Assessment of genetic diversity relies on the availability of molecular markers in relevant species. Design of markers and development of new marker systems is therefore an essential part of our work.
 These include the development of new SSR markers in a variety of species, the development and application of marker systems targeting functional genes (Motif-directed Profiling, including NBS Profiling), DArT and the discovery of Single Nucleotide Polymorphisms (SNPs) in targeted functional genes and in large nucleotide databases (ESTs, genome sequences).
Motif-directed profiling has been developed for targeting protein kinases, Myb genes (involved in flavonoid synthesis and salt tolerance), WRKY genes (regulators of defense pathways) and MADS box genes (which regulate organ identity).
We have developed software for efficient recovery of reliable SNPs from large EST datasets (QualitySNP).
Publications in PDF:
- Arens P, JH Wernke-Lenting, T Diekötter, C. Rothenbühler, M. Speelmans, F Hendrickx, MJM Smulders (2005) Isolation and characterisation of microsatellite loci in the dark bush cricket, Pholidoptera griseoaptera (Tettigoniidae). Molecular Ecology Notes 5: 413-415
- Arens P, W Durka, JH Wernke-Lenting, MJM Smulders (2004) Isolation and characterisation of microsatellite loci in Geum urbanum (Rosaceae) and their transferability within the genus Geum. Molecular Ecology Notes 4: 209-212
- Arens P, W van ’t Westende, R Bugter, MJM Smulders, B Vosman (2000) Microsatellite markers for the European tree frog Hyla arborea. Molecular Ecology 9: 1944-1946
- Esselink GD, E den Belder, J Elderson, MJM Smulders (2006) Isolation and characterization of trinucleotide repeat microsatellite markers for Plutella xylostella L. Molecular Ecology Notes (in press).
- Jensen LB, H Muylle, P Arens, Ch Andersen, Pb Holm, M Ghesquiere, B Julier, T Lübberstedt, Kk Nielsen, J De Riek, I Roldán-Ruiz, N Roulund, C Taylor, B Vosman, P Barre (2005) Development and mapping of a public reference set of SSR markers in Lolium perenne L. Molecular Ecology Notes 5: 951-957.
- Koorevaar GN, S Ivanovic, JMM Van Damme, HP Koelewijn, WPC van 't Westende, MJM Smulders, B Vosman (2002) Dinucleotide repeat microsatellite markers for buck’s-horn plantain (I). Molecular Ecology Notes 2, 524-526
- Linden CG van der, MJM Smulders, B Vosman (2005) Motif-directed profiling: a glance at molecular evolution. In: Plant species-level systematics: new perspectives on pattern & process. FT Bakker, LW Chatrou, B Gravendeel, PB Pelser (eds) Regnum Vegetabile 143. ARG Gantner Verlag, Ruggell, Liechtenstein; Koeltz, Koenigstein, Germany. Pp 291-303
- Linden G van der, R Smulders, B Vosman (2003) NBS Profiling. New tool simplifies resistance breeding. Prophyta Annual 2003, pp 44-45
- Mix C, PFP Arens, NJ Ouborg, MJM Smulders (2004) Isolation and characterization of highly polymorphic microsatellite markers in Hypochaeris radicata (Asteraceae). Molecular Ecology Notes 4: 656-658.
- Pastorelli R, MJM Smulders, WPC van ‘t Westende, B Vosman, R Giannini, C Vettori, GG Vendramin (2003) Characterisation of microsatellite markers in Fagus sylvatica L. and Fagus orientalis Lipsky. Molecular Ecology Notes 3: 76-78.
- Schoot J van der, M Pospíšková, B Vosman, MJM Smulders (2000) Development and characterization of microsatellite markers in Black Poplar (Populus nigra L.). Theoretical and Applied Genetisches 101: 317-322
- Silfverberg-Dilworth E, CL Matasci, WE van de Weg, MPW van Kaauwen, M Walser, LP Kodde, V Soglio, L Gianfranceschi, CE Durel, F Costa, T Yamamoto, B Koller, C Gessler, A Patocchi (2006) Microsatellite markers spanning the apple (Malus x domestica Borkh.) genome. Tree Genetisches and Genomes 2:202-224
- Smulders MJM, J van der Schoot, P Arens, B Vosman (2001) Trinucleotide repeat microsatellite markers for Black Poplar (Populus nigra L.). Mol Ecol Notes 1, 188 -190
- Syed NH, AP Sørensen, R Antonise, C van de Wiel, CG van der Linden, W van ‘t Westende, DAP Hooftman, HCM den Nijs, AJ Flavell (2006) A detailed linkage map of lettuce based on SSAP, AFLP and NBS markers. Theoretical and Applied Genetisches 112: 517-527
- Tang J, B Vosman, RE Voorrips, CG van der Linden, JAM Leunissen (2006) QualitySNP: a pipeline for detecting single nucleotide polymorphisms and insertions/deletions in EST data from diploid and polyploid species. BMC Bioinformatics 2006, 7:438.
- Wittenberg AHJ, T van der Lee, Cl Cayla, A Kilian, RGF Visser, HJ Schouten (2005) Validation of the high-throughput marker technology DArT using the model plant Arabidopsis thaliana. Molecular Genetisches and Genomics.
- Zavodna M, P Arens, PJ van Dijk, B Vosman (2005) Development and characterization of microsatellite markers for two dioecious Ficus species. Molecular Ecology Notes 5: 355-357
- Zavodna M, P Arens, B Vosman, PJ van Dijk, JMM van Damme (2002) Development and characterisation of microsatellite markers for Liporrhopalum tentacularis Grandi, the pollinator fig wasp of Ficus montana Blume. Molecular Ecology Notes 2, 569-571
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