Oliver Holub

Private

ollihol at web.de

Anna-Siemsen-Str. 71
D-07745 Jena
Germany

Phone: +49 1522 6377082

Work

holub at zeiss.de

Carl Zeiss Jena
D-07745 Jena
Germany

Education

April 2003Ph.D. Thesis in Physics. Technische Universität Berlin

Title: "Fluorescence lifetime imaging at video-rate - a new technique in photosynthesis research"
1997-2001Laboratory for Fluorescence Dynamics, University of Illinois at Urbana-Champaign, USA
1996-1997Max-Planck-Institut für biophysikalische Chemie, Göttingen, Germany

October 1996Diplom Thesis in Physics. Georg-August-Universität Göttingen

Title: "Orientierungsabhängigkeit bei Förster-Fluoreszenz-Resonanz-Energie-Transfer zwischen gleichartigen Farbstoffmolekülen in doppelsträngiger DNA"
1994-1996Abteilung für Molekulare Biologie, Max-Planck-Institut für biophysikalische Chemie

1991-1996Study of Physics. Georg-August-Universität Göttingen

Instrumentation

Setup and maintenance of five two-photon microscopes and time- and frequency domain fluorometers at the LFD (UCI, 2006-2008).

Setup of a fully automated two-photon fluorescence microscope at the Federal University of Rio de Janeiro (UFRJ, 2006).

Setup of a synchrotron fluorometer (LNLS, 2005-2007).

Design and construction of an instrument for fluorescence lifetime imaging at video-rate (UIUC, 1999).

Design and construction of an instrument for the automated measurement of fluorescence anisotropy titration curves (MPIbpc, 1995; JABSOM, 1998).

Publications

Fluorescence lifetime imaging (FLI) in real-time - a new technique in photosynthesis research. Oliver Holub, Manfredo J. Seufferheld, Christoph Gohlke, Govindjee and Robert M. Clegg. Photosynthetica 38(4) 581-599, 2000. Download PDF (4.5 MB).

Fluorescence Lifetime-resolved Imaging. Measuring lifetimes in an image. Why do it? How to do it. How to interpret it. Robert M. Clegg, Oliver Holub and Christoph Gohlke. Methods in Enzymology, Biophotonics; Part A (two-volume issue); Edited by Gerard Marriot and Ian Parker; Vol. 360 (361 A); Sect. C. Imaging Microscopy; Chap. 22; p. 509-542 (pp.680); ISBN 0-12-182263-X; Academic Press, San Diego 2003. Download PDF (8.6 MB)

Binding of ethidium to yeast tRNA^Phe : A new perspective on an old Bromide. Marc Tramier, Oliver Holub, John C. Croney, Takahisa Ishii, Steven E. Seifried and David M. Jameson. Fluorescence Spectroscopy, Imaging and Probes; Editors: R. Kraayenhof, A.J.W.G. Visser and H.C. Gerritsen; Springer-Verlag Berlin, Heidelberg, New York; 2002; p. 111-121; ISBN 3-540-42768-6; on the occasion of the "Seventh International Conference on Methods and Applications of Fluorescence Spectroscopy, Imaging and Probes", Amsterdam, The Netherlands, September 16-19, 2001. Download PDF (710 kB).

Quantitative histogram analysis of images. Oliver Holub and Sérgio T. Ferreira. Computer Physics Communications, Vol. 175, Issue 9, 620-623, 2006. Accompanying computer program stored in the Computer Physics Communications Program Library. Description, Computer program

Neuritogenesis and neuronal differentiation promoted by 2,4-dinitrophenol, a novel anti-amyloidogenic compound. Ana Paula Wasilewska-Sampaio, Mariana S. Silveira, Oliver Holub, Rejane Goecking, Flávia C. A. Gomes, Vivaldo Moura Neto, Rafael Linden, Sérgio T. Ferreira and Fernanda G. De Felice. The FASEB Journal, Vol. 19, 1627-1636, 2005. Paper online, Download PDF (352 kB).

Mitochondrial creatine kinase activity prevents reactive oxygen species generation. Antioxidant role of mitochondrial kinase-dependent ADP re-cycling activity. Laudiene Evangelista Meyer, Lilia Bender Machado, Ana Paula S. A. Santiago, Wagner Seixas da-Silva, Fernanda G. De Felice, Oliver Holub, Marcus F. Oliveira and Antonio Galina. The Journal of Biological Chemistry, Vol. 281, Issue 49, 37361-37371, 2006. Paper online, Download PDF (675 kB), Supplement.

Fluorescence lifetime imaging microscopy of Chlamydomonas reinhardtii: non-photochemical quenching mutants and the effect of photosynthetic inhibitors on the slow chlorophyll fluorescence transient. Oliver Holub, Manfredo J. Seufferheld, Christoph Gohlke, Govindjee, Gregor J. Heiss and Robert M. Clegg. Journal of Microscopy. Vol. 226 (Pt. 2), 90-120, 2007. Paper online, Download PDF (921 kB).

Snapshots of the Govindjee lab from the late 1960s to the late 1990s, and beyond... Julian J. Eaton-Rye. Photosynthesis Research, Vol. 94, 153-178, 2007. Letter pages 168-169 by Oliver Holub. Paper online, Download PDF (1.1 MB).

Profilin interaction with phosphatidylinositol (4,5)-bisphosphate destabilizes the membrane of giant unilamellar vesicles. Kannan Krishnan, Oliver Holub, Enrico Gratton, Andrew H A Clayton, Stephen Cody, and Pierre D J Moens. Biophys J, Vol. 96, Issue 12, 5112-5121, 2009. PMCID: PMC2712054. Paper online.

Photophysical properties of blue-emitting silicon nanoparticles. Manuel J Llansola Portolés, Felipe Rodriguez Nieto, Delia B Soria, Javier I Amalvy, Pablo J Peruzzo, Daniel O Mártire, Mónica Kotler, Oliver Holub, and Mónica C Gonzalez. J Phys Chem C, Vol. 113, Issue 31, 13694–13702, 2009. Paper online.

Conformational plasticity of DM43, a metalloproteinase inhibitor from Didelphis marsiupalis: Chemical and pressure induced equilibrium (un)folding studies. Alex Chapeaurouge, Samanta M. Martins, Oliver Holub, Surza R. Lima, Richard H. Valente, Ana G. C. Neves-Ferreira, Sérgio T. Ferreira, Gilberto B. Domont and Jonas Perales. Biochim Biophys Acta, Vol. 1794, Issue 10, 1379-1386, 2009. Paper online.

Posters

Stereochemistry of DNA molecules by homo-energy transfer. Oliver Holub and Robert M. Clegg. Presented at the "Second Conference on Fluorescence Microscopy & Fluorescent Probes", Prague, Czechia, April 9-12, 1997; and "42nd Annual Meeting of the Biophysical Society", Kansas City, Missouri, February 22-26, 1998. Download PDF (1.1 MB).

Real-Time Fluorescence Lifetime-Resolved Imaging. Peter C. Schneider, Oliver Holub, and Robert M. Clegg. Presented at the "Second Conference on Fluorescence Microscopy & Fluorescent Probes", Prague, Czechia, April 9-12, 1997. Download PDF (1.5 MB).

Real-Time Fluorescence Lifetime-Resolved Images of 5-Aminolevulinic Acid-Induced Protoporphyrin IX in Cells. Peter C. Schneider, Oliver Holub, and Robert M. Clegg. Presented at the "42nd Annual Meeting of the Biophysical Society", Kansas City, Missouri, February 22-26, 1998. Download PDF (2.4 MB).

"Second order" sequence specificity of DAPI-binding to AT-regions in DNA. Oliver Holub and Robert M. Clegg. Presented at the "43rd Annual Meeting of the Biophysical Society", Baltimore, Maryland, February 13-17, 1999. Download PDF (430 KB).

Want to know something about your fluorescent samples that optics cannot resolve? Long working-distance stage-scanning instrument for Real-Time Fluorescence Lifetime-Resolved Imaging. Oliver Holub, Christoph Gohlke, Manfredo Seufferheld, Govindjee, and Robert M. Clegg. Presented at the "44th Annual Meeting of the Biophysical Society", New Orleans, Louisiana, February 12-16, 2000. Download PDF (1.2 MB).

New perspectives on an old bromide Ethidium binding to yeast tRNA^Phe. Marc Tramier, Oliver Holub, John Croney, Takahisa Ishii, Steven E. Seifried, David M. Jameson. Presented at the "44th Annual Meeting of the Biophysical Society", New Orleans, Louisiana, February 12-16, 2000. Download PDF (630 KB).

Real-time fluorescence lifetime-resolved images of individual cells of wild type and NPQ mutants of Chlamydomonas reinhardtii. Oliver Holub, Manfredo Seufferheld, Christoph Gohlke, Robert M. Clegg and Govindjee. Presented at the 9th International Conference on the Cell and Molecular Biology of Chlamydamonas, Amsterdam, The Netherlands, May 21-26, 2000. Download PDF (1.1 MB).

FlimFast - Fluorescence Lifetime Image Acquisition and Visualization at Video-Rate. Christoph Gohlke, Oliver Holub, and Robert M. Clegg. Presented at the "45th Annual Meeting of the Biophysical Society", Boston, Massachusetts, February 17-21, 2001. Download PDF (2.1 MB).

Application of real-time fluorescence lifetime-resolved imaging in photosynthesis: Studies of maize leaves (Zea Mays), small mustard leaves (Arabidopsis thaliana), and of individual wild-type and mutant cells of the green alga Chlamydomonas reinhardtii. Oliver Holub, Manfredo J. Seufferheld, Christoph Gohlke, Govindjee, and Robert M. Clegg. Presented at the "45th Annual Meeting of the Biophysical Society", Boston, Massachusetts, February 17-21, 2001. Download PDF (1.8 MB).

Fast, Macroscopic Chlorophyll Fluorescence Lifetime Imaging of Apple Fruit Skin. Martin J. Vandeven, Oliver Holub, Christoph Gohlke, Govindjee, Roland Valcke, Marcel Ameloot, and Robert M. Clegg. Presented at the "46th Annual Meeting of the Biophysical Society", San Francisco, California, February 23-27, 2002.

Development of a routine for the quantitative analysis of fluorescence microscopy images. Oliver Holub and Sérgio T. Ferreira. Presented at the "Annual Meeting of the Brazilian Society of Biochemistry & Molecular Biology (SBBq)", Hotel Glória, Caxambu, MG, Brazil, May 15-18, 2004. Download PDF (955 KB)

Stability of honeycomb beta-amyloid aggregates investigated by light microscopy and light scattering in comparison with general Mie scattering theory. Oliver Holub, Andrea C. Paula Lima; Paulo R. Louzada and Sérgio T. Ferreira. Presented at the "Annual Meeting of the Brazilian Society of Biochemistry & Molecular Biology (SBBq)", Hotel Glória, Caxambu, MG, Brazil , May 15-18, 2004. Download PDF (815 KB)

Neuritogenesis and cell differentiation induced by 2,4-dinitrophenol, a novel anti-amyloidogenic compound. Ana Paula Wasilewska-Sampaio, Rejane Goecking, Mariana S. Silveira, Oliver Holub, Flávia A. Gomes, Vivaldo Moura-Neto, Rafael Linden, Fernanda G. De Felice and Sérgio T. Ferreira. Presented at the "Annual Meeting of the Brazilian Society of Biochemistry & Molecular Biology (SBBq)", Hotel Glória, Caxambu, MG, Brazil, May 15-18, 2004.

Large aggregates of the amyloid-β peptide 1-42: Honeycomb formation and stability investigated by light microscopy and light scattering in comparison with general Mie scattering theory. A potential in vitro model system for amyloid plaques?. Oliver Holub, Andrea C. Paula Lima and Sérgio T. Ferreira. Presented at the first "Latin American Protein Society (LAPS) Meeting", Angra dos Reis, RJ, Brazil, November 8-12, 2004. Download PDF (817 KB)

Microglial phagocytosis of giant aggregates of β-amyloid. Ana Christina Morais da Silva, Sérgio T. Ferreira and Oliver Holub. Presented by Oliver Holub at the "XXXIV Annual Meeting of the Brazilian Society of Biochemistry & Molecular Biology (SBBq)", Hotel Monte Real, Águas de Lindóia, São Paulo, July 02-05, 2005.
This poster was awarded the Prêmio SBBq poster award. Download PDF (1.8 MB).

Oral Presentations

Fluorescence lifetime imaging at video rate - applications in photosynthesis. Presented by Oliver Holub. Co-authored by M.J. Seufferheld, C. Gohlke, Govindjee and R.M. Clegg. Presented at the "Annual Photosynthesis Conference & Retreat", Robert Allerton House, Monticello, IL, March 3-4, 2001.

Real-time fluorescence lifetime-resolved imaging - why we do it, how it's done and, applications for biology and medicine. Presented by R.M. Clegg. Co-authored by Oliver Holub, C. Gohlke, S. Breusegem, N. Barry and E. Gratton. Presented at "CYTO 2001 FLIM, FRET and Multiphoton Microscopy"; St Catherine's College, University of Oxford, July 1-3, 2001.

Fluorescence lifetime imaging microscopy (FLIM) of non-photochemical quenching mutants of C. reinhardtii. Presented by Govindjee. Co-authored by Oliver Holub, M.J. Seufferheld, C. Gohlke, and R.M. Clegg. Presented at "Light stress and photosynthesis UV-B and visible light effects" (a satellite meeting for PS2001, The 12th International Congress on Photosynthesis); Heron Island Resort, Queensland, Australia, August 13-17, 2001.

Fluorescence lifetime imaging at video rate - a new technique in photosynthesis research. Presented by Oliver Holub. Co-authored by M.J. Seufferheld, C. Gohlke, Govindjee and R.M. Clegg. Presented at the meetings for the "Sonderforschungsbereich 429: Molekulare Physiologie, Energetik und Regulation primärer pflanzlicher Stoffwechselprozesse", Technische Universität Berlin, Opt. Institut, Str. d. 17. Juni 135, Berlin, Germany, February 21, 2003.

Fluorescence lifetime imaging at video rate. Presented by Oliver Holub. Co-authored by M.J. Seufferheld, C. Gohlke, Govindjee and R.M. Clegg. Presented at the annual meeting of the "Federação de Sociedades de Biologia Experimental (FeSBE)", XIX Reunião Annual, Simpósio "Aplicações de fluorescência no estudo de sistemas biológicos", Águas de Lindóia, SP, Brazil, August 25-28, 2004.

Fluorescence lifetime imaging at video rate. Presented by Oliver Holub. Co-authored by P. C. Schneider, C. Gohlke, R.M. Clegg, M.J. Seufferheld and Govindjee. Faculdade de Filosofia, Ciências e Letras de Riberão Preto da Universidade de São Paulo, Riberão Preto, SP, Brazil, May 30, 2005.

Shining light on Alzheimer's Disease: Using light scattering to study synthetic amyloid plaques. Presented by Oliver Holub. Co-authored by Andrea C. Paula Lima, Ana Christina Morais da Silva and Sérgio T. Ferreira. Invited talk by the Faculdade de Filosofia, Ciências e Letras de Riberão Preto da Universidade de São Paulo, Lecture series of Profa. Dra. Catarina Satie Takahashi, Anfiteatro Prof. Lucien Lison, Riberão Preto, SP, Brazil, May 31, 2005.

Fluorescence Microscopy; Lecture 6 of the "Principles of Fluorescence Techniques - Fluorescence Workshop", Presented by Oliver Holub. Laboratory for Fluorescence Dynamics (LFD), University of California, Irvine, USA, September 11-14, 2006.

Advanced Instrumentation; Lecture 13 of the "1st LFD Workshop in Advanced Fluorescence Imaging and Dynamics ", Presented by Oliver Holub. Laboratory for Fluorescence Dynamics (LFD), University of California, Irvine, USA, October 23-26, 2006.

Advanced Instrumentation; Lecture 10 of the "2nd LFD Workshop in Advanced Fluorescence Imaging and Dynamics", Presented by Oliver Holub. Laboratory for Fluorescence Dynamics (LFD), University of California, Irvine, USA, October 22-26, 2007.

Fluorescence Microscopy; Lecture 6 of the "Introductory Course in Fluorescence Techniques, Spectroscopy and Microscopy", Presented by Oliver Holub. Laboratory for Fluorescence Dynamics (LFD), University of California, Irvine, USA, March 25-27, 2008.

Advanced Instrumentation; Lecture 10 of the "3rd LFD Workshop in Advanced Fluorescence Imaging and Dynamics", Presented by Oliver Holub. Laboratory for Fluorescence Dynamics (LFD), University of California, Irvine, USA, October 27-31, 2008.

Software

HAWGC: Quantitative histogram analysis of images.

FlimFast: Fluorescence lifetime imaging at video rate. Movie 1 2 3 4 (WMV8, 7-18 MB)

Fluorescence lifetime demo: visualizes time- and frequency-domain fluorescence signals as a function of various fluorescence spectroscopic and intrumentation variables.

Psf.c: A Python/Numpy C extension module to calculate point spread function for fluorescence microscopy according to the complex integration representation for the diffraction by Richards and Wolf.