Curriculum vitae of Dr. rer. nat. Martin J. Fraunholz

Since 7.2010
Curriculum vitae of
Dr. rer. nat. Martin J. Fraunholz
Research
Chair of Microbiology, University of Würzburg
Senior Scientist, Research topics:
• Phagolysosomal escape of Staphylococcus aureus
• Apoptosis induction by Staphylococcus aureus
• Host-pathogen interaction of Neisseria gonorrhoeae
06.2005-05.2010 Ernst Moritz Arndt University Greifswald
Junior Group Leader within FunGene- Competence Center for Functional Genomics.
Research topics:
• Phagolysosomal escape of Staphylococcus aureus
• Development and application of innovative fluorescence microscopy tools to assess
virulence factor functions of intracellular bacteria
• AureusDB – Staphylococcus aureus Genome Database
• Operon recognition via machine-learning
• Data mining using non-linear principal component analysis to identify chromosomal
hot spots of gene regulation in the malaria parasite Plasmodium falciparum
06.2000-
12.2004
University of Pennsylvania
Postdoctoral fellow at the Department of Biology (Dr. David S. Roos), University of
Pennsylvania, Philadelphia, USA.
Research topics:
• PlasmoDB– the Plasmodium Genome Resource
• ToxoDB– the Toxoplasma Genome Resource
• data mining and experimentation to identify plastid-targeted proteins within
apicomplexan parasites
• target priorization for high-throughput crystallizations studies in Plasmodium
falciparum
07.1999– 05.2000 Philipps-University Marburg
Research Associate at the Department of Cell Biology and Applied Botany (Prof. Dr. U.-
G. Maier)
Research Topics:
• Sequencing the genome and transcriptome of the nucleomorph of Guillardia theta
• Identification of phycobiliproteins of the cyanobacterium, Acaryochloris marina
• Calvin cycle genes of the cryptomonad alga, Guillardia theta
Teaching
since 02.2008 Practical course “Fluorescence microscopy methods in the investigation of infectious
diseases”; two complete weeks
since 04.2007 Lecture: “Fluorescence microscopy methods in life sciences” (1 week)
since 05.2006 Practical course “Fluorescence microscopy methods in life sciences”
2 course weeks within „GPII Microbiology“
since 01.2006 Practical course “Immunofluorescence analysis”
1 course week within „GPII Microbiology“
09.2003- South East Asian Training Course on Bioinformatics Applied to Tropical Diseases at the
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10.2003 ICGEB, New Delhi, India (Dr. Dinesh Gupta)
07.2002 Computational Biology for Pathogen Investigation, MBL, Kampala, Uganda (Drs. David S.
Roos and Thomas Egwang)
01.2002-
Teaching Assistant, Biol536 ‘Computational Biology’, University of Pennsylvania,
05.2002
Philadelphia, PA, USA (Dr. J. Kissinger)
06.2001 Teaching Assistant of the section 'Computational Biology' within the course 'Biology of
Parasitism', Woods Hole, MA, USA
03.2001 Lecture 'Computational genefinding' within Biol536: 'Computational Biology', University
04.1999 &
04.2000
of Pennsylvania, Philadelphia, PA, USA (Dr. J. Kissinger)
Teaching assistant 'Molecular Biology Methods', Philipps University, Marburg (Prof. Dr.
Uwe Maier)
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Software and
Datenbases
Book chapters
Publications
• AureusDB – a Staphylococcus aureus Genome Database,
http://aureusdb.biologie.uni-greifswald.de
• ZIK-ImageJ, Macro-Extensions to easily analyze microscopy imaging formats with
ImageJ
http://www.zik-fg.de/Group_Bioinformatics_Toponomics/data.html
(superseded bei WueFiji, soon available for download)
• ToxoDB & PlasmoDB: Toxoplasma gondii and Plasmodium genome resources
(developer until 12/2004);
http:// ToxoDB.org
http://PlasmoDB.org
• Matthias Scholz, Martin Fraunholz, and Joachim Selbig. Nonlinear principal
component analysis: neural network models and applications. In Principal
Manifolds for Data Visualization and Dimension Reduction, edited by Alexander
N. Gorban, Balázs Kégl, Donald C. Wunsch, and Andrei Zinovyev. Volume 58 of
LNCSE, pages 44-67. Springer Berlin Heidelberg, 2007.
• Crawford, M.J., Fraunholz, M.J., Roos, D.S. (2003). Energy metabolism in the
Apicomplexa. In: Molecular Medical Parasitology. Joseph Marr, Nilsen, T.,
Komuniecki, R. (eds.) Academic Press. p. 154-169.
• Wastl, J., Fraunholz, M., Zauner, S., Maier, U.-G. (1999) Lessons from
nucleomorphs and chloroplasts. In: From symbiosis to eukaryotism -
ENDOCYTOBIOLOGY VII. Wagner E, Normann J, Greppin H, Hackstein JHP,
Herrmann RG, Kowallik KV, Schenk HEA, Seckbach J., eds., pp.319-326, Geneva
University Press
• Fraunholz, M. J., Wastl, J., Zauner, S., Rensing, S. A., Scherzinger, M.M., Maier,
U.-G. (1997). The evolution of cryptophytes. Plant Syst. Evol. [Suppl.] 11:163-
174. In Bhattacharya, D. 1997. Origins of algae and their plastids. (Editor)
Springer-Verlag, Wien
Dissertation • 'Das Nucleomorph Chromosom II der Cryptomonade Guillardia theta: Struktur,
Sequenzanalyse und evolutionäre Implikationen' (1999), Philipps-Universität,
Marburg
Articles
• Giese, B., F. Glowinski, K. Paprotka, S. Dittmann, T. Steiner, B. Sinha, and M. J.
Fraunholz. 2011. Expression of delta-toxin by Staphylococcus aureus mediates
escape from phago-endosomes of human epithelial and endothelial cells in the
presence of beta-toxin. Cell Microbiol 13:316-329.
• Ziegler, P., S. Teller, N. H. Ha, B. Giese, M. Fraunholz, and R. Walther. 2011.
Phosphoproteomic identification of a PDX-1/14-3-3epsilon interaction in
pancreatic beta cells. Horm Metab Res 43:165-170.
• Köck, K., A. Koenen, B. Giese, M. Fraunholz, K. May, W. Siegmund, E. Hammer,
U. Volker, G. Jedlitschky, H. K. Kroemer, and M. Grube. 2010. Rapid modulation
of the organic anion transporting polypeptide 2B1 (OATP2B1, SLCO2B1)
function by protein kinase C-mediated internalization. J Biol Chem.
• Stoll, S., H. Feldhaar, M. J. Fraunholz, and R. Gross. 2010. Bacteriocyte dynamics
during development of a holometabolous insect, the carpenter ant Camponotus
floridanus. BMC Microbiol 10:308.
• Lam, T. T., B. Giese, D. Chikkaballi, A. Kuhn, W. Wolber, J. Pane-Farre, D.
Schafer, S. Engelmann, M. Fraunholz, and B. Sinha. 2010. Phagolysosomal
integrity is generally maintained after Staphylococcus aureus invasion of
nonprofessional phagocytes but is modulated by strain 6850. Infect Immun
78:3392-3403.
• Paprotka, K., B. Giese, and M. J. Fraunholz. 2010. Codon-improved fluorescent
proteins in investigation of Staphylococcus aureus host pathogen interactions. J
Microbiol Methods 83:82-86.
• Rändler, C., R. Matthes, A. J. McBain, B. Giese, M. Fraunholz, R. Sietmann, T.
Kohlmann, N. O. Hübner, and A. Kramer. 2010. A three-phase in-vitro system for
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studying Pseudomonas aeruginosa adhesion and biofilm formation upon
hydrogel contact lenses. BMC Microbiol 10:282.
• Sinha, B., and M. Fraunholz. 2010. Staphylococcus aureus host cell invasion and
post-invasion events. Int J Med Microbiol 300:170-175.
• Stoll, S., H. Feldhaar, M. J. Fraunholz, and R. Gross. 2010. Bacteriocyte dynamics
during development of a holometabolous insect, the carpenter ant Camponotus
floridanus. BMC Microbiol 10:308.
• Wolf, G., B. Hessabi, A. Karkour, U. Henrion, M. Dahlhaus, A. Ostmann, B. Giese,
M. Fraunholz, P. Grabarczyk, R. Jack, and R. Walther. 2010. The activation of
the rat insulin gene II by BETA2 and PDX-1 in rat insulinoma cells is repressed by
Pax6. Mol Endocrinol 24:2331-2342.
• Giese, B., S. Dittmann, K. Paprotka, K. Levin, A. Weltrowski, D. Biehler, T.-T. Lâm,
B. Sinha, and M. J. Fraunholz. 2009. Staphylococcal α-toxin is not sufficient to
mediate escape from phagolysosomes in upper airway epithelial cells. Infection
and Immunity 77(9) p. 3611–3625.
• Reder, A., Höper, D., Weinberg, C., Gerth, U., Fraunholz, M., Hecker, M. (2008)
The Spx paralogue MgsR (YqgZ) controls a subregulon within the general stress
response of Bacillus subtilis. Mol. Microbiol.69(5):1104-20.
• Scholz M., Fraunholz M.J. (2008) A computational model of gene expression
reveals early transcriptional events at the subtelomeric regions of the malaria
parasite, Plasmodium falciparum. Genome Biol. 9(5):R88.
• Hu, K., Johnson, J., Florens, L., Fraunholz, M., Suravajjala, S., DiLullo, C., Yates, J.,
Roos, D.S., J.M. Murray (2006) Cytoskeletal components of an invasion machine -
the apical complex of Toxoplasma gondii. PLoS Pathogens 2(2):e13.
• Fraunholz, M.J. (2005) Systems biology in malaria research. Trends Parasitol. 21
(9): 393-395.Harb O.S., Chatterjee B., Fraunholz M.J., Crawford M.J., Nishi M.,
Roos D.S. (2004) Multiple Functionally Redundant Signals Mediate Targeting to
the Apicoplast in the Apicomplexan Parasite Toxoplasma gondii. Eukaryot Cell.
3(3):663-674. PMID: 15189987
• Ralph, S.A., van Dooren, G.G., Waller, R.F., Crawford, M.J.,Fraunholz, , M.J.,
Foth, B.J., Tonkin, C.J., Roos, D.S., McFadden, G.I. (2004) Metabolic Maps and
functions of the Plasmodium falciparum apicoplast. Nature Reviews Microbiology.
2: 203-216.
• Fraunholz M. J., Roos, D. S. (2003) PlasmoDB: exploring genomics and postgenomics
data of the malaria parasite, Plasmodium falciparum. Redox Report.
8:317-320. PMID: 14962373
• Foth, B.J., Ralph, S.A, Tonkin, C.J., Struck, N.S., Fraunholz, M.J., Roos, D.S.,
Cowman, A.F., McFadden, G.I. (2003) Dissecting Apicoplast Targeting in the
Malaria Parasite Plasmodium falciparum. Science. 299:705-708.
• Bahl, A., Brunk, B., Crabtree, J., Fraunholz, M.J., Gajria, B., Grant, G.R., Ginsburg,
H., Gupta, D., Kissinger, J.C., Labo, P., Li, L., Mailman, M.D., Milgram, A.J.,
Pearson, D.S., Roos, D.S., Schug, J., Stoeckert, C.J. Jr, Whetzel, P. (2003).
PlasmoDB: the Plasmodium genome resource. A database integrating
experimental and computational data. Nucl. Acids. Res. 31: 212-215.
• Gardner, M.J., Hall, N., Fung, E., White, O., Berriman, M., Hyman, R.W., Carlton,
J.M., Pain, A., Nelson, K.E., Bowman, S., Paulsen, I.T., James, K., Eisen, J.A.,
Rutherford, K., Salzberg, S.L., Craig, A., Kyes, S., Chan, M.S., Nene, V., Shallom,
S.J., Suh, B., Peterson, J., Angiuoli, S., Pertea, M., Allen, J., Selengut, J., Haft, D.,
Mather, M.W., Vaidya, A.B., Martin, D.M., Fairlamb, A.H., Fraunholz, M.J., Roos,
D.S., Ralph, S.A., McFadden, G.I., Cummings, L.M., Subramanian, G.M., Mungall,
C., Venter, J.C., Carucci, D.J., Hoffman, S.L., Newbold, C., Davis, R.W., Fraser,
C.M., Barrell, B. (2002) Genome sequence of the human malaria parasite
Plasmodium falciparum. Nature. 419(6906):498-511.
• Kissinger, J.C., Brunk, B.P., Crabtree, J., Fraunholz, M.J., Gajria, B., Milgram, A.J.,
Pearson, D.S., Schug, J., Bahl, A., Diskin, S.J., Ginsburg, H., Grant, G.R., Gupta,
D., Labo, P., Li, L., Mailman, M.D., McWeeney, S.K., Whetzel, P., Stoeckert, C.J.,
Roos, D.S. (2002) The Plasmodium genome database. Nature. 419(6906):490-
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492.
• Matrajt, M., Nishi, M., Fraunholz, M.J., Peter, O., Roos, D.S. (2002). Aminoterminal
control of transgenic protein expression levels in Toxoplasma gondii.
Mol. Biochem. Parasitol. 120:285-289.
• Roos, D.S., Crawford, M.J., Donald, R.G., Fraunholz, M.J., Harb, O.S., He, C.Y.,
Kissinger, J.C., Shaw, M.K., Striepen, B. (2002) Mining the Plasmodium genome
database to define organellar function: what does the apicoplast do? Philos.
Trans. R. Soc. Lond. B. Biol. Sci. 357(1417):35-46.
• Bahl, A., Brunk, B., Coppel, R.L., Crabtree, J., Diskin, S.J., Fraunholz, M.J., Grant,
G.R., Gupta, D., Huestis, R.L., Kissinger, J.C., Labo, P., Li, L., McWeeney, S.K.,
Milgram, A.J., Roos, D.S., Schug, J., Stoeckert, C.J. Jr (2002). PlasmoDB: the
Plasmodium genome resource. An integrated database providing tools for
accessing, analyzing and mapping expression and sequence data (both finished
and unfinished). Nucleic Acids Res. 30(1):87-90.
• S. Douglas, S. Zauner, M. Fraunholz, M. Beaton, S. Penny, L.-T. Deng, X. Wu, M.
Reith, T. Cavalier-Smith, U.-G. Maier (2001) The highly reduced genome of an
enslaved algal nucleus. Nature. 410 (6832): 1009-1126.
• The Plasmodium Genome Database Collaborative (2001). PlasmoDB: an
integrative database of the Plasmodium falciparum genome tools for accessing
and analyzing finished and unfinished sequence data. Nucleic Acids Res. 29
(1):66-69.
• Deane, J.A., Fraunholz, M., Su, V., Maier, U.-G., Martin, W., Durnford, D.G.,
McFadden, G.I. (2000). Evidence for nucleomorph to host nucleus gene transfer:
light-harvesting complex proteins from cryptomonads and chlorarachniophytes.
Protist 151:239-252.
• Lockhart, P. J., Huson D., Maier, U.-G., Fraunholz, M. J., Van der Peer, Y.,
Barbrook, A. C., Howe, C. J., Steel, M. A. (2000). How molecules evolve on the
eubacterial tree of life. Mol. Biol. Evol. 17(5), 835-838.
• Maier, U.-G., Fraunholz, M., Zauner, S., Penny. S., Douglas, S. (2000). A
Nucleomorph-Encoded CbbX and the Phylogeny of RuBisCo Regulators. Mol. Biol.
Evol. 17(4), 576-583.
• Zauner, S., Fraunholz, M., Wastl, J., Penny. S., Beaton, M., Cavalier-Smith, T.,
Maier, U.-G., Douglas, S. (2000). Chloroplast protein and centrosomal genes, a
tRNA intron, and odd telomeres in an unusually compact eukaryotic genome, the
cryptomonad nucleomorph. Proc. Natl. Acad. Sci. USA 97, 200-205.
• Wenderoth, K., Marquardt, J., Fraunholz, M. J., Van de Peer, Y., Wastl, J., Maier,
U.-G. (1999). The taxonomic position of Chlamydomyxa labyrinthuloides
ARCHER. Europ. J. Phycol. 34: 97-108.
• Wastl, J., Fraunholz, M. J., Zauner, S., Douglas, S., Maier, U.-G. (1999). Ancient
gene duplication and differential gene flow in plastid lineages: The
GroEL/Cpn60 example. J. Mol. Evol. 48: 112-117.
• Fraunholz, M. J., Mörschel, E., Maier, U.-G. (1998). The chloroplast division
protein FtsZ is encoded by a nucleomorph gene in cryptomonads. Mol. Gen.
Genet. 260:207-211.
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