Bio
04/2016 – present
Post-doctoral researcher, ‘Scherf Lab, Biology of Host-Parasite Interactions Unit’, Institut Pasteur, France
“The role of RNA modifications in post-transcriptional gene regulation of the human malaria parasite, Plasmodium falciparum”
09/2013 – 02/2016:
Ph.D., Red Sea Research Center, King Abdullah University of Science and Technology, Saudi Arabia.
“The genome of Aiptasia and the role of microRNAs in cnidarian-dinoflagellate endosymbiosis”, supervised by Dr. Christian R. Voolstra
09/2012 – 08/2013
MSc., Red Sea Research Center, King Abdullah University of Science and Technology, Saudi Arabia
“The microRNA repertoire of Symbiodinium, the dinoflagellate symbiont of reef-building corals”, supervised by Dr. Christian R. Voolstra
09/2009 – 08/2012
BSc., University of Tübingen, Germany.
“Population structure, growth and production of a recent brachiopod from the Chilean fjord region”, supervised by Dr. Jürgen Laudien and Dr. Nico K. Michiels
Training periods and research experiences
02/2016 – 03/2016
Research assistant, Centre for Organismal Studies Heidelberg (Germany), Dr. Annika Guse
07/2015 – 09/2015
Visiting graduate student, Centre for Organismal Studies Heidelberg (Germany), Dr. Annika Guse
04/2013 – 06/2013
Visiting graduate student, Stanford University School of Medicine (USA), Dr. John R. Pringle
03/2012 – 05/2012
Research Assistant, Alfred-Wegener-Institute, Helmholtz Center for Polar and Marine Research, Bremerhaven (Germany), Dr. Jürgen Laudien
10/2011 – 02/2012
Research Assistant, Centre for Plant Molecular Biology, University of Tübingen (Germany), Dr. Rita Groß-Hardt
05/2011 – 07/2011
Research Assistant/Scientific Diver, Alfred-Wegener-Institute, Helmholtz Center for Polar and Marine Research, arctic field station AWIPEV, Ny-Alesund (Spitsbergen), Dr. Christian Wienke, Dr. Philipp Fischer, Max Schwanitz
02/2011 – 03/2011
Research Assistant/Scientific Diver, Alfred-Wegener-Institute, Helmholtz Center for Polar and Marine Research, ‘Huinay Field Station’ (Chile), Dr. Jürgen Laudien
10/2010 – 01/2011
Research Assistant, Institute for Animal Evolutionary Ecology, University of Tübingen (Germany), Dr. Nico K. Michiels
08/2010 – 09/2010
Training as ‘Certified German/European Scientific Diver’, Alfred-Wegener-Institute, Helmholtz Center for Polar and Marine Research, Helgoland (Germany), Dr. Philipp Fischer
Research Publications
Wolfowicz I.*, Baumgarten S.*, Voss P.*, Hambleton E.A., Voolstra C.R., Hatta M., Guse A. (2016) Aiptasia sp. larvae as a model to reveal mechanisms of symbiont selection in cnidarians. Scientific Reports 6:32366 (*equal contribution)
Bhattacharya, D., Agrawal, S., Aranda, M., Baumgarten, S., Belcaid, M., Drake, J. L., Erwin, D., Foret, S., Gates, R. D., Gruber, D. F., Kamel, B., Lesser, M. P., Levy, O., Liew, Y. J., MacManes, M., Mass, T., Medina, M., Mehr, S., Meyer, E., Price, D. C., Putnam, H. M., Qiu, H., Shinzato, C., Shoguchi, E., Stokes, A. J., Tambutté, S., Tchernov, D., Voolstra, C. R., Wagner, N., Walker, C. W., Weber, A. P., Weis, V., Zelzion, E., Zoccola, D. & Falkowski, P. G. (2016) Comparative genomics explains the evolutionary success of reef-forming corals. eLife, 5:e13288, doi: 10.7554/eLife.13288.
Ryu, T., Seridi, L., Moitinho-Silva, L., Oates, M., Liew, Y. J., Mavromatis, C., Wang, X., Haywood, A., Lafi, F. F., Kupresanin, M., Sougrat, R., Alzahrani, M. A., Giles, E., Ghosheh, Y., Schunter, C., Baumgarten, S., Berumen, M. L., Gao, X., Aranda, M., Foret, S., Gough, J., Voolstra, C. R., Hentschel, U. & Ravasi, T. (2016) Hologenome analysis of two marine sponges with different microbiomes. BMC Genomics 17, 158, doi: 10.1186/s12864-016-2501-0
Parkinson, J. E., Baumgarten, S., Michell, C. T., Baums, I. B., LaJeunesse, T. C. & Voolstra, C. R. (2016) Gene expression variation resolves species and individual strains among coral-associated dinoflagellates within the genus Symbiodinium. Genome Biology and Evolution 8, 665-680
Daniels, C., Baumgarten, S., Yum, L. K., Michell, C. T., Bayer, T., Arif, C., Roder, C., Weil, E. & Voolstra, C. R. (2015) Metatranscriptome analysis of the reef-building coral Orbicella faveolata indicates holobiont response to coral disease. Frontiers in Marine Science, doi: 10.3389/fmars.2015.00062
Baumgarten, S., Simakov, O., Esherick, L. Y., Liew, Y. J., Lehnert, E. M., Michell, C. T., Li, Y., Hambleton, E. A., Guse, A., Oates, M. E., Gough, J., Weis, V. M., Aranda, M., Pringle, J. R. & Voolstra, C. R. (2015) The genome of Aiptasia, a sea anemone model for coral symbiosis. Proceedings of the National Academy of Science of the U. S. A., 112, 11893-11898
Liew, Y. J., Aranda, M., Carr, A., Baumgarten, S., Zoccola, D., Tambutté, S., Allemand, D., Micklem, G. & Voolstra, C. R. (2014) Identification of microRNAs in the coral Stylophora pistillata. PLoS One 9(3): e91101. doi:10.1371/journal.pone.0091101
Baumgarten, S., Bayer, T., Aranda, M., Liew, Y., Carr, A., Micklem, G. & Voolstra, C. R. (2013) Integrating microRNA and mRNA expression profiling in Symbiodinium microadriaticum, a dinoflagellate symbiont of reef-building corals. BMC Genomics 14, 704, doi:10.1186/1471-2164-14-704
Baumgarten, S., Laudien, J., Jantzen, C., Häussermann, V. & Försterra, G. (2014) Population structure, growth and production of a recent brachiopod from the Chilean fjord region. Marine Ecology 35, 401–413