Research Output 2006 2020

2020

Revisiting the Role of Master Regulators in Tomato Ripening

Wang, R., Angenent, G. C., Seymour, G. & de Maagd, R. A., 8 Jan 2020, In : Trends in Plant Science.

Research output: Contribution to journalArticleAcademicpeer-review

mutagenesis
ripening
tomatoes
needs assessment
gene targeting
2019

Alternative Oxidase (AOX) Senses Stress Levels to Coordinate Auxin-Induced Reprogramming From Seed Germination to Somatic Embryogenesis—A Role Relevant for Seed Vigor Prediction and Plant Robustness

Mohanapriya, G., Bharadwaj, R., Noceda, C., Costa, J. H., Kumar, S. R., Sathishkumar, R., Thiers, K. L. L., Santos Macedo, E., Silva, S., Annicchiarico, P., Groot, S. P. C., Kodde, J., Kumari, A., Gupta, K. J. & Arnholdt-Schmitt, B., 20 Sep 2019, In : Frontiers in Plant Science. 10, 1134.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
vigor
auxins
seed germination
somatic embryogenesis
prediction
3 Citations (Scopus)

Comprehensive phenotyping reveals interactions and functions of Arabidopsis thaliana TCP genes in yield determination

van Es, S. W., van der Auweraert, E., Rodrigues da Silveira, S., Angenent, G. C., van Dijk, A. D. J. & Immink, G. H., 22 Mar 2019, In : The Plant Journal.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Arabidopsis
seed yield
Arabidopsis thaliana
vegetative growth
phenotype
2 Citations (Scopus)

CRISPR/Cas inactivation of RECQ4 increases homeologous crossovers in an interspecific tomato hybrid

de Maagd, R. A., Loonen, A., Chouaref, J., Pelé, A., Meijer-Dekens, F., Fransz, P. & Bai, Y., 4 Sep 2019, In : Plant Biotechnology Journal.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Clustered Regularly Interspaced Short Palindromic Repeats
Lycopersicon esculentum
inactivation
tomatoes
wild relatives
1 Citation (Scopus)
Protein-protein Interaction
Contact
Proteins
Protein
Mutation
8 Citations (Scopus)

Long-read annotation: Automated eukaryotic genome annotation based on long-read cDNA sequencing

Cook, D. E., Valle-Inclan, J. E., Pajoro, A., Rovenich, H., Thomma, B. P. H. J. & Faino, L., 1 Jan 2019, In : Plant Physiology. 179, 1, p. 38-54 17 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
complementary DNA
DNA Sequence Analysis
sequence analysis
Complementary DNA
Genome
1 Citation (Scopus)

Morphological and Molecular Characterization of Orchid Fruit Development

Dirks-Mulder, A., Ahmed, I., uit het Broek, M., Krol, L., Menger, N., Snier, J., van Winzum, A., de Wolf, A., van 't Wout, M., Zeegers, J. J., Butôt, R., Heijungs, R., Van Heuven, B. J., Kruizinga, J., Langelaan, R., Smets, E. F., Star, W., Bemer, M. & Gravendeel, B., 19 Feb 2019, In : Frontiers in Plant Science. 10, 18 p., 137.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
fruiting
fruits
dehiscence
Angiospermae
seed shattering
8 Citations (Scopus)

Re-evaluation of transcription factor function in tomato fruit development and ripening with CRISPR/Cas9-mutagenesis

Wang, R., da Rocha Tavano, E. C., Lammers, M., Martinelli, A. P., Angenent, G. C. & de Maagd, R. A., 8 Feb 2019, In : Scientific Reports. 9, 1, 1696.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Clustered Regularly Interspaced Short Palindromic Repeats
Lycopersicon esculentum
Mutagenesis
Fruit
Transcription Factors

Seed maturation and post-harvest ripening negatively affect arabidopsis somatic embryogenesis

Wu, H., Chen, B., Fiers, M., Wróbel-Marek, J., Kodde, J., Groot, S. P. C., Angenent, G., Feng, H., Bentsink, L. & Boutilier, K., Oct 2019, In : Plant Cell, Tissue and Organ Culture. 139, 1, p. 17-27

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
seed maturation
somatic embryogenesis
ripening
Arabidopsis
embryo (plant)
3 Citations (Scopus)

The Chromatin-Associated Protein PWO1 Interacts with Plant Nuclear Lamin-like Components to Regulate Nuclear Size

Mikulski, P., Hohenstatt, M. L., Farrona, S., Smaczniak, C., Stahl, Y., Kalyanikrishna, Kaufmann, K., Angenent, G. & Schubert, D., 1 May 2019, In : The Plant Cell. 31, 5, p. 1141-1154 14 p.

Research output: Contribution to journalArticleAcademicpeer-review

Lamins
Nuclear Lamina
laminae (animals)
Chromatin
chromatin
5 Citations (Scopus)

The SAUR gene family: the plant’s toolbox for adaptation of growth and development

Stortenbeker, N. & Bemer, M., 1 Jan 2019, In : Journal of Experimental Botany. 70, 1, p. 17-27

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Plant Genes
Indoleacetic Acids
plant adaptation
Growth and Development
auxins
2018
3 Citations (Scopus)

3C in maize and arabidopsis

Weber, B., Jamge, S. & Stam, M., 2018, Plant Chromatin Dynamics: Methods and Protocols. Humana Press Inc., p. 247-270 (Methods in Molecular Biology; vol. 1675).

Research output: Chapter in Book/Report/Conference proceedingChapter

Arabidopsis
Zea mays
Chromosomes
Genome
Research
3 Citations (Scopus)

A molecular network for functional versatility of HECATE transcription factors

Gaillochet, C., Jamge, S., van der Wal, F., Angenent, G., Immink, R. & Lohmann, J. U., 1 Jul 2018, In : Plant Journal. 95, 1, p. 57-70

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
gynoecium
Transcription Factors
transcription factors
Meristem
shoot meristems
5 Citations (Scopus)

Arabidopsis thaliana ambient temperature responsive lncRNAs

Severing, E., Faino, L., Jamge, S., Busscher, M., Kuijer-Zhang, Y., Bellinazzo, F., Busscher-Lange, J., Fernández, V., Angenent, G. C., Immink, R. G. H. & Pajoro, A., 13 Jul 2018, In : BMC Plant Biology. 18, 1, 145.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
ambient temperature
Arabidopsis thaliana
Arabidopsis
flowering
genome

A seed treatment to prevent shoot apical meristem arrest in Brassica oleracea

de Jonge, J., Goffman, F. D., Kodde, J., Angenent, G. C. & Groot, S. P. C., 26 Jan 2018, In : Scientia Horticulturae. 228, p. 76-80

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
shoot meristems
apical meristems
Brassica oleracea
seed treatment
seeds
5 Citations (Scopus)

Comparative analysis of binding patterns of MADS-domain proteins in Arabidopsis thaliana

Aerts, N., de Bruijn, S., van Mourik, H., Angenent, G. C. & van Dijk, A. D. J., 25 Jun 2018, In : BMC Plant Biology. 18, 1, 131.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Arabidopsis thaliana
transcription factors
DNA-binding domains
protein binding
ecotypes

Desiccation sensitive seeds: understanding their evolution, genetics and physiology

Correia Silva de Santana Marques, A., 2018, Wageningen: Wageningen University. 189 p.

Research output: Thesisinternal PhD, WU

Open Access
desiccation (plant physiology)
physiology
seeds
seed development
germination
3 Citations (Scopus)
cauliflower
ambient temperature
gene
curds (plant)
flowering
5 Citations (Scopus)

Engineering storage capacity for volatile sesquiterpenes in Nicotiana benthamiana leaves

Delatte, T. L., Scaiola, G., Molenaar, J., de Sousa Farias, K., Alves Gomes Albertti, L., Busscher, J., Verstappen, F., Carollo, C., Bouwmeester, H. & Beekwilder, J., Dec 2018, In : Plant Biotechnology Journal. 16, 12, p. 1997-2006

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Nicotiana benthamiana
Sesquiterpenes
sesquiterpenoids
lipid bodies
Tobacco

Environmental tuning of the genetic control of seed performance: a systems genetics approach

Serin, E. A. R., 2018, Wageningen: Wageningen University. 214 p.

Research output: Thesisinternal PhD, WU

Open Access
seeds
genotype
seed quality
quantitative trait loci
metabolome
21 Citations (Scopus)

Genetic control of meristem arrest and life span in Arabidopsis by a FRUITFULL-APETALA2 pathway

Balanzà, V., Martínez-Fernández, I., Sato, S., Yanofsky, M. F., Kaufmann, K., Angenent, G. C., Bemer, M. & Ferrándiz, C., 8 Feb 2018, In : Nature Communications. 9, 1, 565.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
life span
Meristem
fruits
Fruits
Arabidopsis

Identification and functional analyses of genes regulating seed dormancy, longevity and germination

Yazdanpanah, F., 2018, Wageningen: Wageningen University. 150 p.

Research output: Thesisinternal PhD, WU

Open Access
seed dormancy
germination
seeds
genes
NADP (coenzyme)
2 Citations (Scopus)

Identification of in planta protein–protein interactions using IP-MS

Jamge, S., Angenent, G. & Bemer, M., 2018, Plant Chromatin Dynamics: Methods and Protocols. Humana Press Inc., p. 315-329 (Methods in Molecular Biology; vol. 1675).

Research output: Chapter in Book/Report/Conference proceedingChapter

Immunoprecipitation
Chromatin
Mass Spectrometry
Transcription Factors
Protein Interaction Maps
Open Access
flowering
transcription factors
regulator genes
proteins
protein-protein interactions
2 Citations (Scopus)

Microbiome-related metabolite changes in gut tissue, cecum content and feces of rats treated with antibiotics

Behr, C., Sperber, S., Jiang, X., Strauss, V., Kamp, H., Walk, T., Herold, M., Beekmann, K., Rietjens, I. M. C. M. & van Ravenzwaay, B., 15 Sep 2018, In : Toxicology and Applied Pharmacology. 355, p. 198-210

Research output: Contribution to journalArticleAcademicpeer-review

Cecum
Microbiota
Metabolites
Feces
Rats
9 Citations (Scopus)

Novel functions of the Arabidopsis transcription factor TCP5 in petal development and ethylene biosynthesis

van Es, S. W., Silveira, S. R., Rocha, D. I., Bimbo, A., Martinelli, A. P., Dornelas, M. C., Angenent, G. C. & Immink, G. H., Jun 2018, In : The Plant Journal. 94, 5, p. 867-879

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Arabidopsis
ethylene production
corolla
Transcription Factors
transcription factors

Organic seed production, certification and availability: Corp Breeding and cultivation:

Groot, S. P. C. & Raaijmakers, M. H. J. E., 2018, Improving organic crop cultivation. Köpke, U. (ed.). Cambridge, UK: Burleigh Dodds Science Publishing Limited

Research output: Chapter in Book/Report/Conference proceedingChapter

seed crop production
certification
breeding
seeds
seed quality

PISTILLATA paralogs in Tarenaya hassleriana have diverged in interaction specificity

de Bruijn, S., Zhao, T., Muiño, J. M., Schranz, E. M., Angenent, G. C. & Kaufmann, K., 22 Dec 2018, In : BMC Plant Biology. 18, 1, 368.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Brassicaceae
Cleomaceae
transposition (genetics)
Angiospermae
amino acid sequences
5 Citations (Scopus)

Profiling nucleosome occupancy by MNase-seq: Experimental protocol and computational analysis

Pajoro, A., Muiño, J. M., Angenent, G. C. & Kaufmann, K., 2018, Plant Chromatin Dynamics: Methods and Protocols. Humana Press Inc., p. 167-181 (Methods in Molecular Biology; vol. 1675).

Research output: Chapter in Book/Report/Conference proceedingChapter

Micrococcal Nuclease
Nucleosomes
Genome
Chromatin
Digestion
2 Citations (Scopus)

Rapid loss of seed viability in ex situ conserved wheat and barley at 4°C as compared to −20°C storage

van Treuren, R., Bas, N., Kodde, J., Groot, S. P. C. & Kik, C., 25 Jun 2018, In : Conservation Physiology. 6, 1, coy033.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Hordeum
barley
Triticum
Seeds
viability
3 Citations (Scopus)

Role of Tulipa gesneriana TEOSINTE BRANCHED1 (TgTB1) in the control of axillary bud outgrowth in bulbs

Moreno-Pachon, N. M., Mutimawurugo, M. C., Heynen, E., Sergeeva, L., Benders, A., Blilou, I., Hilhorst, H. W. M. & Immink, R. G. H., Jun 2018, In : Plant Reproduction. 31, 2, p. 145-157

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Tulipa
Tulipa gesneriana
bulbs
buds
dormancy

Sculpting a plant: TCP transcription factors as key regulators of plant growth and development

Es, S. W., 2018, Wageningen: Wageningen University. 173 p.

Research output: Thesisinternal PhD, WU

Open Access
corolla
plant development
growth and development
transcription factors
plant growth
1 Citation (Scopus)

Seed dormancy release accelerated by elevated partial pressure of oxygen is associated with DOG loci

Buijs, G., Kodde, J., Groot, S. P. C. & Bentsink, L., 27 Jun 2018, In : Journal of Experimental Botany. 69, 15, p. 3601-3608

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Plant Dormancy
Partial Pressure
seed dormancy
after-ripening
Oxygen
3 Citations (Scopus)

Unraveling the complex epigenetic mechanisms that regulate gene activity

Bemer, M., 2018, Plant Chromatin Dynamics. Humana Press Inc., p. 205-231 (Methods in Molecular Biology; vol. 1675).

Research output: Chapter in Book/Report/Conference proceedingChapter

Epigenomics
Genes
Transcription Factors
Histone Code
Nucleic Acid Conformation

Vitale Teelt 2030: Visie van de bloembollensector

Looman, B. H. M., Poot, E. H. & Immink, G. H., 2018, KAVB. 19 p.

Research output: Book/ReportReportProfessional

Open Access
2017
46 Citations (Scopus)

Abscisic acid signaling is controlled by a BRANCHED1/HD-ZIP i cascade in Arabidopsis axillary buds

Gonzalez-Grandio, E., Pajoro, A., Franco-Zorrilla, J. M., Tarancon, C., Immink, R. G. H. & Cubas, P., 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 2, p. E245-E254

Research output: Contribution to journalArticleAcademicpeer-review

leucine zipper
homeodomain proteins
abscisic acid
Zea
buds

A cautionary note on the use of chromosome conformation capture in plants

Jamge, S., Stam, M., Angenent, G. C. & Immink, R. G. H., 16 Nov 2017, In : Plant Methods. 13, 1, 101.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Chromatin
Chromosomes
chromosomes
chromatin
Suppressor Genes

Ambient temperature‐directed flowering time regulation: the role of alternative splicing

Verhage, D. S. L., 2017, Wageningen: Wageningen University. 161 p.

Research output: Thesisinternal PhD, WU

Open Access
alternative splicing
ambient temperature
flowering
genes
temperature
3 Citations (Scopus)

A plant-based chemical genomics screen for the identification of flowering inducers

Fiers, M., Hoogenboom, J., Brunazzi, A., Wennekes, T., Angenent, G. C. & Immink, R. G. H., 3 Oct 2017, In : Plant Methods. 13, 9 p., 78.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Genomics
Arabidopsis
Salicylic Acid
flowering
genomics

A transcriptional view on somatic embryogenesis

Horstman, A., Bemer, M. & Boutilier, K. A., 1 Aug 2017, In : Regeneration. 4, 4, p. 201-216

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
somatic embryogenesis
transcription factors
embryo (plant)
chromatin
hormones
30 Citations (Scopus)

Cross-Family Transcription Factor Interactions: An Additional Layer of Gene Regulation

Bemer, M., van Dijk, A-J., Immink, R. G. H. & Angenent, G. C., 2017, In : Trends in Plant Science. 22, 1, p. 66-80

Research output: Contribution to journalArticleAcademicpeer-review

transcription factors
genes
gene expression
protein-protein interactions
DNA
15 Citations (Scopus)

Differences in DNA binding specificity of floral homeotic protein complexes predict organ-specific target genes

Smaczniak, C., Muiño, J. M., Chen, D., Angenent, G. C. & Kaufmann, K., 2017, In : The Plant Cell. 29, 8, p. 1822-1835

Research output: Contribution to journalArticleAcademicpeer-review

homeodomain proteins
Homeodomain Proteins
MADS Domain Proteins
DNA
Genes
8 Citations (Scopus)

Divergent regulation of Arabidopsis SAUR genes: A focus on the SAUR10-clade

van Mourik, H., van Dijk, A. D. J., Stortenbeker, N., Angenent, G. C. & Bemer, M., 19 Dec 2017, In : BMC Plant Biology. 17, 245.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
auxins
Arabidopsis
RNA
genes
transcription factors

Don't waste your efforts

Groot, S. P. C., 8 Oct 2017, In : Prophyta - Focus on Europe. p. 32-34

Research output: Contribution to journalArticleProfessional

Open Access
seed quality
crop-weed competition
nutrient uptake
root systems
seedlings
22 Citations (Scopus)

FRUITFULL controls SAUR10 expression and regulates Arabidopsis growth and architecture

Bemer, M., van Mourik, H., Muiño, J. M., Ferrándiz, C., Kaufmann, K. & Angenent, G. C., 15 Jun 2017, In : Journal of Experimental Botany. 68, 13, p. 3391-3403

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Indoleacetic Acids
Arabidopsis
auxins
branches
RNA
49 Citations (Scopus)

Genetic architecture of plant stress resistance: multi-trait genome-wide association mapping

Thoen, H. P. M., Davila Olivas, N. H., Kloth, K. J., Coolen, S., Huang, P., Aarts, M. G. M., Molenaar, J. A., Bakker, J., Bouwmeester, H. J., Broekgaarden, C., Bucher, J., Busscher-Lange, J., Cheng, X., van Dijk-Fradin, E. F., Jongsma, M. A., Julkowska, M. M., Keurentjes, J. J. B., Ligterink, W., Pieterse, C. M. J., Ruyter-Spira, C. P. & 13 others, Smant, G., van Schaik, C. C., van Wees, S. C. M., Visser, R. G. F., Voorrips, R. E., Vosman, B., Vreugdenhil, D., Warmerdam, S., Wiegers, G. L., van Heerwaarden, J., Kruijer, W. T., van Eeuwijk, F. A. & Dicke, M., 2017, In : New Phytologist. 213, 3, p. 1346-1362

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
plant stress
stress tolerance
chromosome mapping
Genome
single nucleotide polymorphism
26 Citations (Scopus)

Histone H3 lysine 36 methylation affects temperature-induced alternative splicing and flowering in plants

Pajoro, A., Severing, E., Angenent, G. C. & Immink, R. G. H., 2017, In : Genome Biology. 18, 12 p., 102.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
alternative splicing
Alternative Splicing
methylation
histones
Histones

Inhibition of bolting and flowering of a beta vulgaris plant

de Maagd, R. A., van Arkel, J., Angenent, G. C., Wurbs, D. & Kraus, J., 4 May 2017, Patent No. WO2017072304, Priority date 30 Oct 2015

Research output: PatentOther research output

Open Access
bolting
Beta vulgaris
flowering
genetically modified organisms
vernalization

MADS evolution : insights into evolutionary changes in transcription factors and their binding sites

de Bruijn, S-A., 2017, Wageningen: Wageningen University. 195 p.

Research output: Thesisinternal PhD, WU

Open Access
binding sites
transcription factors
ecotypes
flowers
Aquilegia

MADS specificity: Unravelling the dual function of the MADS domain protein FRUITFULL

van Mourik, H., 2017, Wageningen: Wageningen University. 199 p.

Research output: Thesisinternal PhD, WU

Open Access
MADS Domain Proteins
DNA
Transcription Factors
Proteins
Indoleacetic Acids