Publications 2009

Anh, N. van, Schlosser. F., Groeneveld, M.M., Stokkum, I.V.H. van, Würthner, F, and Williams, R.M.
Photoinduced interactions in a pyrene-calix[4]arene-perylene bisimide dye system: Probing ground-state conformations with excited-state dynamics of charge separation and recombination.
The Journal of Physical Chemistry C, 113(42):18358-18368, 2009.

Alexandre, M.T.A., Domratcheva, T., Bonetti, C., Wilderen, L.J.G.W. van, Grondelle R. van, Groot M.L., Hellingwerf K.J., Kennis J.T.M.
Primary Reactions of the LOV2 Domain of Phototropin Studied with Ultrafast Mid-infrared Spectroscopy and Quantum Chemistry 
Biophys. J, 97 (1): 227-237 2009

Alexandre M.T.A, Grondelle, R. van, Hellingwerf K.J., et al.,
Conformational Heterogeneity and Propagation of Structural Changes in the LOV2/J alpha Domain from Avena sativa Phototropin 1 as Recorded by Temperature-Dependent FTIR
Spectroscopy. Biophysical Journal, 2009. 97(1): p. 238-247.

Berera, R., Grondelle, R. van, and Kennis, J.T.M.,
Ultrafast transient absorption spectroscopy: principles and application to photosynthetic systems.
Photosynthesis Research, 2009. 101(2-3): p. 105-118.

Berera R., Stokkum I.H.M. van, d'Haene S., Kennis, J.T.M., Grondelle, R. van, Dekker, J.P.
A Mechanism of Energy Dissipation in Cyanobacteria.
Biophysical Journal, 2009. 96(6): p. 2261-2267.

Bonetti, C., Alexandre, M.T.A., Hiller, R.G., Kennis, J.T.M., Grondelle, R. van
Chl-a triplet quenching by peridinin in H-PCP and organic solvent revealed by step-scan FTIR time-resolved spectroscopy
Chemical Physics, 357, 2009, p. 63-69.

Bonetti, C., Stierl, M., Mathes, T., et al.,
The Role of Key Amino Acids in the Photoactivation Pathway of the Synechocystis Slr1694 BLUF Domain.
Biochemistry, 2009. 48(48): p. 11458-11469.

Gibasiewicz, K., Rutkowski, M. and Grondelle, R. van.,
Fluorescence hole-burning and site-selective studies of LHCII.
Photosynthetica, 2009. 47(2): p. 232-240.

Grondelle, R. van
How conformational switching in plant light-harvesting complexes regulates photosynthesis.
Febs Journal, 2009. 276: p. 65-65.

Grondelle, R. van, Novoderezhkin V.I., Dekker J.P.
Modelling light-harvesting and primary charge separation in photosystem I and photosystem II. In Photosynthesis in silico.
Understanding Complexity from Molecules to Ecosystems (Laisk A, Nedbal N, Govindjee, eds.), Springer, The Netherlands, pp 33-53

Herek, J.L.,  Polívka, T., Grondelle, R. van,  Pullerits, T.
Excited state dynamics in light harvesting materials (in honor of Villy Sundström)
Chemical Physics, 357, 2009, p.1-3

Mullen, K.M. and Stokkum, I.V.H van.
The variable projection algorithm in time-resolved spectroscopy, microscopy and mass spectrometry applications.
Numerical Algorithms, 51:319-340, 2009.

Pawlowicz N.P., Stokkum I.H.M, van, Breton J., et al.,
Identification of the Intermediate Charge-Separated State P+beta(-)(L) in a Leucine M214 to Histidine Mutant of the Rhodobacter sphaeroides Reaction Center Using Femtosecond Midinfrared
Spectroscopy. Biophysical Journal, 2009. 96(12): p. 4956-4965.

Romero, E., Mozzo, M., Stokkum, I.H.M van, Dekker J., Grondelle, R. van, Croce, R.
The origin of the low-energy form of photosystem I light-harvesting complex Lhca4: mixing of the lowest exciton state with a charge-transfer state
Biophys. J. 96, 2009, p. L35-L37

Rupenyan, A., Commandeur, J., Groot, M.L.
CO Photodissociation Dynamics in Cytochrome P450BM3 Studied by Subpicosecond Visible and Mid-Infrared Spectroscopy
Biochemistry, 48 (26): 6104-6110 2009

Rupenyan, A., Stokkum, I.H.M. van, Arents, J.C., Grondelle, R. van , Hellingwerf, K.J., and Groot, M.L.
Reaction Pathways of Photoexcited Retinal in Proteorhodopsin Studied by Pump-Dump-Probe Spectroscopy
J. Phys. Chem. B 2009, 113, 16251–16256

Schlau-Cohen GS, Calhoun TR, Ginsberg NS, Grondelle, R. van, et al.,
Pathways of Energy Flow in LHCII from Two-Dimensional Electronic Spectroscopy.
Journal of Physical Chemistry B, 2009. 113(46): p. 15352-15363.

Stahl, A.D., Di Donato, M, Stokkum, I.H.M. van, Grondelle, R. van and Groot, M.L. 
A femtosecond visible/visible and visible/mid-IR transient absorption study of the Light Harvesting Complex II
Biophysical Journal Dec 16 2009 issue

Stokkum, I.H.M. van,  Papagiannakis, E.,  Vengris, M.,  Salverda, J.M.,  Polívka, T.,  Zigmantas, D., Larsen, D.S., Lampoura, S.S.,  Hiller, R.G.,  Grondelle, R. van
Inter-pigment interactions in the peridinin chlorophyll protein studied by global and target analysis of time resolved absorption spectra
Chemical Physics, 357, 2009, p. 70-78

Stokkum, I.H.M. van, Mullen, K.M., and Mihaleva, V.V.
Global analysis of multiple gas chromatography-mass spectrometry (GC/MS) data sets: A method for resolution of co-eluting components with
comparison to mcr-als.
Chemometrics and Intelligent Laboratory Systems, 95(2):150 - 163, 2009.

Stuart, T.A.C. and Grondelle, R. van,
Multipulse spectroscopy on the wild-type and YM210W Bacterial Reaction Centre uncovers a new intermediate state in the special pair excited state.
Chemical Physics Letters, 2009. 474(4-6): p. 352-356.

Sytina, O.A., Heyes D.J., Hunter C.N. en Groot M.L..
Ultrafast catalytic processes and conformational changes in the light-driven enzyme protochlorophyllide oxidoreductase (POR)
Biochemical Society Transactions, 37, p.387-391, Part 2  

Valkunas, L., Stokkum, I.H.M. van, Berera, R., Grondelle, R. van,
Exciton migration and fluorescence quenching in LHCII aggregates: Target analysis using a simple nonlinear annihilation scheme
Chemical Physics, 357, 2009, p.17-20

Wilderen, LJGW van, Key, JM, Stokkum, IHM van , Grondelle, R van and Groot, ML
Dynamics of Carbon Monoxide Photodissociation in Bradyrhizobium japonicum FixL Probed by Picosecond Midinfrared Spectroscopy
J. Phys. Chem. B., 113, 11, p.3292-3297

Witte S., Baclayon M., Peterman E.J.G., Toonen R., Mansvelder H., Groot M.L. 
Single-shot two-dimensional full-range optical coherence tomography achieved by dispersion control
Optics Express, 17 (14): 11335-11349 2009