontiers in Microbiology. 10, 809.

Research output: Contribution to journalReview articleAcademic

Open Access
Open Access
Maerua
glucobrassicin
Gene expression
Cytotoxicity
Fruits

Evolution, Initiation, and Diversity in Early Plant Embryogenesis

Radoeva, T., Vaddepalli, P., Zhang, Z. & Weijers, D., 9 Sep 2019, In : Developmental Cell. 50, 5, p. 533-543 11 p.

Research output: Contribution to journalReview articleAcademicpeer-review

Arabidopsis
Embryonic Development
1 Citation (Scopus)

Hazard assessment of Maerua subcordata (Gilg) DeWolf. for selected endpoints using a battery of in vitro tests

Gebrelibanos Hiben, M., Kamelia, L., de Haan, L., Spenkelink, B., Wesseling, S., Vervoort, J. & Rietjens, I. M. C. M., 15 Sep 2019, In : Journal of Ethnopharmacology. 241, 111978.

Research output: Contribution to journalArticleAcademicpeer-review

Aryl Hydrocarbon Receptors
Fruit
Zebrafish
Isothiocyanates
Traditional Medicine

Human Milk Short-Chain Fatty Acid Composition is Associated with Adiposity Outcomes in Infants

Prentice, P. M., Schoemaker, M. H., Vervoort, J., Hettinga, K., Lambers, T. T., van Tol, E. A. F., Acerini, C. L., Olga, L., Petry, C. J., Hughes, I. A., Koulman, A., Ong, K. K. & Dunger, D. B., May 2019, In : The Journal of Nutrition. 149, 5, p. 716-722

Research output: Contribution to journalArticleAcademicpeer-review

Volatile Fatty Acids
Adiposity
Human Milk
formic acid
Skinfold Thickness
7 Citations (Scopus)

Hydrocarbon Synthesis via Photoenzymatic Decarboxylation of Carboxylic Acids

Zhang, W., Ma, M., Huijbers, M. M. E., Filonenko, G. A., Pidko, E. A., van Schie, M., de Boer, S., Burek, B. O., Bloh, J. Z., van Berkel, W. J. H., Smith, W. A. & Hollmann, F., 20 Feb 2019, In : Journal of the American Chemical Society. 141, 7, p. 3116-3120

Research output: Contribution to journalArticleAcademicpeer-review

Decarboxylation
Hydrocarbons
Carboxylic Acids
Carboxylic acids
Chlorella

Incorporation of a Synthetic Amino Acid into dCas9 Improves Control of Gene Silencing

Koopal, B., Kruis, A. J., Claassens, N. J., Nobrega, F. L. & Van Der Oost, J., 1 Jan 2019, In : ACS synthetic biology. 8, 2, p. 216-222

Research output: Contribution to journalArticleAcademicpeer-review

Terminator Codon
Gene Silencing
Amino acids
Genes
Amino Acids

Induction of EpRE-mediated gene expression by a series of mediterranean botanicals and their constituents

Papadi, G., Wesseling, S., Troganis, A. N., Vervoort, J. & Rietjens, I. M. C. M., 10 Aug 2019, In : Journal of Ethnopharmacology. 240, 13 p., 111940.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Frangula
Rhamnus
Gene Expression
Liquid Chromatography
Mass Spectrometry
8 Citations (Scopus)

Mobile PEAR transcription factors integrate positional cues to prime cambial growth

Miyashima, S., Roszak, P., Sevilem, I., Toyokura, K., Blob, B., Heo, J-O., Mellor, N., Help-Rinta-Rahko, H., Otero, S., Smet, W., Boekschoten, M., Hooiveld, G., Hashimoto, K., Smetana, O., Siligato, R., Wallner, E. S., Mähönen, A. P., Kondo, Y., Melnyk, C. W., Greb, T. & 5 othersNakajima, K., Sozzani, R., Bishopp, A., de Rybel, B. & Helariutta, Y., 24 Jan 2019, In : Nature. 565, 7740, p. 490-494

Research output: Contribution to journalLetterAcademicpeer-review

Cues
Transcription Factors
Growth
Proteins
MicroRNAs

Short communication: Changes under low ambient temperatures in the milk lipodome and metabolome of mid-lactation cows after dehorning as a calf

Baars, T., Jahreis, G., Lorkowski, S., Rohrer, C., Vervoort, J. & Hettinga, K., Mar 2019, In : Journal of Dairy Science. 102, 3, p. 2698-2702

Research output: Contribution to journalArticleAcademicpeer-review

dehorning
metabolome
Metabolome
Lactation
ambient temperature

Special issue: cellular omics methods in plant reproduction research

Dresselhaus, T. & Weijers, D., 1 Jan 2019, In : Plant Reproduction. 4 p.

Research output: Contribution to journalEditorialAcademic

Unraveling the regulation of plant vascular identity

Smit, M. E., 2019, Wageningen: Wageningen University. 206 p.

Research output: Thesisinternal PhD, WUAcademic

Open Access

Variability of Serum Proteins in Chinese and Dutch Human Milk during Lactation

Elwakiel, M., Boeren, S., Hageman, J. A., Szeto, I. M., Schols, H. A. & Hettinga, K. A., 27 Feb 2019, In : Nutrients. 11, 3

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Human Milk
breast milk
Lactation
blood proteins
Blood Proteins
2018

A kaleidoscopic look at vanillyl alcohol oxidase

Gygli, G., 2018, Wageningen: Wageningen University. 224 p.

Research output: Thesisinternal PhD, WUAcademic

Open Access
10 Citations (Scopus)

A Plausible Microtubule-Based Mechanism for Cell Division Orientation in Plant Embryogenesis

Chakrabortty, B., Willemsen, V., de Zeeuw, T., Liao, C. Y., Weijers, D., Mulder, B. & Scheres, B., 8 Oct 2018, In : Current Biology. 28, 19, p. 3031-3043.e2

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Microtubules
Cell Division
microtubules
Embryonic Development
cell division
6 Citations (Scopus)

A toolkit for studying cellular reorganization during early embryogenesis in Arabidopsis thaliana

Liao, C. Y. & Weijers, D., 1 Mar 2018, In : Plant Journal. 93, 6, p. 963-976

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Arabidopsis
Embryonic Development
embryo (animal)
embryogenesis
Embryonic Structures

Author Correction: Diffusible repression of cytokinin signalling produces endodermal symmetry and passage cells

Andersen, T. G., Naseer, S., Ursache, R., Wybouw, B., Smet, W., De Rybel, B., Vermeer, J. E. M. & Geldner, N., 20 Jun 2018, In : Nature. 559, 7714, p. E9-E9

Research output: Contribution to journalComment/Letter to the editorAcademic

Ficus
Cytokinins
Publications
7 Citations (Scopus)

Auxin: Small molecule, big impact

Weijers, D., Nemhauser, J. & Yang, Z., 4 Jan 2018, In : Journal of Experimental Botany. 69, 2, p. 133-136

Research output: Contribution to journalEditorialAcademic

Open Access
14 Citations (Scopus)

Auxin Response Factors: Output control in auxin biology

Roosjen, M., Paque, S. & Weijers, D., 1 Jan 2018, In : Journal of Experimental Botany. 69, 2, p. 179-188

Research output: Contribution to journalReview articleAcademicpeer-review

Indoleacetic Acids
auxins
Biological Sciences
Transcription Factors
transcription factors
4 Citations (Scopus)

A xylenol orange-based screening assay for the substrate specificity of flavin-dependent para-phenol oxidases

Ewing, T. A., Van Noord, A., Paul, C. E. & Van Berkel, W. J. H., 2018, In : Molecules. 23, 1, 164.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
vanillyl-alcohol oxidase
Monophenol Monooxygenase
oxidase
Eugenol
Substrate Specificity
1 Citation (Scopus)

Catalytic performance of a class III Old yellow enzyme and its cysteine variants

Scholtissek, A., Gädke, E., Paul, C. E., Westphal, A. H., van Berkel, W. J. H. & Tischler, D., 12 Oct 2018, In : Frontiers in Microbiology. 9, OCT, 02410.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
NADPH Dehydrogenase
NADP
Cysteine
Ketones
Biocatalysis

Cell-type-specific promoter identification using enhancer trap lines

Radoeva, T., Saiga, S. & Weijers, D., 25 Jul 2018, Plant Transcription Factors: Methods and Protocols. Humana Press Inc., p. 127-139 (Methods in Molecular Biology; vol. 1830).

Research output: Chapter in Book/Report/Conference proceedingChapterAcademicpeer-review

Arabidopsis
Developmental Biology
Genes
Transcription Factors
T-DNA

Cellular reorganization in auxin-dependent pattern formation during early embryogenesis in Arabidopsis thaliana

Liao, C-Y., 2018, Wageningen: Wageningen University. 149 p.

Research output: Thesisinternal PhD, WUAcademic

Open Access

Changes in Plasma Protein Expression Indicative of Early Diet-induced Metabolic Disease in Male Pigs (Sus scrofa).

te Pas, M. F. W., Koopmans, S. J., Kruijt, L., Boeren, J. A. & Smits, M. A., 15 May 2018, In : Comparative Medicine. 68, 4, p. 286-293

Research output: Contribution to journalArticleAcademicpeer-review

Sus scrofa
metabolic diseases
blood proteins
protein synthesis
diabetes

Colorful packages : fluorescent proteins in complex coacervate core micelles

Nolles, A., 2018, Wageningen: Wageningen University. 175 p.

Research output: Thesisinternal PhD, WUAcademic

Open Access
Micelles
Proteins
Encapsulation
Block copolymers
Dimerization
6 Citations (Scopus)

Comparative proteome analysis of propionate degradation by Syntrophobacter fumaroxidans in pure culture and in coculture with methanogens

Sedano-Núñez, V. T., Boeren, S., Stams, A. J. M. & Plugge, C. M., 1 May 2018, In : Environmental Microbiology. 20, 5, p. 1842-1856

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Syntrophobacter fumaroxidans
methanogens
Propionates
coculture
Proteome

Concurrent presence of on- and off-pathway folding intermediates of apoflavodoxin at physiological ionic strength

Houwman, J. A., Westphal, A. H., Visser, A. J. W. G., Borst, J. W. & van Mierlo, C. P. M., 19 Feb 2018, In : Physical Chemistry Chemical Physics. 20, 10, p. 7059-7072

Research output: Contribution to journalArticleAcademicpeer-review

globules
Ionic strength
Flavodoxin
folding
Flavin Mononucleotide

Control of cell division orientation during vascular development in Arabidopsis thaliana

Smet, W. M. S., 2018, Wageningen: Wageningen University. 171 p.

Research output: Thesisinternal PhD, WUAcademic

19 Citations (Scopus)

Diffusible repression of cytokinin signalling produces endodermal symmetry and passage cells

Andersen, T. G., Naseer, S., Ursache, R., Wybouw, B., Smet, W., De Rybel, B., Vermeer, J. E. M. & Geldner, N., 22 Mar 2018, In : Nature. 555, 7697, p. 529-533

Research output: Contribution to journalArticleAcademicpeer-review

Cytokinins
Xylem
Transcytosis
Phloem
Angiosperms
1 Citation (Scopus)

Distinct Roles of Non-Overlapping Surface Regions of the Coiled-Coil Domain in the Potato Immune Receptor Rx1

Slootweg, E. J., Spiridon, L. N., Martin, E. C., Tameling, W. I. L., Townsend, P. D., Pomp, R., Roosien, J., Drawska, O., Sukarta, O. C. A., Schots, A., Borst, J. W., Joosten, M. H. A. J., Bakker, J., Smant, G., Cann, M. J., Petrescu, A-J. & Goverse, A., Nov 2018, In : Plant Physiology. 178, 3, p. 1310-1331

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
AIDS-Related Complex
Solanum tuberosum
Leucine
leucine
cell death
11 Citations (Scopus)
Open Access
Fungal Polysaccharides
Substrate Specificity
Mixed Function Oxygenases
Polysaccharides
Electrons
5 Citations (Scopus)

Diversity of cis-regulatory elements associated with auxin response in Arabidopsis thaliana

Cherenkov, P., Novikova, D., Omelyanchuk, N., Levitsky, V., Grosse, I., Weijers, D. & Mironova, V., 1 Jan 2018, In : Journal of Experimental Botany. 69, 2, p. 329-339

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
regulatory sequences
Indoleacetic Acids
Arabidopsis
auxins
Arabidopsis thaliana
12 Citations (Scopus)

Evolution of nuclear auxin signaling: Lessons from genetic studies with basal land plants

Kato, H., Nishihama, R., Weijers, D. & Kohchi, T., 1 Jan 2018, In : Journal of Experimental Botany. 69, 2, p. 291-301

Research output: Contribution to journalReview articleAcademicpeer-review

Open Access
Embryophyta
Indoleacetic Acids
embryophytes
auxins
Marchantia

Exploring natural genetic variation in tomato sucrose synthases on the basis of increased kinetic properties

Dinh, Q. D., Finkers, R., Westphal, A. H., van Dongen, W. M. A. M., Visser, R. G. F. & Trindade, L. M., 29 Oct 2018, In : PLoS ONE. 13, 10, e0206636.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
sucrose synthase
Lycopersicon esculentum
Haplotypes
Sucrose
haplotypes

Exploring the Resistosome of the Potato CC-NB-LRR Immune Receptor Rx1

Sukarta, O. C. A., Slootweg, E. J. (ed.), Boeren, J. A. (ed.), Roosien, J. (ed.), Pomp, H. (ed.), Bakker, J. (ed.), Smant, G. (ed.) & Goverse, A. (ed.), 2 Jul 2018.

Research output: Contribution to conferencePosterAcademic

Potato virus X
potatoes
leucine
nucleotides
cell fractionation
2 Citations (Scopus)

FRET Reveals the Formation and Exchange Dynamics of Protein-Containing Complex Coacervate Core Micelles

Nolles, A., Hooiveld, E., Westphal, A. H., van Berkel, W. J. H., Kleijn, J. M. & Borst, J. W., 2018, In : Langmuir. 34, p. 12083-12092

Research output: Contribution to journalArticleAcademicpeer-review

Micelles
Energy transfer
micelles
energy transfer
proteins

Function, localization and evolution of SOSEKI polar proteins

van Dop, M., 2018, Wageningen: Wageningen University. 173 p.

Research output: Thesisinternal PhD, WUAcademic

Open Access
2 Citations (Scopus)

Functional impact of the n-terminal arm of proline dehydrogenase from thermus thermophilus

Huijbers, M. M. E., van Alen, I., Wu, J. W., Barendregt, A., Heck, A. J. R. & Van Berkel, W. J. H., 2018, In : Molecules. 23, 1, 184.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Proline Oxidase
Thermus thermophilus
dehydrogenases
helices
Maltose-Binding Proteins
diacylglycerol acyltransferase
dietary fat
Holstein
lactation
metabolites