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2018

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

Plant Selenium Hyperaccumulation Affects Rhizosphere: Enhanced Species Richness and Altered Species Composition

Cochran, A. T., Bauer, J., Metcalf, J. L., Lovecka, P., de Jong, M. S., Warris, S., Mooijman, P. J. W., van der Meer, I. M., Knight, R. & Pilon-Smits, E. A. H., 2018, In : Phytobiomes Journal. 2, 2, p. 82-91

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
2 Citations (Scopus)

pyPaSWAS: Python-based multi-core CPU and GPU sequence alignment

Warris, S., Timal, N. R. N., Kempenaar, M., Poortinga, A. M., van de Geest, H., Varbanescu, A. L. & Nap, J. P., 1 Jan 2018, In : PLoS ONE. 13, 1, e0190279.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
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
2 Citations (Scopus)

Real-time monitoring of IL-6 and IL-10 reporter expression for anti-inflammation activity in live RAW 264.7 cells

Saiki, P., Nakajima, Y., van Griensven, L. J. L. D. & Miyazaki, K., 2 Nov 2018, In : Biochemical and Biophysical Research Communications. 505, 3, p. 885-890

Research output: Contribution to journalArticleAcademicpeer-review

1 Citation (Scopus)

Robust detection methodology of milk heat treatment in cheese based on volatile profile fingerprinting

Alewijn, M., Wehrens, R. & van Ruth, S. M., 1 Oct 2018, In : International Dairy Journal. 85, p. 211-218

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
1 Citation (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
5 Citations (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
1 Citation (Scopus)

Simple and effective purification approach to dissociate mixed water-insoluble α- and β-D-glucans and its application on the medicinal mushroom Fomitopsis betulina

de Jesus, L. I., Smiderle, F. R., Cordeiro, L. M. C., de Freitas, R. A., van Griensven, L. J. L. D. & Iacomini, M., 15 Nov 2018, In : Carbohydrate Polymers. 200, p. 353-360

Research output: Contribution to journalArticleAcademicpeer-review

5 Citations (Scopus)

The Chara Genome: Secondary Complexity and Implications for Plant Terrestrialization

Nishiyama, T., Sakayama, H., de Vries, J., Buschmann, H., Saint-Marcoux, D., Ullrich, K. K., Haas, F. B., Vanderstraeten, L., Becker, D., Lang, D., Vosolsobě, S., Rombauts, S., Wilhelmsson, P. K. I., Janitza, P., Kern, R., Heyl, A., Rümpler, F., Villalobos, L. I. A. C., Clay, J. M., Skokan, R. & 40 others, Toyoda, A., Suzuki, Y., Kagoshima, H., Schijlen, E., Tajeshwar, N., Catarino, B., Hetherington, A. J., Saltykova, A., Bonnot, C., Breuninger, H., Symeonidi, A., Radhakrishnan, G. V., Van Nieuwerburgh, F., Deforce, D., Chang, C., Karol, K. G., Hedrich, R., Ulvskov, P., Glöckner, G., Delwiche, C. F., Petrášek, J., Van de Peer, Y., Friml, J., Beilby, M., Dolan, L., Kohara, Y., Sugano, S., Fujiyama, A., Delaux, P. M., Quint, M., Theißen, G., Hagemann, M., Harholt, J., Dunand, C., Zachgo, S., Langdale, J., Maumus, F., Van Der Straeten, D., Gould, S. B. & Rensing, S. A., 12 Jul 2018, In : Cell. 174, 2, p. 448-464.e24

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
62 Citations (Scopus)

The effect of agaricus brasiliensis extract supplementation on honey bee colonies

Stevanovic, J., Stanimirovic, Z., Simeunovic, P., Lakic, N., Radovic, I., Sokovic, M. & van Griensven, L. J. L. D., Mar 2018, In : Anais da Academia Brasileira de Ciencias. 90, 1, p. 219-229

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
2 Citations (Scopus)

The effect of isabelin, a sesquiterpene lactone from Ambrosia artemisiifolia on soil microorganisms and human pathogens

Molinaro, F., Tyc, O., Beekwilder, J., Cankar, K., Bertea, C. M., Negre, M. & Garbeva, P., 1 Feb 2018, In : FEMS Microbiology Letters. 365, 4, fny001.

Research output: Contribution to journalArticleAcademicpeer-review

1 Citation (Scopus)

Transcription factor mediated control of anthocyanin biosynthesis in vegetative tissues

Outchkourov, N. S., Karlova, R. B., Hölscher, M., Schrama, X., Blilou, I., Jongedijk, E. J., Diez Simon, C., van Dijk, A. D. J., Bosch, H. J., Hall, R. D. & Beekwilder, M. J., Feb 2018, In : Plant Physiology. 176, 2, p. 1862-1878

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
9 Citations (Scopus)

Tulipa gesneriana and Lilium longiflorum PEBP Genes and Their Putative Roles in Flowering Time Control

Leeggangers, H. A. C. F., Rosilio-Brami, T., Nadal Bigas, J., Rubin, N., van Dijk, A. D. J., Nunez de Caceres Gonzalez, F. F., Saadon-Shitrit, S., Nijveen, H., Hilhorst, H. W. M., Immink, G. H. & Zaccai, M., Jan 2018, In : Plant and Cell Physiology. 59, 1, p. 90-106

Research output: Contribution to journalArticleAcademicpeer-review

7 Citations (Scopus)
2017

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

Open Access
53 Citations (Scopus)

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

A footprint of desiccation tolerance in the genome of Xerophyta viscosa

Dias Costa, M. C., Silva Artur, M. A., Maia de Oliveira, J., Jonkheer, E., Derks, M., Nijveen, H., Williams, B., Mundree, S., Jiménez-Gómez, J. M., Hesselink, T., Schijlen, E. G. W. M., Ligterink, W., Oliver, M. J., Farrant, J. M. & Hilhorst, H. W. M., 27 Mar 2017, In : Nature Plants. 3, 10 p., 17038.

Research output: Contribution to journalArticleAcademicpeer-review

45 Citations (Scopus)

A multidisciplinary phenotyping and genotyping analysis of a mapping population enables quality to be combined with yield in rice

Calingacion, M., Mumm, R., Tan, K., Quiatchon-Baeza, L., Concepcion, J. C. T., Hageman, J. A., Prakash, S., Fitzgerald, M. & Hall, R. D., 22 May 2017, In : Frontiers in Molecular Biosciences. 4, MAY, 32.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
4 Citations (Scopus)

An interactomics overview of the human and bovine milk proteome over lactation

Zhang, L., van Dijk, A-J. & Hettinga, K., 2017, In : Proteome Science. 15, 1.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
16 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
3 Citations (Scopus)

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

Botryococcus braunii strains compared for biomass productivity, hydrocarbon and carbohydrate content

Gouveia, J. D. G., Ruiz, J., van den Broek, B., Hesselink, T., Peters, S. A., Kleinegris, D. M. M., Smith, A. G., van der Veen, D., Barbosa, M. J. & Wijffels, R. H., 2017, In : Journal of Biotechnology. 248, p. 77-86

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
16 Citations (Scopus)

Categorization of species based on their microRNAs employing sequence motifs, information-theoretic sequence feature extraction, and k-mers

Yousef, M., Nigatu, D., Levy, D., Allmer, J. & Henkel, W., 13 Oct 2017, In : Eurasip Journal on Advances in Signal Processing. 2017, 10 p., 70.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
8 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

32 Citations (Scopus)

De Novo Assembly of a New Solanum pennellii Accession Using Nanopore Sequencing

Schmidt, M. H. W., Vogel, A., Denton, A. K., Istace, B., Wormit, A., van de Geest, H. C., Bolger, M. E., Alseekh, S., Mass, J., Pfaff, C., Schurr, U., Chetelat, R., Maumus, F., Aury, J-M., Koren, S., Fernie, A. R., Zamir, D., Bolger, A. & Usadel, B., Oct 2017, In : The Plant Cell. 29, 10, p. 2336-2348

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
49 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

15 Citations (Scopus)

Disparate gain and loss of parasitic abilities among nematode lineages

Holterman, M., Karegar, A., Mooijman, P., van Megen, H., van den Elsen, S., Vervoort, M. T. W., Quist, C. W., Karssen, G., Decraemer, W., Opperman, C. H., Bird, D. M., Kammenga, J., Goverse, A., Smant, G. & Helder, H., 2017, In : PLoS ONE. 12, 9, 18 p., e0185445.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
11 Citations (Scopus)
Open Access
16 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
9 Citations (Scopus)

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

Early biotic stress detection in tomato ( Solanum lycopersicum ) by BVOC emissions

Kasal-Slavik, T., Eschweiler, J., Kleist, E., Mumm, R., Goldbach, H. E., Schouten, S. & Wildt, J., 2017, In : Phytochemistry. 144, p. 180-188

Research output: Contribution to journalArticleAcademicpeer-review

3 Citations (Scopus)

Floral pathway integrator gene expression mediates gradual transmission of environmental and endogenous cues to flowering time

van Dijk, A. D. J. & Molenaar, J., 2017, In : PeerJ. 5, 4, 18 p., e3197.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
4 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
22 Citations (Scopus)

Fungal volatile compounds induce production of the secondary metabolite Sodorifen in Serratia plymuthica PRI-2C

Schmidt, R., de Jager, V., Zühlke, D., Wolff, C., Bernhardt, J., Cankar, K., Beekwilder, J., van IJcken, W., Sleutels, F., de Boer, W., Riedel, K. & Garbeva, P., 2017, In : Scientific Reports. 7, 862.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
23 Citations (Scopus)

Fusarium in the age of genomics

Waalwijk, C., Vanheule, A., Audenaert, K., Zhang, H., Warris, S., van de Geest, H. C. & van der Lee, T. A. J., 2017, In : Tropical Plant Pathology. 42, 3, p. 184-189

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
4 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
53 Citations (Scopus)

High-quality de novo assembly of the apple genome and methylome dynamics of early fruit development

Daccord, N., Celton, J-M., Linsmith, G., Becker, C., Choisne, N., Schijlen, E., van de Geest, H., Bianco, L., Micheletti, D., Velasco, R., Di Pierro, E. A., Gouzy, J., Rees, D. J. G., Guérif, P., Muranty, H., Durel, C. E., Laurens, F., Lespinasse, Y., Gaillard, S., Aubourg, S. & 5 others, Quesneville, H., Weigel, D., van de Weg, E., Troggio, M. & Bucher, E., 2017, In : Nature Genetics. 49, 7, p. 1099-1106

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
172 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
33 Citations (Scopus)

Human Alpha Galactosidases Transiently Produced in Nicotiana benthamiana Leaves: New Insights in Substrate Specificities with Relevance for Fabry Disease

Kytidou, K., Beenakker, T. J. M., Westerhof, L. B., Hokke, C. H., Moolenaar, G. F., Goosen, N., Mirzaian, M., Ferraz, M. J., De Geus, M., Kallemeijn, W. W., Overkleeft, H. S., Boot, R. G., Schots, A., Bosch, D. & Aerts, J. M. F. G., 2017, In : Frontiers in Plant Science. 8, 1026.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
5 Citations (Scopus)

Identification of a drimenol synthase and drimenol oxidase from Persicaria hydropiper, involved in the biosynthesis of insect deterrent drimanes

Henquet, M. G. L., Prota, N., van der Hooft, J. J. J., Varbanova, M., Hulzink, R. J. M., de Vos, M., Prins, M., de Both, M. T. J., Franssen, M. C. R., Bouwmeester, H. J. & Jongsma, M. A., 2017, In : The Plant Journal. 90, 6, p. 1052-1063

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
4 Citations (Scopus)

Identification of major loci and genomic regions controlling acid and volatile content in tomato fruit: Implications for flavor improvement

Bauchet, G., Grenier, S., Samson, N., Segura, V., Kende, A., Beekwilder, J., Cankar, K., Gallois, J. L., Gricourt, J., Bonnet, J., Baxter, C., Grivet, L. & Causse, M., 2017, In : New Phytologist. 215, 2, p. 624-641

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
15 Citations (Scopus)

Identification of methylated GnTI-dependent N-glycans in Botryococcus brauni

Schulze, S., Urzica, E., Reijnders, M. J. M. F., van de Geest, H., Warris, S., Bakker, L. V., Fufezan, C., Martins dos Santos, V. A. P., Schaap, P. J., Peters, S. A. & Hippler, M., 2017, In : New Phytologist. 215, 4, p. 1361-1369

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
7 Citations (Scopus)

Industrial processing versus home processing of tomato sauce: Effects on phenolics, flavonoids and in vitro bioaccessibility of antioxidants

Tomas, M., Beekwilder, J., Hall, R. D., Sagdic, O., Boyacioglu, D. & Capanoglu, E., 2017, In : Food Chemistry. 220, p. 51-58

Research output: Contribution to journalArticleAcademicpeer-review

20 Citations (Scopus)

Medicinal mushrooms: Valuable biological resources of high exploitation potential

Gargano, M. L., van Griensven, L. J. L. D., Isikhuemhen, O. S., Lindequist, U., Venturella, G., Wasser, S. P. & Zervakis, G. I., 2017, In : Plant Biosystems. 151, 3, p. 548-565

Research output: Contribution to journalArticleAcademicpeer-review

32 Citations (Scopus)

Molecular regulation of temperature-dependent floral induction in Tulipa gesneriana

Leeggangers, M., Nijveen, H., Bigas, J. N., Hilhorst, H. W. M. & Immink, R. G. H., 2017, In : Plant Physiology. 173, 3, p. 1904-1919

Research output: Contribution to journalArticleAcademicpeer-review

8 Citations (Scopus)

On the maximization of likelihoods belonging to the exponential family using a Levenberg–Marquardt approach

Giordan, M., Vaggi, F. & Wehrens, R., 2017, In : Journal of Statistical Computation and Simulation. 87, 5, p. 895-907

Research output: Contribution to journalArticleAcademicpeer-review

2 Citations (Scopus)

Phylogenomic Synteny Network Analysis of MADS-Box Transcription Factor Genes Reveals Lineage-Specific Transpositions, Ancient Tandem Duplications, and Deep Positional Conservation

Zhao, T., Holmer, R., de Bruijn, S. A., Angenent, G. C., van den Burg, H. A. & Schranz, M. E., 7 Jul 2017, In : The Plant Cell. 29, 6, p. 1278-1292

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
22 Citations (Scopus)

Plant phenotypic and transcriptional changes induced by volatiles from the fungal root pathogen Rhizoctonia solani

Cordovez da Cunha, V., Mommer, L., Moisan, K., Lucas Gomes Marques Barbosa, D., Pierik, R., Mumm, R., Carrion, V. J. & Raaijmakers, J. M., 2017, In : Frontiers in Plant Science. 8, 1262.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
20 Citations (Scopus)

Prevalence of Celiac Disease Autoimmunity Among Adolescents and Young Adults in China

Yuan, J., Zhou, C., Gao, J., Li, J., Yu, F., Lu, J., Li, X., Wang, X., Tong, P., Wu, Z., Yang, A., Yao, Y., Nadif, S., Shu, H., Jiang, X., Wu, Y., Gilissen, L. & Chen, H., 2017, In : Clinical Gastroenterology and Hepatology. 15, 10, p. 1572-1579.e1

Research output: Contribution to journalArticleAcademicpeer-review

13 Citations (Scopus)

Processing black mulberry into jam: Effects on antioxidant potential and in vitro bioaccessibility

Tomas, M., Toydemir, G., Boyacioglu, D., Hall, R. D., Beekwilder, M. J. & Capanoglu, E., 2017, In : Journal of the Science of Food and Agriculture. 97, 10, p. 3106-3113

Research output: Contribution to journalArticleAcademicpeer-review

12 Citations (Scopus)