Articles, book chapters and dissertations

Goedhart, J., van Weeren, L., Hink, M.A., Vischer, N.O., Jalink, K., and Gadella, T.W.J., Jr. (2010) Bright cyan fluorescent protein variants identified by fluorescence lifetime screening. Nat. Methods 7, 737-139 [PubMed]

Luijsterburg M.S., von Bornstaedt G., Gourdin A.M., Politi A.Z., Moné M.J., Warmerdam D.O., Goedhart J., Vermeulen W., van Driel R. and Höfer T. (2010) Stochastic and reversible assembly of a multiprotein DNA repair complex ensures accurate target site recognition and efficient repair. J. Cell Biol. 189, 445-463 [PubMed]

Potluri, L., A. Karczmarek, J. Verheul, A. Piette, J. Wilkin, N. Werth, M. Banzhaf, W. Vollmer, K.D. Young, M. Nguyen-Distèche and T. den Blaauwen (2010) Septal and lateral wall localization of PBP5, the major D,D-carboxypeptidase of Escherichia coli, requires substrate recognition and membrane attachment.
Mol. Microbiol. 77, 300–323 [PubMed]

Schaffner-Barbero C., Gil-Redondo R., Ruiz-Avila L.B., Huecas S., Läppchen T., den Blaauwen T., Diaz J.F., Morreale A., Andreu J.M. (2010) Insights into nucleotide recognition by cell division protein FtsZ from a mant-GTP competition assay and molecular dynamics. Biochemistry 49, 10458-10472  [PubMed]

Schultz C, Neef A.B., Gadella T.W. Jr. and Goedhart J. (2010) Imaging lipids in living cells. Cold Spring Harb Protoc. 2010 (8), pdb.top83 [PubMed]

Soprova Z., Sauri A., van Ulsen P., Tame J.R., den Blaauwen T., Jong W.S., Luirink J. (2010) A conserved aromatic residue in the autochaperone domain of the autotransporter Hbp is critical for initiation of outer membrane translocation. J. Biol. Chem. 285, 38224-38233 [PubMed]

Typas A., Banzhaf M., van den Berg van Saparoea B., Verheul J., Biboy J., Nichols R.J., Zietek M., Beilharz K., Kannenberg K., von Rechenberg M., Breukink E., den Blaauwen T., Gross C.A., Vollmer W. (2010) Regulation of peptidoglycan synthesis by outer-membrane proteins. Cell 143, 1097-1109 [PubMed]

Alfarez, D.N., De Simoni, A., Velzing, E.H., Bracey, E., Joëls, M., Edwards, F.A. & Krugers, H.J. (2009). Corticosterone reduces dendritic complexity in developing hippocampal CA1 neurons. Hippocampus 19, 828-836.

Bagot, R.C., Hasselt , F.N. van, Champagne , D.L., Meaney, M., Krugers, H. & Joels, M. (2009). Maternal care determines rapid effects of stress mediators on synaptic plasticity in adult rat hippocampal dentate gyrus. Neurobiol. Learning Mem. 92, 292-300.

Bellou, S., M.A. Hink, E. Bagli, E. Panopoulou, P.I.H. Bastiaens, C. Murphy and T. Fotsis. (2009) VEGF auto-regulates its proliferative and migratory ERK1/2 and p38 MAPK cascades by enhancing the expression of DUSP1 and DUSP5 phosphatases in endothelial cells. Am. J. Physiol. Cell. Physiol. 297, C1477-89. [PubMed]

Chameau, P., Inta, D., Vitalis, T., Monyer, H., Wadman, W.J. & Hooft, J.A. van (2009). The N-terminal region of reelin regulates postnatal dendritic maturation of cortical pyramidal neurons. Proc Natl Acad Sci USA 106, 7227-7232.

Deng, D.M., Hoogenkamp, M.A., Cate, J.M. ten & Crielaard, W. (2009). Novel metabolic activity indicator in Streptococcus mutans biofilms. J. Microbiol. Meth. 77, 67-71.

Deng, D.M., Urch, J.E., Cate, J.M. ten, Rao, V.A., Aalten, D.M.F. van & Crielaard, W. (2009). Streptococcus mutans SMU.623c codes for a functional, metal-dependent polysaccharide deacetylase that modulates interactions with salivary agglutinin. J. Bacteriol. 191, 394-402.

Dinant, C., Luijsterburg, S.M., Höfer, T., Bornstaedt, G. von, Vermeulen, W., Houtsmuller, A.B. & Driel, R. van (2009). Assembly of multiprotein complexes that control genome function. J. Cell Biol. 185, 21-26.

Goedhart, J., and Gadella Jr., T.W.J. (2009) Fluorescence resonance energy transfert imaging of PKC signaling in living cells using genetically encoded fluorescent probes. J.R. Soc. Interface 6: S27-S34.

Hornstra, L.M., Beek, A.S. ter, Smelt, J.P.P.M., Kallemeijn, W.W. & Brul, S. (2009). On the origin of heterogeneity in (preservation) resistance of Bacillus spores: Input for a ‘systems’ analysis approach of bacterial spore outgrowth. Int. J. Food Microbiol. 134, 9-15.

Klis, F.M., Sosinska, G.J., Groot, P.W.J. de & Brul, S. (2009). Covalently linked cell wall proteins of Candida albicans and their role in fitness and virulence. FEMS Yeast Res. 9, 1013-1028.

Luijsterburg, M.S., Dinant, C., Lans, H., Stap, J., Wiernasz, E.S., Lagerwerf, S., Warmerdam, D.O., Lindh, M., Brink, M.C., Dobrucki, J.W., Aten, J.A., Fousteri, M., Jansen, G., Dantuma, N.P., Vermeulen, W., Mullenders, L.H.F., Houtsmuller, A.B., Verschure, P.J. & Driel, R. van (2009). Heterochromatin protein 1 is recruited to various types of DNA damage. J. Cell Biol. 185, 577-586.

Marlatt, M.W., Hoozemans, J.J.M., Veerhuis, R. & Lucassen, P.J. (2009). Alzheimer’s disease and adult neurogenesis: Are endogenous stem cells part of the solution? US Neurol. 5, 12-14.

Mateos-Langerak, J., Bohn, M., de Leeuw, W., Giromus, O., Manders, E.M., Verschure, P.J., Indemans, M.H., Gierman, H.J., Heermann, D.W., van Driel, R., and Goetze, S. (2009) Spatially confined folding of chromatin in the interphase nucleus. Proc Natl Acad Sci U S A 106, 3812-3817. [PubMed]

Michielse, C.B., Wijk, R. van, Reijnen, L., Manders, E.M.M., Boas, S., Olivain, C., Alabouvette, C. & Rep, M. (2009). The nuclear protein Sge1 of Fusarium oxysporum is required for parasitic growth. PLOS Pathogens 5, e1000637.

Mishkind, M., Vermeer, J.E.M., Darwish, E. & Munnik, T. (2009). Heat stress activates phospholipase D and triggers PIP2 accumulation at the plasma membrane and nucleus. Plant J. 60, 10-21.

Mohammadi,T., Ploeger, G.E.J., Verheul,J., Comvalius, A.D., Martos, A., Alfonso, C., van Marle, J., Rivas, G. and den Blaauwen, T. (2009) The GTPase activity of Escherichia coli FtsZ determines the magnitude of the FtsZ polymer bundling by ZapA in vitro. Biochemistry 48, 11056–11066 [PubMed]

Oomen , C.A. , Girardi, C.E.N., Cahyadi, R., Verbeek, E.C., Krugers, H., Joëls, M. & Lucassen, P.J. (2009). Opposite effects of early maternal deprivation on neurogenesis in male versus female rats. PLoS One 4, e3675.

Rzeznicka, I.I., Wurpel, G.W.H., Bonn , M., Horst, M.A. van der, Hellingwerf, K.J., Matsunaga, S., Yamada, T. & Kawai, M. (2009). Observation of photoactive yellow protein anchored to a modified Au(111) surface by scanning tunneling microscopy. Chem. Phys. Lett. 472, 113-117.

Schafer, D., Muller, M., Bonn, M., Marr, D.W., van Maarseveen, J., and Squier, J. (2009) Coherent anti-Stokes Raman scattering microscopy for quantitative characterization of mixing and flow in microfluidics. Opt Lett 34, 211-213. [PubMed]

Shcherbo, D., Souslova, E.A., Goedhart, J., Chepurnykh, T.V., Gaintzeva, A., Shemiakina, II, Gadella, T.W., Lukyanov, S., and Chudakov, D.M. (2009) Practical and reliable FRET/FLIM pair of fluorescent proteins. BMC Biotechnol 9, 24. [PubMed]

Tessadori, F.G., Zanten, M. van, Pavlova, P., Clifton, R., Pontvianne, F., Basten Snoek, L., Millenaar, F.F., Schulkes, R.K., Driel, R. van, Voesenek, L.A.C.J., Spillane, C., Pikaard, C.S., Fransz, P.F. & Peeters, A.J.M. (2009). PHYTOCHROME B and HISTONE DEACETYLASE 6 Control Light-Induced Chromatin Compaction in Arabidopsis thaliana. PLOS Genetics 5, e1000638.

Van Moerkercke, A., Schauvinhold, I. , Pichersky, E., Haring, M.A. & Schuurink, R.C. (2009). A plant thiolase involved in benzoic acid biosynthesis and volatile benzenoid production. Plant J. 60, 292-302.

Verhoeven, G.S., Alexeeva, S., Dogterom, M., and den Blaauwen, T. Differential bacterial surface display of peptides by the transmembrane domain of OmpA. PLOS One 4, e6739 [PubMed]

Vermeer, J.E., Thole, J.M., Goedhart, J., Nielsen, E., Munnik, T., and Gadella, T.W., Jr. (2009) Imaging phosphatidylinositol 4-phosphate dynamics in living plant cells. Plant J 57, 356-372. [PubMed]

De Vos, W.H., Hoebe, R.A., Joss, G.H., Haffmans, W., Baatout, S., Van Oostveldt, P., and Manders, E.M. (2009) Controlled light exposure microscopy reveals dynamic telomere microterritories throughout the cell cycle. Cytometry A 75, 428-439. [PubMed]

Zhou, M., Conboy, L., Sandi, C., Joëls, M. & Krugers, H.J. (2009). Fear conditioning enhances spontaneous AMPA receptor-mediated synaptic transmission in mouse hippocampal CA1 area. Eur. J. Neurosci. 30, 1559-1564.

Fransz, P. (2009). Chromatin domains and function. In I. Meier (Ed.), Functional organization of the plant nucleus (Plant cell monographs, 14) (pp. 131-155). Berlin : Springer.

T.W.J. Gadella (Ed.), FRET and FLIM Techniques (2009). Laboratory techniques in biochemistry and molecular biology 33,  Elsevier Science, Amsterdam.

T.W.J. Gadella Jr., Total internal reflection fluorescence lifetime imaging microscopy. (2009) In “FRET and FLIM imaging techniques” (ed. Gadella). Laboratory Techniques in Biochemistry and Molecular Biology (ser. Ed. P.C. Van der Vliet) Burlington: Academic Press. pp. 395-412.

G.-J. Kremers and J. Goedhart. Visible fluorescent proteins for FRET. (2009) In “FRET and FLIM imaging techniques” (ed. Gadella). Laboratory Techniques in Biochemistry and Molecular Biology (ser. Ed. P.C. Van der Vliet) Burlington: Academic Press. pp. 171-224.

Vos, W.H. de, Hoebe, R.A., Joss, G., Manders, E.M.M. & Oostveldt, P. van (2009). Controlled light exposure microscopy reveals telomeric microterritories throughout the cell cycle. In A. Aretz, B. Hermanns-Sachweh & J. Mayer (Eds.), EMC 2008 14th European Microscopy Congress 1–5 September 2008, Aachen, Germany (pp. 169). Berlin Heidelberg: Springer.

Brink, M.C. (2009, april 02). Chromatin architecture and the orchestration of gene expression. UvA Universiteit van Amsterdam (100 pag.). Prom./coprom.: prof.dr. R. van Driel & dr. P.J. Verschure.

Mano, S., Satou, K., Hoebe, R.A.,  Manders, E.M.M. (2009) Laser Scanning Microscope. (PCT/WO2009JP52974 , P20080041500)

Mano, S., Satou, K., Hoebe, R.A.,  Manders, E.M.M. (2009) Laser Scanning Microscope. (WO2009JP52973 , JP20080041499)

Adjobo-Hermans, M.J., Goedhart, J., and Gadella, T.W., Jr. (2008) Regulation of PLCbeta1a membrane anchoring by its substrate phosphatidylinositol (4,5)-bisphosphate. J Cell Sci 121, 3770-3777. [PubMed]

den Blaauwen, T., de Pedro, M.A., Nguyen-Disteche, M., and Ayala, J.A. (2008) Morphogenesis of rod-shaped sacculi. FEMS Microbiol Rev 32, 321-344. [PubMed]

Deng, D.M. & Crielaard, W. (2008). Microbiële genetica: Nieuwe mogelijkheden voor preventie en behandeling van (orale) infecties. Nederlands Tijdschrift voor Tandheelkunde 115, 93-99.

Dhonukshe, P., Grigoriev, I., Fischer, R., Tominaga, M., Robinson, D.G., Hasek, J., Paciorek, T., Petrasek, J., Seifertova, D., Tejos, R., Meisel, L.A., Zazimalova, E., Gadella, T.W., Jr., Stierhof, Y.D., Ueda, T., Oiwa, K., Akhmanova, A., Brock, R., Spang, A., and Friml, J. (2008) Auxin transport inhibitors impair vesicle motility and actin cytoskeleton dynamics in diverse eukaryotes. Proc Natl Acad Sci U S A 105, 4489-4494. [PubMed]

Does, H.C. van der, Lievens, B., Claes, L., Houterman, P.M., Cornelissen, B.J.C. & Rep, M. (2008). The presence of a virulence locus discriminates Fusarium oxysporum isolates causing tomato wilt from other isolates. Envir. Microbiol., 10, 1475-1485.

Gladilin, E., Goetze, S., Mateos-Langerak, J., Driel, R. van, Eils, R. & Rohr, K. (2008). Shape normalization of 3D cell nuclei using elastic spherical mapping. J. Microsc. 231, 105-114.

Hoebe, R.A., Van der Voort, H.T., Stap, J., Van Noorden, C.J., and Manders, E.M. (2008) Quantitative determination of the reduction of phototoxicity and photobleaching by controlled light exposure microscopy. J Microsc 231, 9-20. [PubMed]

Hoogstraten, D., Bergink, S., Ng, J.M.Y., Verbiest, V.H.M., Luijsterburg, M.S., Geverts, B., Raams, A., Dinant, C., Hoeijmakers, J.H.J., Vermeulen, W. & Houtsmuller, A.B. (2008). Versatile DNA damage detection by the global genome nucleotide excision repair protein XPC. J. Cell Sci. 121, 2850-2859.

Kanger, J.S., Subramaniam, V. & Driel, R. van (2008). Intracellular manipulation of chromatin using magnetic nanoparticles. Chromos. Res. 16, 511-522.

Kremers, G.J., van Munster, E.B., Goedhart, J., and Gadella, T.W., Jr. (2008) Quantitative lifetime unmixing of multiexponentially decaying fluorophores using single-frequency fluorescence lifetime imaging microscopy. Biophys J 95, 378-389. [PubMed]

Lappchen, T., Pinas, V.A., Hartog, A.F., Koomen, G.J., Schaffner-Barbero, C., Andreu, J.M., Trambaiolo, D., Lowe, J., Juhem, A., Popov, A.V., and den Blaauwen, T. (2008) Probing FtsZ and tubulin with C8-substituted GTP analogs reveals differences in their nucleotide binding sites. Chem Biol 15, 189-199. [PubMed]

Luijsterburg, M.S., White, M.F., Driel, R. van & Dame, R.T. (2008). The major architects of chromatin: Architectural proteins in bacteria, archaea and eukaryotes. Crit. Rev. Biochem. Mol. Biol. 43, 393-418.

Molly, L., Nackaerts, O., Vandewiele, K., Manders, E., van Steenberghe, D., and Jacobs, R. (2008) Speech adaptation after treatment of full edentulism through immediate-loaded implant protocols. Clin Oral Implants Res 19, 86-90. [PubMed]

Oomen, L.C.J.M., Sacher, R., Brocks, H.H.J., Zwier, J.M., Brakenhoff, G.J. & Jalink, K. (2008). Immersion oil for high-resolution live-cell imaging at 37°C: Optical and physical characteristics. J. Microsc. 232, 353-361.

Pereira-Cenci, T., Del Bel Cury, A.A., Crielaard, W. & Cate, J.M. ten (2008). Development of Candida-associated denture stomatitis: New insights. J. Appl. Oral Sci. 16, 86-94.

Pereira-Cenci, T., Deng, D.M., Kraneveld, E.A., Manders, E.M., Del Bel Cury, A.A., Ten Cate, J.M., and Crielaard, W. (2008) The effect of Streptococcus mutans and Candida glabrata on Candida albicans biofilms formed on different surfaces. Arch Oral Biol 53, 755-764. [PubMed]

Rinia, H.A., Burger, K.N., Bonn, M., and Muller, M. (2008) Quantitative label-free imaging of lipid composition and packing of individual cellular lipid droplets using multiplex CARS microscopy. Biophys J 95, 4908-4914. [PubMed]

Rino, J., Desterro, J.M., Pacheco, T.R., Gadella, T.W., Jr., and Carmo-Fonseca, M. (2008) Splicing factors SF1 and U2AF associate in extraspliceosomal complexes. Mol Cell Biol 28, 3045-3057. [PubMed]

Schafer, D., Squier, J.A., van Maarseveen, J., Bonn, D., Bonn, M., and Muller, M. (2008) In situ quantitative measurement of concentration profiles in a microreactor with submicron resolution using multiplex CARS microscopy. J Am Chem Soc 130, 11592-11593. [PubMed]

Schenning, M., Goedhart, J., Gadella, T.W., Jr., Avram, D., Wirtz, K.W., and Snoek, G.T. (2008) The anti-apoptotic activity associated with phosphatidylinositol transfer protein alpha activates the MAPK and Akt/PKB pathway. Biochim Biophys Acta 1783, 1700-1706. [PubMed]

Sosinska, G.J., Groot, P.W.J. de, Teixeira De Mattos, M.J., Dekker, H.L., Koster, C.G. de, Hellingwerf, K.J. & Klis, F.M. (2008). Hypoxic conditions and iron restriction affect the cell-wall proteome of Candida albicans grown under vagina-simulative conditions. Microbiol. 154, 510-520.

Sovago, M., Campen, R.K., Wurpel, G.W., Muller, M., Bakker, H.J., and Bonn, M. (2008) Vibrational response of hydrogen-bonded interfacial water is dominated by intramolecular coupling. Phys Rev Lett 100, 173901. [PubMed]

Thole, J.M., Vermeer, J.E., Zhang, Y., Gadella, T.W., Jr., and Nielsen, E. (2008) Root hair defective4 encodes a phosphatidylinositol-4-phosphate phosphatase required for proper root hair development in Arabidopsis thaliana. Plant Cell 20, 381-395. [PubMed]

van den Ent, F., Vinkenvleugel, T.M., Ind, A., West, P., Veprintsev, D., Nanninga, N., den Blaauwen, T., and Lowe, J. (2008) Structural and mutational analysis of the cell division protein FtsQ. Mol Microbiol 68, 110-123. [PubMed]

van der Does, H.C., Duyvesteijn, R.G., Goltstein, P.M., van Schie, C.C., Manders, E.M., Cornelissen, B.J., and Rep, M. (2008) Expression of effector gene SIX1 of Fusarium oxysporum requires living plant cells. Fungal Genet Biol 45, 1257-1264. [PubMed]

Verbeek, D.S., Goedhart, J., Bruinsma, L., Sinke, R.J., and Reits, E.A. (2008) PKC gamma mutations in spinocerebellar ataxia type 14 affect C1 domain accessibility and kinase activity leading to aberrant MAPK signaling. J Cell Sci 121, 2339-2349. [PubMed]

Verweij, W., Spelt, C., Di Sansebastiano, G.P., Vermeer, J., Reale, L., Ferranti, F., Koes, R., and Quattrocchio, F. (2008) An H+ P-ATPase on the tonoplast determines vacuolar pH and flower colour. Nat Cell Biol 10, 1456-1462. [PubMed]

Luijsterburg, M.S. (2008, september 12). Dynamics of nucleotide excision repair complex assembly and disassembly in vivo. UvA Universiteit van Amsterdam (188 pag.) (Amsterdam). Prom./coprom.: prof.dr. R. van Driel.

Chameau, P.J.P., Qin, Y.J., Smit, G. & Joëls, M. (2007). Glucocorticoids specifically enhance L-type calcium current amplitude and affect calcium channel subunit expression in the mouse hippocampus. J. Neurophys. 97, 5-14.

Fakan, S. & Driel, R. van (2007). The perichromatin region: A functional compartment in the nucleus that determines large-scale chromatin folding. Semin. Cell Dev. Biol. 18, 676-681.

Goedhart, J., Vermeer, J.E., Adjobo-Hermans, M.J., van Weeren, L., and Gadella, T.W., Jr. (2007) Sensitive detection of p65 homodimers using red-shifted and fluorescent protein-based FRET couples. PLoS One 2, e1011. [PubMed]

Goetze, S., Mateos Langerak, J., Gierman, H.J., Leeuw, W. de, Giromus, O., Indemans, M.H., Koster, J., Ondrej, V., Versteeg, R. & Driel, R. van (2007). The three-dimensional structure of human interphase chromosomes is related to the transcriptome map. Mol. Cell. Biol. 27, 4475-4487.

Goetze, S., Mateos Langerak, J. & Driel, R. van (2007). Three-dimensional genome organization in interphase and its relation to genome function. Semin. Cell Dev. Biol. 18, 707-714.

Hoebe, R.A., Van Oven, C.H., Gadella, T.W., Jr., Dhonukshe, P.B., Van Noorden, C.J., and Manders, E.M. (2007) Controlled light-exposure microscopy reduces photobleaching and phototoxicity in fluorescence live-cell imaging. Nat Biotechnol 25, 249-253. [PubMed]

Jong, W.S., ten Hagen-Jongman, C.M., den Blaauwen, T., Slotboom, D.J., Tame, J.R., Wickstrom, D., de Gier, J.W., Otto, B.R., and Luirink, J. (2007) Limited tolerance towards folded elements during secretion of the autotransporter Hbp. Mol Microbiol 63, 1524-1536. [PubMed]

Karczmarek, A., Martinez-Arteaga, R., Alexeeva, S., Hansen, F.G., Vicente, M., Nanninga, N., and den Blaauwen, T. (2007) DNA and origin region segregation are not affected by the transition from rod to sphere after inhibition of Escherichia coli MreB by A22. Mol Microbiol 65, 51-63. [PubMed]

Kremers, G.J., Goedhart, J., van den Heuvel, D.J., Gerritsen, H.C., and Gadella, T.W., Jr. (2007) Improved green and blue fluorescent proteins for expression in bacteria and mammalian cells. Biochemistry 46, 3775-3783. [PubMed]

Lange, M.J.L. de, Bonn, M. & Müller, M. (2007). Direct measurement of phase coexistence in DPPC/Cholesterol vesicles using Raman spectroscopy. CHEM PHYS LIPIDS, 146(2), 76-84.

Luijsterburg, M.S., Goedhart, J., Moser, J., Kool, H., Geverts, B., Houtsmuller, A.B., Mullenders, L.H., Vermeulen, W., and van Driel, R. (2007) Dynamic in vivo interaction of DDB2 E3 ubiquitin ligase with UV-damaged DNA is independent of damage-recognition protein XPC. J Cell Sci 120, 2706-2716. [PubMed]

Mateos Langerak, J., Goetze, S., Leonhardt, H., Cremer, T., Driel, R. van & Lanctôt, C. (2007). Nuclear architecture: Is it important for genome function and can we prove it? J. Cell. Biochem.102, 1067-1075.

Mateos Langerak, J., Brink, M.C., Luijsterburg, M.S., Kraan, I. van der, Driel, R. van & Verschure, P.J. (2007). Pericentromeric heterochromatin domains are maintained without accumulation of HP1. Mol. Biol. Cell 18, 14 64-1471.

Merzlyak, E.M., Goedhart, J., Shcherbo, D., Bulina, M.E., Shcheglov, A.S., Fradkov, A.F., Gaintzeva, A., Lukyanov, K.A., Lukyanov, S., Gadella, T.W., and Chudakov, D.M. (2007) Bright monomeric red fluorescent protein with an extended fluorescence lifetime. Nat Methods 4, 555-557. [PubMed]

Mohammadi, T., Karczmarek, A., Crouvoisier, M., Bouhss, A., Mengin-Lecreulx, D., and den Blaauwen, T. (2007) The essential peptidoglycan glycosyltransferase MurG forms a complex with proteins involved in lateral envelope growth as well as with proteins involved in cell division in Escherichia coli. Mol Microbiol 65, 1106-1121. [PubMed]

Muller, M., and Zumbusch, A. (2007) Coherent anti-Stokes Raman Scattering Microscopy. Chemphyschem 8, 2156-2170. [PubMed]

Norris, V., den Blaauwen, T., Cabin-Flaman, A., Doi, R.H., Harshey, R., Janniere, L., Jimenez-Sanchez, A., Jin, D.J., Levin, P.A., Mileykovskaya, E., Minsky, A., Saier, M., Jr., and Skarstad, K. (2007) Functional taxonomy of bacterial hyperstructures. Microbiol Mol Biol Rev 71, 230-253. [PubMed]

Norris, V., den Blaauwen, T., Doi, R.H., Harshey, R.M., Janniere, L., Jimenez-Sanchez, A., Jin, D.J., Levin, P.A., Mileykovskaya, E., Minsky, A., Misevic, G., Ripoll, C., Saier, M., Jr., Skarstad, K., and Thellier, M. (2007) Toward a hyperstructure taxonomy. Annu Rev Microbiol 61, 309-329. [PubMed]

Rinia, H.A., Bonn, M., Muller, M., and Vartiainen, E.M. (2007) Quantitative CARS spectroscopy using the maximum entropy method: the main lipid phase transition. Chemphyschem 8, 279-287. [PubMed]

Rinia, H.A., Wurpel, G.W., and Muller, M. (2007) Measuring molecular order and orientation using coherent anti-stokes Raman scattering microscopy. Methods Mol Biol 400, 45-61. [PubMed]

Royen, M.E. van, Cunha, S.M., Brink, M.C., Mattern, K.A., Nigg, A.L., Dubbink, H.J., Verschure, P.J., Trapman, J. & Houtsmuller, A.B. (2007). Compartmentalization of androgen receptor protein-protein interactions in living cells. J. Cell Biol. 177, 63-72.

Scheffers, D.J., Robichon, C., Haan, G.J., den Blaauwen, T., Koningstein, G., van Bloois, E., Beckwith, J., and Luirink, J. (2007) Contribution of the FtsQ transmembrane segment to localization to the cell division site. J Bacteriol 189, 7273-7280. [PubMed]

Smits, M., Ghosh, A., Sterrer, M., Muller, M., and Bonn, M. (2007) Ultrafast vibrational energy transfer between surface and bulk water at the air-water interface. Phys Rev Lett 98, 098302. [PubMed]

Smits, M., Sovago, M., Wurpel, G.W.H., Kim, D., Müller

Smits, M., Ghosh, A., Bredenbeck, J., Yamamoto, S., Müller, M. & Bonn, M. (2007). Ultrafast energy flow in model biological membranes. New J. Phys., 9, 390.

Sovago, M., Wurpel, G.W., Smits, M., Muller, M., and Bonn, M. (2007) Calcium-induced phospholipid ordering depends on surface pressure. J Am Chem Soc 129, 11079-11084. [PubMed]

Tessadori, F., Chupeau, M.C., Chupeau, Y., Knip, M., Germann, S., Driel, R. van, Fransz, P.F. & Gaudin, V. (2007). Large-scale dissociation and sequential reassembly of pericentric heterochromatin in dedifferentiated Arabidopsis cells. J. Cell Science 120, 1200-1208.

Tessadori, F., Schulkes, R.K., Driel, R. van & Fransz, P.F. (2007). Light-regulated large-scale reorganization of chromatin during the floral transition in Arabidopsis. Plant J. 50, 848-857.

van Leeuwen, W., Vermeer, J.E., Gadella, T.W., Jr., and Munnik, T. (2007) Visualization of phosphatidylinositol 4,5-bisphosphate in the plasma membrane of suspension-cultured tobacco BY-2 cells and whole Arabidopsis seedlings. Plant J 52, 1014-1026. [PubMed]

van Munster, E.B., Goedhart, J., Kremers, G.J., Manders, E.M., and Gadella, T.W., Jr. (2007) Combination of a spinning disc confocal unit with frequency-domain fluorescence lifetime imaging microscopy. Cytometry A 71, 207-214. [PubMed]

Müller, M., Rinia, H.A., Bonn, M., Vartiainen, E.M., Lisker, M. & Bel, A. (2007). Quantitative multiplex CARS spectroscopy in congested spectral regions. In A. Periasamy & P.T.C. So (Eds.), Multiphoton Microscopy in the Biomedical Sciences VII Vol. 6442. SPIE. The International Society for Optical Engineering. 

Pillai, R.S., Brakenhoff, G.J. & Müller, M. (2007). Third harmonic generation: anomalous behavior in the THG z-response and microscopy applications. In A. Periasamy & P.T.C. So (Eds.), Multiphoton Microscopy in the Biomedical Sciences VII Vol. 6442. SPIE.

Rinia, H.A., Burger, K.N.J., Bonn, M. & Müller, M. (2007). Multiplex coherent anti-Stokes Raman scattering microscopy on lipid droplets in HeLa cells. In T. Wilson & A. Periasamy (Eds.), Confocal, Multiphoton, and Nonlinear Microscopic Imaging III Vol. 6630. SPIE. The International Society for Optical Engineering.

Rinia, H.A., Wurpel, G.W.H. & Müller, M. (2007). Measuring molecular order and orientation using coherent anti-Stokes Raman scattering microscopy. In A.M. Dopico (Ed.), Methods in Membrane Lipids (pp. 45-61). Totowa (NJ), USA: Humana Press Inc., 2007.

Läppchen UvA Universiteit van Amsterdam (167 pag.) (Amsterdam). Prom./coprom.: G.J. Koomen & dr T. den Blaauwen.

Mateos Langerak, J. (2007, september 19). From 1D to 3D: relating transcription with the tree dimensional organisation of the mammalian genome. UvA Universiteit van Amsterdam (142 pag.) (Amsterdam). Prom./coprom.: prof.dr. R. van Driel.

Adjobo-Hermans, M.J., Goedhart, J., and Gadella, T.W., Jr. (2006) Plant G protein heterotrimers require dual lipidation motifs of Galpha and Ggamma and do not dissociate upon activation. J Cell Sci 119, 5087-5097. [PubMed]

Alfarez, D.N., Wiegert, O. & Krugers, H. (2006). Stress, corticosteroid hormones and hippocampal synaptic function. CNS & Neurol. Disorders Drug Targets 5, 521-529. 

Amir, W., Planchon, T.A., Durfee, C.G., Squier, J., Gabolde, P., Trebino, R., & Müller

Bertsche, U., Kast, T., Wolf, B., Fraipont, C., Aarsman, M.E., Kannenberg, K., von Rechenberg, M., Nguyen-Disteche, M., den Blaauwen, T., Holtje, J.V., and Vollmer, W. (2006) Interaction between two murein (peptidoglycan) synthases, PBP3 and PBP1B, in Escherichia coli. Mol Microbiol 61, 675-690. [PubMed]

Brink, M.C., Velden, Y. van der, Leeuw, W. de, Mateos Langerak, J., Belmont, A.S., Driel, R. van & Verschure, P.J. (2006). Truncated HP1 lacking a functional chromodomain induces heterochromatinization upon in vivo targeting. Histochem. Cell. Biol. 125, 53-61.

Chameau, P.J.P. & Hooft, J.A. van (2006). Serotonin 5-HT(3) receptors in the central nervous system. Cell Tissue Res. 326, 573-581. 

den Blaauwen, T., Aarsman, M.E., Wheeler, L.J., and Nanninga, N. (2006) Pre-replication assembly of E. coli replisome components. Mol Microbiol 62, 695-708. [PubMed]

Dhonukshe, P., Baluska, F., Schlicht, M., Hlavacka, A., Samaj, J., Friml, J., and Gadella, T.W., Jr. (2006) Endocytosis of cell surface material mediates cell plate formation during plant cytokinesis. Dev Cell 10, 137-150. [PubMed]

Dhonukshe, P., Bargmann, B.O., and Gadella, T.W., Jr. (2006) Arabidopsis tubulin folding cofactor B interacts with alpha-tubulin in vivo. Plant Cell Physiol 47, 1406-1411. [PubMed]

Dhonukshe, P., Vischer, N., and Gadella, T.W., Jr. (2006) Contribution of microtubule growth polarity and flux to spindle assembly and functioning in plant cells. J Cell Sci 119, 3193-3205. [PubMed]

Fransz, P.F., Hoopen, R. ten & Tessadori, F. (2006). Composition and formation of heterochromatin in Arabidopsis thaliana. Chromos. Res. 14, 71-82.

Kantardzhieva, A., Alexeeva, S.V., Versteeg, I., & Wijnholds, J. (2006). MPP3 is recruited to the MPP5 protein scaffold at the retinal outer limiting membrane. FEBS J., 273, 1152-1165.

Kremers, G.J., Goedhart, J., van Munster, E.B., and Gadella, T.W., Jr. (2006) Cyan and yellow super fluorescent proteins with improved brightness, protein folding, and FRET Forster radius. Biochemistry 45, 6570-6580. [PubMed]

Leeuw, W. de, Verschure, P.J. & Liere, R. van (2006). Visualization and analysis of large data collections: a case study applied to confocal microscopy data. IEEE Transactions on visualization and computer graphics 12 (5).

Mylne, J.S., Barrett, L., Tessadori, F., Mesnage, S., Johnson, L., Bernatavichute, Y.V., Jacobsen, S.E., Fransz, P.F. & Dean, C. (2006). LHP1, the Arabidopsis homologue of HETEROCHROMATIN PROTEIN1 is required for epigenetic silencing of FLC. Proc. Nat. Acad. Sci. USA 103, 5012-5017.

Pillai, R.S., Brakenhoff, G.J., and Muller, M. (2006) Analysis of the influence of spherical aberration from focusing through a dielectric slab in quantitative nonlinear optical susceptibility measurements using third-harmonic generation. Opt Express 14, 260-269. [PubMed]

Pillai, R.S., Brakenhoff, G.J., & Müller, M. (2006). Anomalous behavior in the third harmonic generation z response through dispersion induced shape changes and matching X(3). Appl. Phys. Lett., 89, 111123-1-111123-3.

Pillai, R.S., Oh, E.M., Yokoyama, H., Brakenhoff, G.J., and Muller, M. (2006) Imaging colloidal particle induced topological defects in a nematic liquid crystal using third harmonic generation microscopy. Opt Express 14, 12976-12983. [PubMed]

Rinia, H.A., Bonn, M., and Muller, M. (2006) Quantitative multiplex CARS spectroscopy in congested spectral regions. J Phys Chem B 110, 4472-4479. [PubMed]

Rinia, H.A., Bonn, M., Vartiainen, E.M., Schaffer, C.B., and Muller, M. (2006) Spectroscopic analysis of the oxygenation state of hemoglobin using coherent anti-Stokes Raman scattering. J Biomed Opt 11, 050502. [PubMed]

Vardi, A., Formiggini, F., Casotti, R., De Martino, A., Ribalet, F., Miralto, A., and Bowler, C. (2006) A stress surveillance system based on calcium and nitric oxide in marine diatoms. PLoS Biol 4, e60. [PubMed]

Vartiainen, E.M., Rinia, H.A., Muller, M., and Bonn, M. (2006) Direct extraction of Raman line-shapes from congested CARS spectra. Opt Express 14, 3622-3630. [PubMed]

Verschure, P.J. (2006). Chromosome organization and gene control: It is difficult to see the picture when you are inside the frame. J. Cell. Biochem. 99, 23-34.

Verschure, P.J., Visser, A.E. & Rots, M.G. (2006). Step out of the groove: epigenetic gene control systems and engineered transcription factors.  Advances in Genetics Incorporating  Mol. Gen. Medicine 56, 163-204.

Vermeer, J.E., van Leeuwen, W., Tobena-Santamaria, R., Laxalt, A.M., Jones, D.R., Divecha, N., Gadella, T.W., Jr., and Munnik, T. (2006) Visualization of PtdIns3P dynamics in living plant cells. Plant J 47, 687-700. [PubMed]

Wurpel, G.W.H., & Müller, M. (2006). Water confined by lipid bilayers: A multiplex CARS study. Chem. Phys. Lett., 425, 336-341.

Zaritsky, A., Woldringh, C.L., Einav, M., & Alexeeva, S.V. (2006). Use of thymine limitation and thymine starvation to study bacterial physiology and cytology. J. Bacteriol., 188, 1667-1679.

Zonia, L.E., Müller, M., & Munnik, T. (2006). Hydrodynamics and Cell Volume Oscillations in the Pollen Tube Apical Region are Integral Components of the Biomechanics of Nicotiana tabacum Pollen Tube Growth. Cell Biochem. Bioph., 46, 209-232.

Manders, E.M.M., Soll, D.R., Terasaki, M., & Dailey, M.E. (2006). Confocal microscopy of living cells. In J. Pawley (Ed.), Handbook of confocal microscopy, third edition. New York, USA: Springer Science and Business Media. 

Rinia, H.A., Wurpel, G.W.H., & Müller, M. (2006). Measuring molecular order and orientation using CARS microscopy. In A. Dopico (Ed.), Protocols in Biophysics to Study Membrame Lipids. Totowa, NY, USA: Humana Press Inc..

Kremers, G.J. (2006, oktober 25). Optimization of fluorescent proteins for novel quantitative multiparameter microscopy approaches. UvA Universiteit van Amsterdam (157 pag.). Prom./coprom.: prof. dr. Th.W.J. Gadella & dr.ir. J. Goedhart.

Tessadori, F. (2006, september 15). Plasticity of heterochromatin in Arabidopsis. UvA Universiteit van Amsterdam (139 pag.). Prom./coprom.: prof.dr. R. van Driel & dr.ir. P.F. Fransz.

Vermeer, J.E.M. (2006, juni 15). Visualisation of polyphosphoinositide dynamics in living plant cells. UvA Universiteit van Amsterdam (177 pag.). Prom./coprom.: prof. dr. Th.W.J. Gadella & dr. T. Munnik.