Research Output

2018

A high-quality genome sequence of Rosa chinensis to elucidate ornamental traits

Hibrand Saint-Oyant, L., Ruttink, T., Hamama, L., Kirov, I., Lakhwani, D., Zhou, N. N., Bourke, P. M., Daccord, N., Leus, L., Schulz, D., van de Geest, H., Hesselink, T., Van Laere, K., Debray, K., Balzergue, S., Thouroude, T., Chastellier, A., Jeauffre, J., Voisine, L., Gaillard, S. & 21 others, Borm, T. J. A., Arens, P., Voorrips, R. E., Maliepaard, C., Neu, E., Linde, M., Le Paslier, M. C., Bérard, A., Bounon, R., Clotault, J., Choisne, N., Quesneville, H., Kawamura, K., Aubourg, S., Sakr, S., Smulders, M. J. M., Schijlen, E., Bucher, E., Debener, T., De Riek, J. & Foucher, F., 2018, In : Nature Plants. 4, p. 473-484

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
40 Citations (Scopus)

Exploiting next-generation sequencing to solve the haplotyping puzzle in polyploids: a simulation study

Motazedi, E., Finkers, H. J., Maliepaard, C. A. & de Ridder, D., May 2018, In : Briefings in Bioinformatics. 19, 3, p. 387-403

Research output: Contribution to journalArticleAcademicpeer-review

13 Citations (Scopus)

Genetical genomics of quality related traits in potato tubers using proteomics

Acharjee, A., Chibon, P. Y. F. R. P., Kloosterman, B. A., America, A. H. P., Renaut, J., Maliepaard, C. A. & Visser, R. G. F., 23 Jan 2018, In : BMC Plant Biology. 18, 20.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
10 Citations (Scopus)

Genetic mapping in polyploids

Bourke, P. M., 2018, Wageningen: Wageningen University. 305 p.

Research output: Thesisinternal PhD, WU

Open Access

Multi-environment QTL analysis of plant and flower morphological traits in tetraploid rose

Bourke, P. M., Gitonga, V. W., Voorrips, R. E., Visser, R. G. F., Krens, F. A. & Maliepaard, C., Oct 2018, In : Theoretical and Applied Genetics. 131, 10, p. 2055–2069

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
9 Citations (Scopus)

PolymapR-linkage analysis and genetic map construction from F1 populations of outcrossing polyploids

Bourke, P. M., van Geest, G., Voorrips, R. E., Jansen, J., Kranenburg, T., Shahin, A., Visser, R. G. F., Arens, P., Smulders, M. J. M. & Maliepaard, C., 15 Oct 2018, In : Bioinformatics. 34, 20, p. 3496-3502

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
13 Citations (Scopus)

Tools for Genetic Studies in Experimental Populations of Polyploids

Bourke, P. M., Voorrips, R. E., Visser, R. G. F. & Maliepaard, C. A., 18 Apr 2018, In : Frontiers in Plant Science. 9, 513.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
25 Citations (Scopus)

TriPoly: haplotype estimation for polyploids using sequencing data of related individuals

Motazedi, E., de Ridder, D., Finkers, R., Baldwin, S., Thomson, S., Monaghan, K. & Maliepaard, C., 15 Nov 2018, In : Bioinformatics. 34, 22, p. 3864-3872

Research output: Contribution to journalArticleAcademicpeer-review

2 Citations (Scopus)
2017

An ultra-dense integrated linkage map for hexaploid chrysanthemum enables multi-allelic QTL analysis

van Geest, G., Bourke, P. M., Voorrips, R. E., Marasek-Ciolakowska, A., Liao, Y., Post, A., van Meeteren, U., Visser, R. G. F., Maliepaard, C. & Arens, P., Dec 2017, In : Theoretical and Applied Genetics. 130, 12, p. 2527-2541

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
20 Citations (Scopus)

Comparison of selection efficiency for spring barley (Hordeum vulgare L.) under organic and conventional farming conditions

Kokare, A., Legzdina, L., Maliepaard, C., Niks, R. E. & Lammerts van Bueren, E. T., 2017, In : Crop Science. 57, 2, p. 626-636

Research output: Contribution to journalArticleAcademicpeer-review

3 Citations (Scopus)

Genetic complexity of miscanthus cell wall composition and biomass quality for biofuels

van der Weijde, T., Lessa Alvim Kamei, C., Severing, E., Torres Salvador, A. F., Gomez, L. D., Dolstra, O., Maliepaard, C. A., McQueen-Mason, S. J., Visser, R. G. F. & Trindade, L. M., 2017, In : BMC Genomics. 18, 15 p., 406.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
9 Citations (Scopus)

Partial preferential chromosome pairing is genotype dependent in tetraploid rose

Bourke, P. M., Arens, P., Voorrips, R. E., Esselink, D., Koning-Boucoiran, C. F. S., van 't Westende, W., Santos Leonardo, T., Wissink, P., Zheng, C., van Geest, G., Visser, R. G. F., Krens, F. A., Smulders, R. & Maliepaard, C., 2017, In : The Plant Journal. 90, 2, p. 330-343

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
28 Citations (Scopus)
2016

A Systems genetics approach identifies gene regulatory networks associated with fatty acid composition in brassica rapa seed

Basnet, R. K., Pino Del Carpio, D., Xiao, D., Bucher, J., Jin, M., Boyle, K., Fobert, P., Visser, R. G. F., Maliepaard, C. & Bonnema, G., 2016, In : Plant Physiology. 170, 1, p. 568-585

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
12 Citations (Scopus)

Genetic control of water and nitrate capture and their use efficiency in lettuce (Lactuca sativa L.)

Kerbiriou, P. J., Maliepaard, C. A., Stomph, T. J., Koper, M., Froissart, D., Roobeek, I., Lammerts Van Bueren, E. T. & Struik, P. C., 2016, In : Frontiers in Plant Science. 7, 343.

Research output: Contribution to journalArticleAcademicpeer-review

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

Inheritance and QTL analysis of the determinants of flower color in tetraploid cut roses

Gitonga, V. W., Stolker, R., Koning-Boucoiran, C. F. S., Aelaei, M., Visser, R. G. F., Maliepaard, C. & Krens, F. A., 2016, In : Molecular Breeding. 36, 10, 143.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
8 Citations (Scopus)

Integrating haplotype-specific linkage maps in tetraploid species using SNP markers

Bourke, P. M., Voorrips, R. E., Kranenburg, T., Jansen, H., Visser, R. G. F. & Maliepaard, C., 2016, In : Theoretical and Applied Genetics. 129, 11, p. 2211-2226 16 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
12 Citations (Scopus)

Integration of multi-omics data for prediction of phenotypic traits using random forest

Acharjee, A., Kloosterman, B., Visser, R. G. F. & Maliepaard, C., 2016, In : BMC Bioinformatics. 17, 5, 180.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
25 Citations (Scopus)

Multi-trait QTL analysis for agronomic and quality characters of Agaricus bisporus (button mushrooms)

Gao, W., Baars, J. J. P., Maliepaard, C., Visser, R. G. F., Zhang, J. & Sonnenberg, A. S. M., 2016, In : AMB Express. 6, 67.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
4 Citations (Scopus)

Systems genetics reveals key genetic elements of drought induced gene regulation in diploid potato

van Muijen, D., Kumari, A., Maliepaard, C., Visser, R. G. F. & van der Linden, G., 2016, In : Plant, Cell & Environment. 39, 9, p. 1895-1908

Research output: Contribution to journalArticleAcademicpeer-review

2 Citations (Scopus)
2015

A systems genetics study of seed quality and seedling vigour in Brassica rapa

Basnet, R. K., 2015, Wageningen: Wageningen University. 177 p.

Research output: Thesisinternal PhD, WU

Open Access
1 Citation (Scopus)

Development of the WagRhSNP AXIOM SNP Array Based on Sequences from Tetraploid Cut Roses and Garden Roses

Smulders, M. J. M., Voorrips, R. E., Esselink, G., Santos Leonardo, T. M., van 't Westende, W. P. C., Vukosavljev, M., Koning-Boucoiran, C. F. S., van de Weg, W. E., Arens, P. F. P., Schulz, D., Debener, T., Bellon, L., Mittmann, M., Pirani, A., Webster, T., Brew, F., Cox, P. & Maliepaard, C. A., 2015, Proceedings VIth International Symposiul on Rose Research and Cultivation. Debener, T. & Linde, M. (eds.). ISHS, Vol. 1064. p. 177-184

Research output: Chapter in Book/Report/Conference proceedingConference paper

5 Citations (Scopus)

QTL analysis for stomatal functioning in tetraploid Rosa x hybrida grown at high relative air humidity and its implications on postharvest longevity

Carvalho, D. R. A., Koning, C. F. S., Fanourakis, D., Vasconcelos, M. W., Carvalho, S. M. P., Heuvelink, E., Krens, F. A. & Maliepaard, C. A., 2015, In : Molecular Breeding. 35, 11 p., 172.

Research output: Contribution to journalArticleAcademicpeer-review

17 Citations (Scopus)

Quantitative Trait Locus Analysis of seed germination and seedling vigour in Brassica rapa reveals QTL hotspots and epistatic interactions

Basnet, R. K., Duwal, A., Tiwari, D. N., Xiao, D., Monakhos, S., Bucher, J., Visser, R. G. F., Groot, S. P. C., Bonnema, A. B. & Maliepaard, C. A., 2015, In : Frontiers in Plant Science. 6, 32 p., 1032.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
11 Citations (Scopus)

The double-reduction landscape in tetraploid potato as revealed by a high-density linkage map

Bourke, P. M., Voorrips, R. E., Visser, R. G. F. & Maliepaard, C., 2015, In : Genetics. 201, 3, p. 853-863

Research output: Contribution to journalArticleAcademicpeer-review

32 Citations (Scopus)

Understanding the genetic basis of potato development using a multi-trait QTL analysis

Hurtado-Lopez, P. X., Tessema, B. B., Schnabel, S. K., Maliepaard, C. A., van der Linden, C. G., Eilers, P. H. C., Jansen, J., van Eeuwijk, F. A. & Visser, R. G. F., 2015, In : Euphytica. 204, 1, p. 229-241

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
4 Citations (Scopus)
Open Access
48 Citations (Scopus)
2014
17 Citations (Scopus)

Capturing flavors from Capsicum baccatum by introgression in sweet pepper

Eggink, P. M., Tikunov, Y. M., Maliepaard, C. A., Haanstra, J. P. W., de Rooij, H., Vogelaar, A., Gutteling, E. W., Freymark, G., Bovy, A. G. & Visser, R. G. F., 2014, In : Theoretical and Applied Genetics. 127, 2, p. 373-390

Research output: Contribution to journalArticleAcademicpeer-review

16 Citations (Scopus)

Genetic variation, heritability and genotype by environment interaction of morphological traits in a tetraploid rose population

Gitonga, V. W., Koning, C. F. S., Verlinden, K., Dolstra, O., Visser, R. G. F., Maliepaard, C. A. & Krens, F. A., 2014, In : BMC Genetics. 15, 23 p., 146.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
25 Citations (Scopus)

Performance of spring barley (Hordeum vulgare) varieties under organic and conventional conditions

Kokare, A., Legzdina, L., Beinarovica, I., Niks, R. E., Maliepaard, C. A. & Lammerts Van Bueren, E., 2014, In : Euphytica. 197, 2, p. 279-293

Research output: Contribution to journalArticleAcademicpeer-review

6 Citations (Scopus)

Possibilities and challenges of the potato genome sequence

Visser, R. G. F., Bachem, C. W. B., Borm, T. J. A., de Boer, J. M., van Eck, H. J., Finkers, H. J., van der Linden, G., Maliepaard, C. A., Uitdewilligen, J. G. A. M. L., Voorrips, R. E., Vos, P. G. & Wolters, A. M. A., 2014, In : Potato Research. 57, 3-4, p. 327-330

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
4 Citations (Scopus)
2013

A taste of pepper: genetics, biochemistry and prediction of sweet pepper flavor

Eggink, P. M., 2013, S.l.: s.n.. 159 p.

Research output: Thesisinternal PhD, WU

Open Access

Comparison of Regularized Regression Methods for ~Omics Data

Acharjee, A., Finkers, H. J., Visser, R. G. F. & Maliepaard, C. A., 2013, In : Metabolomics : Open Access. 3, 3, 9 p., 126.

Research output: Contribution to journalArticleAcademicpeer-review

2012

A taste of sweet pepper: Volatile and non-volatile chemical composition of fresh sweet pepper (Capsicum annuum) in relation to sensory evaluation of taste

Eggink, P. M., Maliepaard, C. A., Tikunov, Y. M., Haanstra, J. P. W., Bovy, A. G. & Visser, R. G. F., 2012, In : Food Chemistry. 132, 1, p. 301-310

Research output: Contribution to journalArticleAcademicpeer-review

42 Citations (Scopus)
2011

Finished Genome of the Fungal Wheat Pathogen Mycosphaerella graminicola Reveals Dispensome Structure, Chromosome Plasticity, and Stealth Pathogenesis

Goodwin, S. B., Ben M'Barek, S., Dhillon, B., Wittenberg, A. H. J., Crane, C. F., Hane, J. K., Foster, A. J., van der Lee, T. A. J., Grimwood, J., Aerts, A., Antoniw, J., Bailey, A., Bluhm, B., Bowler, J., Bristow, J., van der Burgt, A., Canto-Canché, B., Churchill, A. C. L., Conde-Ferràez, L., Cools, H. J. & 37 others, Coutinho, P. M., Csukai, M., Dehal, P., de Wit, P. J. G. M., Donzelli, B., van de Geest, H. C., van Ham, R. C. H. J., Hammond-Kosack, K. E., Henrissat, B., Kilian, A., Kobayashi, A. K., Koopmann, E., Kourmpetis, Y., Kuzniar, A., Lindquist, E., Lombard, V., Maliepaard, C. A., Martins, N., Mehrabi, A., Nap, J. P. H., Ponomarenko, A., Rudd, J. J., Salamov, A., Schmutz, J., Schouten, H. J., Shapiro, H., Stergiopoulos, I., Torriani, S. F. F., Tu, H., de Vries, R. P., Waalwijk, C., Ware, S. B., Wiebenga, A., Zwiers, L. H., Oliver, R. P., Grigoriev, I. V. & Kema, G. H. J., 2011, In : Plos Genetics. 7, 6, 17 p., e1002070.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
313 Citations (Scopus)