Research Output 1993 2020

2020

Aphid resistance in Capsicum maps to a locus containing LRR-RLK gene analogues

Sun, M., Voorrips, R. E., van’t Westende, W., van Kaauwen, M., Visser, R. G. F. & Vosman, B., Jan 2020, In : Theoretical and Applied Genetics. 133, 1, p. 227-237

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Capsicum
Aphids
Aphidoidea
quantitative trait loci
loci
1 Citation (Scopus)

Carbon partitioning mechanisms in POTATO under drought stress

Aliche, E. B., Theeuwen, T. P. J. M., Oortwijn, M., Visser, R. G. F. & van der Linden, G., 1 Jan 2020, In : Plant Physiology and Biochemistry. 146, p. 211-219 9 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Droughts
water stress
Carbon
Solanum tuberosum
potatoes

Morphological and physiological responses of the potato stem transport tissues to dehydration stress

Aliche, E. B., Prusova-Bourke, A., Ruiz-Sanchez, M., Oortwijn, M., Gerkema, E., Van As, H., Visser, R. G. F. & van der Linden, C. G., 8 Jan 2020, In : Planta. 251, 2, 45.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Xylem
desiccation (plant physiology)
Solanum tuberosum
Dehydration
plant response

Optimisation of droplet digital PCR for determining copy number variation of α-gliadin genes in mutant and gene-edited polyploid bread wheat

Jouanin, A., Tenorio-Berrio, R., Schaart, J. G., Leigh, F., Visser, R. G. F. & Smulders, M. J. M., Mar 2020, In : Journal of Cereal Science. 92, 102903.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Gliadin
Polyploidy
gliadin
Bread
polyploidy

The ability to manipulate ROS metabolism in pepper may affect aphid virulence

Sun, M., Voorrips, R. E., van Kaauwen, M., Visser, R. G. F. & Vosman, B., 1 Jan 2020, In : Horticulture Research. 7, 1, 6.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Aphids
sweet peppers
Metabolism
Virulence
Aphidoidea

Wheat bran addition improves Ceriporiopsis subvermispora and Lentinula edodes growth on wheat straw, but not delignification

Mao, L., Cone, J. W., Hendriks, W. H. & Sonnenberg, A. S. M., 1 Jan 2020, In : Animal Feed Science and Technology. 259, 114361.

Research output: Contribution to journalArticleAcademicpeer-review

Ceriporiopsis subvermispora
delignification
Lentinula edodes
wheat bran
wheat straw
2019
1 Citation (Scopus)

Addendum: The FAIR Guiding Principles for scientific data management and stewardship

Wilkinson, M. D., Dumontier, M., Aalbersberg, I. J., Appleton, G., Axton, M., Baak, A., Blomberg, N., Boiten, J. W., Da Silva Santos, L. B., Bourne, P. E., Bouwman, J., Brookes, A. J., Clark, T., Crosas, M., Dillo, I., Dumon, O., Edmunds, S., Evelo, C. T., Finkers, R., Gonzalez-Beltran, A. & 33 others, Gray, A. J. G., Groth, P., Goble, C., Grethe, J. S., Heringa, J., 't Hoen, P. A. C., Hooft, R., Kuhn, T., Kok, R., Kok, J., Lusher, S. J., Martone, M. E., Mons, A., Packer, A. L., Persson, B., Rocca-Serra, P., Roos, M., van Schaik, R., Sansone, S. A., Schultes, E., Sengstag, T., Slater, T., Strawn, G., Swertz, M. A., Thompson, M., van der Lei, J., van Mulligen, E., Velterop, J., Waagmeester, A., Wittenburg, P., Wolstencroft, K., Zhao, J. & Mons, B., 2019, In : Scientific Data. 6, 6.

Research output: Contribution to journalComment/Letter to the editorAcademic

Open Access
Data Management
Information management
management
Stewardship
Data management
1 Citation (Scopus)

An Alternative Bioassay for Synchytrium endobioticum Demonstrates the Expression of Potato Wart Resistance in Aboveground Plant Parts

van de Vossenberg, B. T. L. H., van Gent-Pelzer, M. P. E., Boerma, M., van der Gouw, L. P., van der Lee, T. A. J. & Vossen, J. H., 10 May 2019, In : Phytopathology. 109, 6, p. 1043-1052 10 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Synchytrium endobioticum
warts
plant anatomy
bioassays
potatoes
2 Citations (Scopus)

Apple whole genome sequences: recent advances and new prospects

Peace, C. P., Bianco, L., Troggio, M., van de Weg, E., Howard, N. P., Cornille, A., Durel, C. E., Myles, S., Migicovsky, Z., Schaffer, R. J., Costes, E., Fazio, G., Yamane, H., van Nocker, S., Gottschalk, C., Costa, F., Chagné, D., Zhang, X., Patocchi, A., Gardiner, S. E. & 7 others, Hardner, C., Kumar, S., Laurens, F., Bucher, E., Main, D., Jung, S. & Vanderzande, S., 5 Apr 2019, In : Horticulture Research. 6, 1, 59.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Malus
apples
Genes
Genome
genome

A rapid method to screen wild Solanum for resistance to early blight

Wolters, P. J., de Vos, L., Bijsterbosch, G., Woudenberg, J. H. C., Visser, R. G. F., van der Linden, G. & Vleeshouwers, V. G. A. A., May 2019, In : European Journal of Plant Pathology. 154, 1, p. 109-114

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Solanum
blight
rapid methods
genotype
breeding
1 Citation (Scopus)

A second HD mating type sublocus of Flammulina velutipes is at least di-allelic and active: New primers for identification of HD - A and HD-b subloci

Wang, W., Mukhtar, I., Chou, T., Jiang, S., Liu, X., Van Peer, A. F. & Xie, B., 22 Feb 2019, In : PeerJ. 2019, 2, e6292.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Flammulina
Flammulina velutipes
Genes
loci
genes

Association mapping and genetic dissection of drought-induced canopy temperature differences in rice

Melandri, G., Prashar, A., Mccouch, S. R., Van Der Linden, G., Jones, H. G., Kadam, N., Jagadish, K., Bouwmeester, H., Ruyter-Spira, C. & Dhankher, O. (ed.), 17 Dec 2019, In : Journal of Experimental Botany. erz527.

Research output: Contribution to journalArticleAcademicpeer-review

Droughts
chromosome mapping
Dissection
drought
canopy
1 Citation (Scopus)

Black spot partial resistance in diploid roses: QTL discovery and linkage map creation

Yan, M., Byrne, D. H., Klein, P. E., van de Weg, W. E., Yang, J. & Cai, L., 1 Jan 2019, In : Acta Horticulturae. 1232, p. 135-141

Research output: Contribution to journalArticleAcademicpeer-review

chromosome mapping
quantitative trait loci
Rosa
diploidy
Diplocarpon rosae
4 Citations (Scopus)

BrAPI-an application programming interface for plant breeding applications

Selby, P., Abbeloos, R., Backlund, J. E., Basterrechea Salido, M., Bauchet, G., Benites-Alfaro, O. E., Birkett, C., Calaminos, V. C., Carceller, P., Cornut, G., Vasques Costa, B., Edwards, J. D., Finkers, R., Yanxin Gao, S., Ghaffar, M., Glaser, P., Guignon, V., Hok, P., Kilian, A., König, P. & 30 others, Lagare, J. E. B., Lange, M., Laporte, M. A., Larmande, P., LeBauer, D. S., Lyon, D. A., Marshall, D. S., Matthews, D., Milne, I., Mistry, N., Morales, N., Mueller, L. A., Neveu, P., Papoutsoglou, E., Pearce, B., Perez-Masias, I., Pommier, C., Ramírez-González, R. H., Rathore, A., Raquel, A. M., Raubach, S., Rife, T., Robbins, K., Rouard, M., Sarma, C., Scholz, U., Sempéré, G., Shaw, P. D., Simon, R. & Verouden, M., 15 Oct 2019, In : Bioinformatics (Oxford, England). 35, 20, p. 4147-4155

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Application programming interfaces (API)
Breeding
Programming
Specifications
Specification
13 Citations (Scopus)

Breeding progress and preparedness for mass-scale deployment of perennial lignocellulosic biomass crops switchgrass, miscanthus, willow and poplar

Clifton-Brown, J., Harfouche, A., Casler, M. D., Dylan Jones, H., Macalpine, W. J., Murphy-Bokern, D., Smart, L. B., Adler, A., Ashman, C., Awty-Carroll, D., Bastien, C., Bopper, S., Botnari, V., Brancourt-Hulmel, M., Chen, Z., Clark, L. V., Cosentino, S., Dalton, S., Davey, C., Dolstra, O. & 30 others, Donnison, I., Flavell, R., Greef, J., Hanley, S., Hastings, A., Hertzberg, M., Hsu, T. W., Huang, L. S., Iurato, A., Jensen, E., Jin, X., Jørgensen, U., Kiesel, A., Kim, D. S., Liu, J., McCalmont, J. P., McMahon, B. G., Mos, M., Robson, P., Sacks, E. J., Sandu, A., Scalici, G., Schwarz, K., Scordia, D., Shafiei, R., Shield, I., Slavov, G., Stanton, B. J., Swaminathan, K. & Trindade, L. M., Jan 2019, In : GCB Bioenergy. 11, 1, p. 118-151

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Miscanthus
Panicum virgatum
energy crops
Crops
Biomass
2 Citations (Scopus)
Open Access
warts
Warts
Disease Resistance
Pedigree
Solanum tuberosum

Convergent evolution of hetero-oligomeric cellulose synthesis complexes in mosses and seed plants

Li, X., Speicher, T. L., Dees, D. C. T., Mansoori, N., McManus, J. B., Tien, M., Trindade, L. M., Wallace, I. S. & Roberts, A. W., 25 Apr 2019, In : Plant Journal.

Research output: Contribution to journalArticleAcademicpeer-review

Bryophyta
convergent evolution
Spermatophytina
Cellulose
mosses and liverworts

Correction to: Molecular characterization of Ecuadorian quinoa (Chenopodium quinoa Willd.) diversity: implications for conservation and breeding

Salazar, J., Roman, V. J., Gutierrez, B., van Loo, E. N., de Lourdes Torres, M. & Torres, A. F., 25 Nov 2019, In : Euphytica. 215, 12, 209.

Research output: Contribution to journalComment/Letter to the editorAcademic

Open Access
Chenopodium quinoa
Ecuador
Breeding
San Francisco
breeding
1 Citation (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
Open Access
downy mildew
powdery mildew
cucumbers
genes
quantitative trait loci

De novo transcriptome analysis of Viola × wittrockiana exposed to high temperature stress

Du, X., Zhu, X., Yang, Y., Wang, Y., Arens, P. & Liu, H., 24 Sep 2019, In : PLoS ONE. 14, 9, e0222344.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Viola wittrockiana
Viola
Gene Expression Profiling
transcriptomics
Genes

Developing a stronger and better - tasting mushroom with unique features: An innovative multi-disciplinary approach

Baars, J., Mumm, R., Stijger, I., Engel, J. & Wehrens, R., 2019, Wageningen: Stichting Wageningen Research, Wageningen Plant Research, Business unit Plant Breeding. 36 p. (Rapport / Stichting Wageningen Research, Wageningen Plant Research, Business unit Plant Breeding; no. 2019-1)

Research output: Book/ReportReportProfessional

Open Access
1 Citation (Scopus)

Development of an in vitro protocol to screen Clavibacter michiganensis subsp. michiganensis pathogenicity in different Solanum species.

Mohd Nadzir, M. M., Vieira Lelis, F., Thapa, B., Ali, A., Visser, R. G. F., van Heusden, A. W. & van der Wolf, J. M., Jan 2019, In : Plant Pathology. 68, 1, p. 42-48

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Clavibacter michiganensis subsp. michiganensis
Solanum
Lycopersicon esculentum
Virulence
pathogenicity
1 Citation (Scopus)

Development of the GlutEnSeq capture system for sequencing gluten gene families in hexaploid bread wheat with deletions or mutations induced by γ-irradiation or CRISPR/Cas9

Jouanin, A., Borm, T., Boyd, L. A., Cockram, J., Leigh, F., Santos, B. A. C. M., Visser, R. G. F. & Smulders, M. J. M., 1 Jul 2019, In : Journal of Cereal Science. 88, p. 157-166 10 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Clustered Regularly Interspaced Short Palindromic Repeats
Glutens
Sequence Deletion
Bread
hexaploidy

Elucidating the genetic background of the early-flowering transgenic genetic stock T1190 with a high-density SNP array

Luo, F., van de Weg, E., Vanderzande, S., Norelli, J. L., Flachowsky, H., Hanke, V. & Peace, C., 1 Feb 2019, In : Molecular Breeding. 39, 2, 21.

Research output: Contribution to journalArticleAcademicpeer-review

genetic background
Breeding
Single Nucleotide Polymorphism
Malus
genetically modified organisms

Evaluation of fungal degradation of wheat straw cell wall using different analytical methods from ruminant nutrition perspective

Nayan, N., van Erven, G., Kabel, M. A., Sonnenberg, A. S. M., Hendriks, W. H. & Cone, J. W., Jun 2019, In : Journal of the Science of Food and Agriculture. 99, 8, p. 4054-4062

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
ruminant nutrition
Ruminants
wheat straw
Cell Wall
Triticum
2 Citations (Scopus)

Exploring the unmapped DNA and RNA reads in a songbird genome

Laine, V. N., Gossmann, T. I., van Oers, K., Visser, M. E. & Groenen, M. A. M., 8 Jan 2019, In : BMC Genomics. 20, 1, 19.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Songbirds
Genome
RNA
DNA
Trypanosoma

Family-based haplotype estimation and allele dosage correction for polyploids using short sequence reads

Motazedi, E., Maliepaard, C., Finkers, R., Visser, R. & De Ridder, D., 16 Apr 2019, In : Frontiers in Genetics. 10, MAR, 335.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Polyploidy
Haplotypes
Alleles
Genotype
Population

Far-red radiation increases dry mass partitioning to fruits but reduces Botrytis cinerea resistance in tomato

Ji, Y., Ouzounis, T., Courbier, S., Kaiser, E., Nguyen, P. T., Schouten, H. J., Visser, R. G. F., Pierik, R., Marcelis, L. F. M. & Heuvelink, E., 1 Dec 2019, In : Environmental and Experimental Botany. 168, 103889.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Botrytis cinerea
partitioning
fruit
tomatoes
fruits

FitTetra 2.0 - Improved genotype calling for tetraploids with multiple population and parental data support

Zych, K., Gort, G., Maliepaard, C. A., Jansen, R. C. & Voorrips, R. E., 20 Mar 2019, In : BMC Bioinformatics. 20, 1, 148.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Tetraploidy
Genotype
Software
Population
Proportion

From metagenome to gene: Identification of the first Synchytrium endobioticum effector through comparative genomics

van de Vossenberg, B. T. L. H., 2019, Wageningen: Wageningen University. 290 p.

Research output: Thesisinternal PhD, WU

Open Access
Synchytrium endobioticum
potatoes
genomics
warts
genes

Gene editing towards hypoimmunogenic gluten proteins in wheat

Jouanin, A. A., 2019, Wageningen: Wageningen University. 212 p.

Research output: Thesisinternal PhD, WU

wheat protein
gluten
wheat
genes
gliadin

Genetic analysis of fruit quality in tomato

Roohanitaziani, R., 2019, Wageningen: Wageningen University. 194 p.

Research output: Thesisinternal PhD, WU

genetic techniques and protocols
fruit quality
tomatoes
flavor
shelf life

Genetic Diversity of Potato Cultivars for Nitrogen Use Efficiency Under Contrasting Nitrogen Regimes

Getahun, B. B., Kassie, M. M., Visser, R. G. F. & van der Linden, G., 14 Oct 2019, In : Potato Research.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
nutrient use efficiency
Solanum tuberosum
Nitrogen
potatoes
canopy

Genetic mapping of tuber size distribution and marketable tuber yield under drought stress in potatoes

Aliche, E. B., Oortwijn, M., Theeuwen, T. P. J. M., Bachem, C. W. B., van Eck, H. J., Visser, R. G. F. & van der Linden, G., 1 Oct 2019, In : Euphytica. 215, 11, 186.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Droughts
Solanum tuberosum
chromosome mapping
tubers
water stress
4 Citations (Scopus)

Genetic variation in phytochemicals in leaves of pepper (Capsicum) in relation to thrips resistance

Maharijaya, A., Vosman, B., Pelgrom, K., Wahyuni, Y., de Vos, R. C. H. & Voorrips, R. E., Feb 2019, In : Arthropod-Plant Interactions. 13, 1, p. 1-9

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
thrips
Capsicum
sweet peppers
Thysanoptera
phytopharmaceuticals

Genome wide association studies and whole transcriptomic survey decipher the fruit texture regulation in apple towards the selection of novel superior accessions

Di Guardo, M., Tadiello, A., Farneti, B., Busatto, N., Delledonne, M., Guerra, W., Letschka, T., Lozano, L., Velasco, R., Van de Weg, E., Bink, M. & Costa, F., 2019, In : Acta Horticulturae. 1242, p. 441-446 6 p.

Research output: Contribution to journalArticleAcademicpeer-review

transcriptomics
apples
texture
fruits
pedigree

Genome-wide transcriptome analysis reveals molecular pathways involved in leafy head formation of Chinese cabbage (Brassica rapa)

Sun, X. X., Basnet, R. K., Yan, Z., Bucher, J., Cai, C., Zhao, J. & Bonnema, G., 1 Dec 2019, In : Horticulture Research. 6, 1, 130.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Brassica rapa
Chinese cabbage
Brassica
Gene Expression Profiling
transcriptomics
Open Access
genomics
genome
world wide web
Solanaceae
quantitative trait loci

Glucosinolate variability between turnip organs during development

Bonnema, G., Lee, J. G., Shuhang, W., Lagarrigue, D., Bucher, J., Wehrens, R., De Vos, R. & Beekwilder, J., 1 Jun 2019, In : PLoS ONE. 14, 6, e0217862.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Glucosinolates
Brassica napus
turnips
glucosinolates
tubers
Open Access
plant breeding
biotechnology
Netherlands
students
methodology

Haplotype assembly of autotetraploid potato using integer linear programing

Siragusa, E., Haiminen, N., Finkers, R., Visser, R. & Parida, L., 15 Sep 2019, In : Bioinformatics (Oxford, England). 35, 18, p. 3279-3286 8 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Linear Programming
Haplotype
Potato
Solanum tuberosum
Haplotypes

Haplotype estimation in polyploids using DNA sequence data

Motazedi, E., 2019, Wageningen: Wageningen University. 153 p.

Research output: Thesisinternal PhD, WU

Open Access
polyploidy
haplotypes
nucleotide sequences
inheritance (genetics)
alleles
Open Access
Solanum arcanum
plant growth
sucrose
leaf area
temperature

High-quality, genome-wide SNP genotypic data for pedigreed germplasm of the diploid outbreeding species apple, peach, and sweet cherry through a common workflow

Vanderzande, S., Howard, N. P., Cai, L., Da Silva Linge, C., Antanaviciute, L., Bink, M. C. A. M., Kruisselbrink, J. W., Bassil, N., Gasic, K., Iezzoni, A., Van de Weg, E. & Peace, C., 27 Jul 2019, In : PLoS ONE. 14, 6, e0210928.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
outbreeding
Workflow
Malus
Prunus avium
Diploidy
2 Citations (Scopus)

Improving ruminal digestibility of various wheat straw types by white-rot fungi

Nayan, N., van Erven, G., Kabel, M. A., Sonnenberg, A. S. M., Hendriks, W. H. & Cone, J. W., 2019, In : Journal of the Science of Food and Agriculture. 99, 2, p. 957-965

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
white-rot fungi
wheat straw
Lignin
Triticum
straw
1 Citation (Scopus)

Incorporating genome-wide association into eco-physiological simulation to identify markers for improving rice yields

Kadam, N. N., Jagadish, K. S. V., Struik, P. C., van der Linden, G. C. & Yin, X., 29 Apr 2019, In : Journal of Experimental Botany. 70, 9, p. 2575-2586 12 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Single Nucleotide Polymorphism
crop models
Genome
single nucleotide polymorphism
rice

Increased virulence of Globodera pallida during repeated rearing on different resistant potato cultivars explained by a simple model

Beniers, J. E., Nöllen, Y., van Eck, H. J. & Schouten, H. J., Apr 2019, In : Plant Pathology. 68, 3, p. 445-453

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Globodera pallida
Solanum tuberosum
Virulence
rearing
virulence

In the name of the rose: a roadmap for rose research in the genome era

Smulders, M. J. M., Arens, P., Bourke, P. M., Debener, T., Linde, M., De Riek, J., Leus, L., Ruttink, T., Baudino, S., Hibrant Saint-Oyant, L., Clotault, J. & Foucher, F., 3 May 2019, In : Horticulture Research. 6, 1, 65.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Rosa
Genes
Genome
genome
Breeding