Ivan Dikic group |
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Ivan Dikic was born and brought up in Zagreb, Croatia, where he was trained as a medical doctor, he obtained his PhD in molecular biology from the University of Zagreb while working under the supervision of Joseph Schlessinger at New York University Medical Center, USA.
He became a Group Leader at the Ludwig Institute for Cancer Research, Uppsala, Sweden moving to Frankfurt in 2002.
He is currently a Professor and Director of Institute of Biochemistry II at the Goethe University, Frankfurt, Germany and the Director of the Frankfurt Institute for Molecular life Sciences (FMLS).
He also holds a Guest Professorship at the University of Split, Croatia.
Ivan’s scientific interests are focused on how ubiquitin pathways regulate cellular processes, such as receptor-mediated endocytosis, immune responses, DNA repair, proteasomal degradation and more recently on molecular basis of selective autophagy.
Ivan Dikic
Director of IBCII
Group leader of
Molecular Signaling groupResume of Ivan Dikic +
Ivan Dikic
Johann Wolfgang Goethe University,
Medical School
Theodor-Stern-Kai 7
D-60590 Frankfurt am Main, GermanyTel: 00 49 69 6301 5652
Fax: 00 49 69 6301 5577
E-mail: ed.2mehcoib@cikid.navi
Studies
1986 – 1991 Medical Doctor, University of Zagreb Medical School, Summa cum laude, 1991 – 1995 Ph.D. - Molecular Biology University of Zagreb and New York University under supervision of Prof. J. Schlessinger 1995 – 1997 Postdoctoral Fellow with Prof. Joseph Schlessinger, New York University Medical Center, New York, USA
Positions Held
1991 - 1992 International Institute for Mother and Child Health Care, Zagreb, Croatia 1992 – 1997 Research Associate at the New York University, NY, USA 1997 – 2002 Group Leader, Ludwig Institute for Cancer Research, Uppsala, Sweden 2002 – 2008 C3 Professor, Institute of Biochemistry II, Goethe University, Medical School, Frankfurt, Germany 2002 – present Professor, School of Medicine University of Split, Croatia 2005 – present Adjunct Investigator, Tumour Biology Program, MedILS, Split, Croatia 2009 – present Director, Institute of Biochemistry II, Goethe University Medical School, Frankfurt am Main, Germany 2009 – present Scientific Director of Frankfurt Institute for Molecular Life Sciences
Awards and Honors
1990 Award for Distinguished Students, University of Zagreb, Croatia 1990 Karyn Kupcinet fellowship, Weizmann Institute, Rehovot, Israel 1991 FEBS scholarship, Aarhus, Denmark 1991 Rector's Award, University of Zagreb, Croatia 1991 D. Perovic Award- Best Medical Graduate at University of Zagreb, Croatia 1997 Young Investigator Award - Gordon Conference, Il Ciocco, Italy 1997 – 2003 Research Award, Boehringer Ingelheim Fonds Germany 2000 – 2004 Award of the Strategic Funds for Young Leaders, Sweden 2002 Lilla Fernström Award, Lund, Sweden 2006 Wissenschaftspreis 2006, Glaxo-Smith-Kline-Foundation, Munich, Germany 2006 Binder Innovation Prize, German Society for Cell Biology, Braunschweig, Germany 2006 Young Cancer Researcher Award, European Association for Cancer Research, Budapest, Hungary 2006 AACR Award for Outstanding Achievement in cancer research, Washington, USA 2008 Award of the International Society of Blood Purification, Brijuni Island, Croatia 2009 Sir Hans Krebs Preis, Gesellschaft der Medizinischen Hochschule Hannover e. V., Germany
Memberships2000-present The American Association for Cancer Research 2001-present European Life Science Organization (ELSO) 2001-2003 International Union Against Cancer 2002-present German Society for Biochemistry and Molecular Biology, FEBS and IUBMB 2003-present American Association for Biochemistry and Molecular Biology (ASBMB) 2003-present German Association for Cell Biology Since 2004 European Molecular Biology Organization (EMBO)
Scientific meetings and lecturesInvited speaker at numerous Conferences and Universities in Europe, USA and Asia. Lecturer-instructor at 12 EMBO, ESF and FEBS Courses Founder and co-organizer of the Dubrovnik conferences on Signalling (1998 – 2006) Organizer of EMBO Lecture Course on Signalling and Development (Split, 2001) Organizer of the FEBS Lecture Course on Cellular Signalling (Dubrovnik, 2004) Organizer of EMBO Practical Course on Ubiquitin and SUMO (Split, 2006 and 2008) Co-chair EMBO Conference: At the joint edge of cellular (Villars-sur-Ollon, 2008) Microbiology and cell Biolgy Chair EMBO Conference: Molecular medicine and cellular signalling (Dubrovnik, 2008) MedILS Summer School: Hot topics in Protein research (Split 2008) Board member and reviewer
2002 – 2003 Scientific Advisory Board, Betagenon, Stockholm, Sweden 2003 – 2008 Editorial Board member, Journal of Biological Chemistry 2005 Highlights Advisor, Nature Reviews Molecular Cell Biology 2005 – 2009 Scientific Advisory Board member of Association for International Cancer Research 2006 Scientific Advisory Board member of IFOM, Milan 2006 – 2010 International Advisory Board member, International Institute of Molecular and Cell Biology, Warsaw, Poland 2006 Associate editor, Cancer Research 2007 Advisory Editorial Board member EMBO Journal and EMBO Reports 2007 Editorial Board member Biochemical Journal 2008 EMBO Advanced Training Centre committee member 2009 - 2012 EMBO Publication committee member 2009 - 2012 ERC Life Science panel member 2009 Landon Foundation-AACR INNOVATOR Award Scientific Review Committee 2009 - Present Chairman of Scientific Advisory Group, SCILLS (Scottish Institute for Cell Signalling), University Dundee, Dundee, Scotland
Mentor for students and educationTill 2008 Mentor for 8 Ph.D. and 6 M.Sc. students 2008 MedILS summer schools and practical courses 2004-2008 Numerous seminars, practicum for medical students in Goethe University 2003 – 2004 Seminar courses and computer-based problem solving practicum in Biochemistry at the Goethe University Medical School, Frankfurt, Germany 2000 – 2001 Graduate course in Cellular Signalling - Karolinska Institute, Hudinge, Sweden 2000 Advanced Course in “Physiology: Cellular and Molecular Aspects”, The Wenner-Gren Institute, Stockholm University, Sweden 2000 Graduate Course in Molecular Biology, Split University, Split Croatia 1999 – 2000 Graduate Course in Cell Signalling, Uppsala University, Uppsala, Sweden 1995 – 1997 Research Instructor, New York University, Medical School, NY, USA Patent
Use of EGFL7 for modulation of cells. DE 10 2007 019162.8
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Fumiyo Ikeda was born in Japan and spent one's school years in Osaka. She graduated from Dental School of Osaka University and then started a PhD course in biochemistry department of Graduate School of Osaka University.She continued research in the same department as a staff scientist for 2 years. After that she joined Ivan Dikic's Lab as a postdoc and is continuing her research to understand regulatory mechanisms of inflammatory signaling.
Resume of Fumiyo Ikeda +
Fumiyo Ikeda, PhD, DDS Educations 1999-2003 Osaka University, Graduate School of Dentistry, Osaka, Japan Major Molecular Biology Degree Ph. D. (Doctor of Philosophy) Dissertation The Role of JNK/c-Jun Signaling in Osteoclast Differentiation 1993-1999 Osaka University, Dental School, Osaka, Japan Major Dentistry Degree D.D.S. (Doctor of Dental Science) Experiences 2005-present Postdoctoral fellow, Goethe-University Frankfurt am Main, Frankfurt, Germany (Prof. I. Dikic) 2003-2005 Staff scientist, Osaka University, Graduate School of Dentistry, Osaka, Japan (Prof. T. Yoneda) 2000-2003 Research assistant, Osaka University, Graduate School of Dentistry, Osaka, Japan (Prof. T. Yoneda) Fellowships 2008-2010 Japan Society for the Promotion of Science, JSPS Postdoctoral Fellowship for Research Abroad (Japan) 2005-2007 The Alexander von Humboldt Foundation, Research Fellowship (Germany) 2005 The Uehara Memorial Foundation, Research Fellowship for Research Abroad (Japan) 2002-2003 The Iwadare Scholarship Foundation, Research Fellowship for PhD program (Japan) 1999-2003 The Japan Scholarship Foundation, Research Fellowship for PhD program (Japan) Awards 2003 2 Young Investigator Awards for 2 abstracts (The American Society of Bone and Mineral Research) Publications 1- Rahighi S*, Ikeda F*, Kawasaki M, Akutsu M, Suzuki N, Kato R, Kensche T, Uejima T, Bloor S, Komander D, Randow F, Wakatsuki S#, Dikic I#. Specific Recognition of Linear Ubiquitin Chains by NEMO Is Important for NF-kB Activation, Cell, 136(6), 1098-1109, 2009 * These authors contributed equally to this work 2- Hata K, Nishimura R, Muramatsu S, Matsuda A, Matsubara T, Amano K, Ikeda F, Harley VR, Yoneda T. Paraspeckle protein p54nrb links Sox9 mediated transcription with RNA processing during chondrogenesis. J Clin Invest 118(9), 3098-3108, 2008 3- Ikeda F, Matsubara T, Tsurukai T, Hata K, Nishimura R, Yoneda T. JNK/c-Jun Signaling Mediates Anti-Apoptotic Effect of RANKL in Osteoclasts. J Bone Miner Res 23(6), 907-914, 2008 4- Iha H, Peloponese JM, Verstrepen L, Zapart G, Ikeda F, Smith CD, Starost MF, Yedavalli V, Heyninck K, Dikic I, Beyaert R, Jeang KT. Inflammatory cardiac valvulitis in TAX1BP1-deficient mice through selective NF-kappaB activation. EMBO J 27(4), 629–641, 2008 5- Wagner S, Carpentier I, Rogov V, Kreike M, Ikeda F, Löhr F, Wu CJ, Ashwell JD, Dötsch V, Dikic I, Beyaert R. Ubiquitin binding mediates the NF-kappaB inhibitory potential of ABIN proteins. Oncogene 27(26), 3739-3745, 2008 6- Ikeda F, Hecker CM, Rozenknop A, Nordmeier RD, Rogov V, Hofmann K, Akira S, Dotsch V, Dikic I. Involvement of the ubiquitin-like domain of TBK1/IKK-i kinases in regulation of IFN-inducible genes. EMBO J 26(14), 3451-3462, 2007 7- Shimoyama A, Wada M, Ikeda F, Hata K, Matsubara T, Nifuji A, Noda M, Amano K, Yamaguchi A, Nishimura R, Yoneda T. Ihh/Gli2 signaling promotes osteoblast differentiation by regulating Runx2 expression and function. Mol Biol Cell 18(7), 2411-2418, 2007 8- Matsubara T, Myoui A, Ikeda F, Hata K, Yoshikawa H, Nishimura R, Yoneda T. Critical role of cortactin in actin ring formation and osteoclastic bone resorption. J Bone Miner Metab 24(5), 368-372, 2006 9- Ikeda F, Nishimura R, Matsubara T, Hata K, Reddy SV, Yoneda T. Activation of NFAT signal in vivo leads to osteopenia associated with increased osteoclastogenesis and bone-resorbing activity. J Immunol 177(4), 2384-2390, 2006 10- Hiraga T, Hata K, Ikeda F, Kitagaki J, Fujimoto-Ouchi K, Tanaka Y, Yoneda T. Preferential inhibition of bone metastases by 5'-deoxy-5-fluorouridine and capecitabine in the 4T1/luc mouse breast cancer model. Oncol Rep 14(3), 695-699, 2005 11- Hata K, Nishimura R, Ueda M, Ikeda F, Matsubara T, Ichida F, Hisada K, Nokubi T, Yamaguchi A, Yoneda T. A CCAAT/enhancer binding protein beta isoform, liver-enriched inhibitory protein, regulates commitment of osteoblasts and adipocytes. Mol Cell Biol 25(5), 1971-1979, 2005 12- Ikeda F, Nishimura R, Matsubara T, Tanaka S, Inoue J, Reddy SV, Hata K, Yamashita K, Hiraga T, Watanabe T, Kukita T, Yoshioka K, Rao A, Yoneda T. Critical roles of c-Jun signaling in regulation of NFAT family and RANKL-regulated osteoclast differentiation. J Clin Invest 114(4), 475-484, 2004 13- Ichida F, Nishimura R, Hata K, Matsubara T, Ikeda F, Hisada K, Yatani H, Cao X, Komori T, Yamaguchi A, Yoneda T. Reciprocal roles of MSX2 in regulation of osteoblast and adipocyte differentiation. J Biol Chem 279(32), 34015-34022, 2004 14- Hiraga T, Ueda A, Tamura D, Hata K, Ikeda F, Williams PJ, Yoneda T. Effects of oral UFT combined with or without zoledronic acid on bone metastasis in the 4T1/luc mouse breast cancer. Int J Cancer 106(6), 973-979, 2003 15- Hata K, Nishimura R, Ikeda F, Yamashita K, Matsubara T, Nokubi T, Yoneda T. Differential roles of Smad1 and p38 kinase in regulation of peroxisome proliferator-activating receptor gamma during bone morphogenetic protein 2-induced adipogenesis. Mol Biol Cell 14(2), 545-555, 2003 16- Nishimura R, Hata K, Harris SE, Ikeda F, Yoneda T. Core-binding factor alpha 1 (Cbfa1) induces osteoblastic differentiation of C2C12 cells without interactions with Smad1 and Smad5. Bone 31(2), 303-312, 2002 Review Articles Ikeda F, Dikic I. Atypical ubiquitin chains: new molecular signals. 'Protein Modifications: Beyond the Usual Suspects' review series. EMBO Rep 9(6), 536-542, 2008 Nishimura R, Hata K, Ikeda F, Ichida F, Shimoyama A, Matsubara T, Wada M, Amano K, Yoneda T. Signal transduction and transcriptional regulation during mesenchymal cell differentiation. J Bone Miner Metab 26(3), 203-122, 2008 Terzic J, Marinovic-Terzic I, Ikeda F, Dikic I. Ubiquitin signals in the NF-kappaB pathway. Biochem Soc Trans 35(Pt 5), 942-945, 2007 Ikeda F, Dikic I. CYLD in ubiquitin signaling and tumor pathogenesis. Cell 125(4), 643-645, 2006 Nishimura R, Hata K, Ikeda F, Matsubara T, Yamashita K, Ichida F, Yoneda T. The role of Smads in BMP signaling. Front in Biosci 8, s275-s284, 2003
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Nicola Crosetto received his M.D. degree from the University of Pavia, Italy, in 2003 and his Specialization in Medical Oncology from the University of Torino, Italy, in 2007. Since January 2008 he is officially enrolled in the Ph.D. program in Molecular and Systems Biology at the University of Pavia, Italy, while conducting his research work at the Institute of Biochemistry II as a post-doctoral fellow. His scientific interests span any broad question in biology that can be addressed with cellular and biochemical methods. More specifically, he has been working on the regulation of DNA damage responses by ubiquitin.
Resume of Nicola Crosseto +
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Nicola Crosetto Educations 2003 Doctor in medicine, University of Pavia, IT, 110/110 cum laude 2004-2007 Trainee in biochemistry and molecular biology, Institute for Biochemistry II, Goethe University Hospital, Frankfurt am Main, DE 2007 Specialist in medical oncology, University of Torino, IT, 70/70 2008- present PhD student in molecular and systems biology, Institute for Biochemistry II, Goethe University Hospital, Frankfurt am Main, DE and Department of Bioengineering, University of Pavia, IT Grants and awards 2009 Young researcher award, “C. Golgi” Foundation, Pavia, IT 2008 Deutsche Forschungsgemeinschaft (DFG) funding on the project: “Induction of pluripotency by protein gain-of-function in cloned mouse embryos” (http://www.spp1356.de/project-area-b/xxx/) Co-applicant with Dr. Michele Boiani, Max-Planck Institute for Molecular Biomedicine, Münster, DE. 2006 Young researcher award, “G. Costa” Association against cancer, Ivrea, IT 2005 Short-term research grant, Center for Communication and Research, Pavia, IT 2005 Best medical graduate, Collegio Ghislieri, University of Pavia, Pavia, IT
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David studied Medical Biochemistry at the University of Glasgow and completed a one-year placement in the protein biochemistry department at GlaxoSmithKline, Harlow, UK.
He graduated in 2003 and started his PhD studies at the Beatson Institute for Cancer Research, Glasgow under the supervision of Prof. Margaret Frame.
This was a collaborative study with Prof. Miles Houslay (University of Glasgow) aimed at investigating the effect of cyclic-AMP on colon cancer survival.
David completed his PhD in October 2007 and started his post-doctoral studies in February 2008 with Prof. Ivan Dikic’s lab in Frankfurt, Germany.
David’s current research interests are focused on understanding how the process of autophagy is regulated and how specific proteins/organelles are targeted for degradation.Resume of David McEwan +
Name David George McEwan Education Oct. 2003 – Sept. 2007 Beatson Institute for Cancer Research Doctor of Philosophy (PhD) in Biochemistry and Molecular Biology Title Cyclic AMP modulation and its Effects on Chemo-resistant Colon Cancer cell Proliferation and Survival.Supervisors Prof. Margaret Frame and Prof. Miles HouslayAims Addressing the role of the second messenger cAMP in the regulation of colon cancer proliferation and survival. This work will provide further insights into the compartmentalised signalling pathways that regulate cAMP and its effects on proliferation with a view to developing new therapeutic strategies to combat colon cancer. For a detailed description of my PhD project please see appendix.October 1998 – June 2003 University of Glasgow MSci Medical Biochemistry (with work placement), Upper second class Final year project To study the effects of the immunophillin XAP2 on the protein kinase A (PKA) mediated phosphorylation and activity of a phosphodiesterase isoform, PDE4A5, under conditions that maximally activate PKA.Dissertation Purine Alkaloids: Importance to plants & their effects on humans. August 1992 - June 1998 St Andrews Academy, Paisley CSYS Maths, 6 Highers (English B, biology A, chemistry B, maths B, physics B, technological studies B and computing studies B)Professional experience October 2001 – September 2002 GlaxoSmithKline, Harlow, Essex Protein expression and purification group. During my industrial placement I was an integral part of a team that helped purify proteins that were required for various studies in the target to lead phase of drug development. The placement supplied me with the basic laboratory skills that have provided the foundations from which I have been able to build upon. Techniques employed included ion exchange chromatography, gel filtration and protein refolding to purify proteins to various degrees. LC/MS, peptide mass fingerprinting and N-terminal sequencing were also used to identify and aid the characterisation of purified proteins.Publications Novak I*, Kirkin V*, McEwan DG*, Zhang J, Wild P, Rozenknop A, Rogov V, Löhr F, Popovic D, Occhipinti A, Reichtert A, Terzic J, Doetsch V, Paul N, Dikic I. Nix is a selective autophagy receptor for mitochondrial clearance. EMBO Reports, 2010, in press. (*Equal contributing authors)Kirkin V, McEwan DG, Novak I, Dikic I. A role for ubiquitin in selective autophagy. Mol Cell. 2009; 34(3):259-69Kirkin V, Lamark T, Sou YS, Bjorkoy G, Nunn JL, Bruun JA, Shvets E, McEwan DG, Clausen TH, Wild P, Bilusic I, Theurillat JP, Overvatn A, Ishii T, Elazar Z, Komatsu M, Dikic I, Johansen T. A Role for NBR1 in Autophagosomal Degradation of Ubiquitinated Substrates. Mol Cell 2009; 33: 505-16.Sandilands E, Akbarzadeh S, Vecchione A, McEwan DG, Frame MC, Heath JK. Src kinase modulates the activation, transport and signalling dynamics of fibroblast growth factor receptors. EMBO Rep 2007; 8: 1162-9. McEwan DG, Brunton VG, Baillie GS, Leslie NR, Houslay MD, Frame MC. Chemoresistant KM12C colon cancer cells are addicted to low cyclic AMP levels in a phosphodiesterase 4-regulated compartment via effects on phosphoinositide 3-kinase. Cancer Res 2007; 67: 5248-57. Bolger GB, Peden AH, Steele MR, MacKenzie C, McEwan DG, Wallace DA, Huston E, Baillie GS, Houslay MD. Attenuation of the activity of the cAMP-specific phosphodiesterase PDE4A5 by interaction with the immunophilin XAP2. J Biol Chem 2003; 278: 33351-63.
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Sigrid Skånland earned her PhD in Oslo, Norway, studying intracellular transport under the supervision of Prof. Kirsten Sandvig. She is currently working as an EMBO fellow in the lab of Prof. Ivan Dikic, with main research interest being ubiquitin signals in the immune response.
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Name Sigrid S. Skånland Education 2009- Postdoc in Prof. Ivan Dikic’s lab. Institute of Biochemistry II, Johan Wolfgang Goethe University, Frankfurt, Germany 2005-2008 Ph.D-student in Prof. Kirsten Sandvig’s lab. The Norwegian Radium Hospital, University of Oslo, Oslo, Norway: “Mechanisms in intracellular transport of toxins” 2004-2005 Master’s degree in Molecular Biology in Prof. Kirsten Sandvig’s lab. The Norwegian Radium Hospital, University of Oslo, Oslo, Norway: “The phosphatidylinositol 3-kinase hVps34 modulates endosome to Golgi transport of ricin.” 1999-2002 Cand. mag. in Biology. Faculty of Mathematics and Natural Sciences, University of Oslo, Oslo, Norway. Training/courses 2007 Live cell imaging course. IMBV/EMBIO, Oslo, Norway. 2007 Confocal microscopy. Molecular Imaging Center, Bergen, Norway. 2006 Visiting student (3 months) in Prof. Tom Rapoport’s lab, Dept. of Cell Biology, Harvard Medical School, Boston, MA, USA. 2005 FEBS/EMBO advanced lecture course: Cellular and Molecular Biology of Membranes. Corsica, France. Fellowships 2009- EMBO Long term fellowship Publications Skånland SS, Wälchli S, Brech A, Sandvig K (2009): SNX4 in complex with clathrin and dynein: implications for endosome movement. PLoS One, 4(6):e5935.
Wälchli S, Åsheim HC, Skånland SS, Spilsberg B, Torgersen ML, Rosendal KR, Sandvig K (2009): Characterization of Syk and clathrin interaction upon Shiga toxin binding. Cell Signal, (7):1161-8. Skånland SS, Wälchli S, Sandvig K: arrestins attenuate p38 mediated endosome to Golgi transport. (2009): Cell Microbiol, Jan 21. Wälchli S,* Skånland SS,* Gregers TF, Lauvrak SU, Torgersen ML, Ying M, Kuroda S, Maturana A, Sandvig K (2008): The Mitogen-activated Protein Kinase p38 Links Shiga Toxin-dependent Signaling and Trafficking. Mol Biol Cell, 19, 95-104.
*Equal contributionMénétret JF, Schaletzky J, Clemons WM Jr, Osborne AR, Skånland SS, Denison C, Gygi SP, Kirkpatrick DS, Park E, Ludtke SJ, Rapoport TA, Akey CW (2007): Ribosome binding of a single copy of the SecY complex: implications for protein translocation. Mol Cell, 28, 1083-92. Utskarpen A, Slagsvold HH, Dyve AB, Skånland SS, Sandvig K (2007): SNX1 and SNX2 mediate retrograde transport of Shiga toxin. Biochem Biophys Res Commun, 358, 566-70. Torgersen ML, Wälchli S, Grimmer S, Skånland SS, Sandvig K (2007): Protein kinase Cdelta is activated by Shiga toxin and regulates its transport. J Biol Chem, 282, 16317-28. Skånland SS, Wälchli S, Utskarpen A, Wandinger-Ness A, Sandvig K (2007): Phosphoinositide-regulated retrograde transport of ricin: crosstalk between hVps34 and sorting nexins. Traffic, 8, 297-309.
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Tobias Kensche came to Frankfurt to study Biology and he finished his diploma degree in 2006 (equivalent to Masters degree). He studied a diverse range of topics including Anthropology and Cell Biology. Tobias’s diploma thesis was conducted under the supervision of Prof. H. D. Osiewacz, where he investigated the molecular mechanisms of aging, and in particular, the role of small mitochondrial HSPs in the fungus Podospora anserina. In 2007 he started his PhD in the lab of Prof. Ivan Dikic at the Institute of Biochemistry II, Frankfurt. Tobias is currently investigating the role of Ubiquitin and Ubiquitin binding domains (UBDs) in inflammatory signaling pathways.
Resume of Tobias Kensche +
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Tobias Kensche Educations 2000-2006 Diploma in Biology (Institute of Molecular Biosciences, Prof. H. D. Osiewacz) Johann Wolfgang Goethe-University Frankfurt am Main Since 2007 Ph.D.-Student at the Institute of Biochemistry II J. W. Goethe University Medical School In Ivan Dikic’ group: Molecular signaling.
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Yonathan Lissanu was born in Addis Ababa, Ethiopia. He finished his medical study in Gondar, Ethiopia in 2001. He got his MSc from the international molecular cell biology program of the University of Heidelberg and EMBL in 2004. He joined the lab of Ivan Dikic for his doctoral work. During this time his main interest has been the identification and characterization of novel regulators of EGF receptor signaling. He identified a cytoplasmic deacetylase HDAC6 as a regulator of EGFR trafficking by modulating acetylation of microtubules. Recently, he is interested in the role of linear ubiquitylation in activation of NFkB signaling.
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Yonathan Lissanu DeribeEducations Sept 1995 to July 2001 Gondar College of Medical Sciences, Gondar, Ethiopia, Doctor of Medicine (MD) degreeSept 2002- July 2004, International Masters Program in Molecular and Cellular Biology, University of Heidelberg, Heidelberg, Germany, Master of Science (MSc) degreeSept 2004- present PhD study, Faculty of biochemistry, chemistry and pharmacy, Johan Wolfgang Goethe University, Frankfurt, GermanyWork experience Sept 2000- Sept 2001 Internship at the teaching hospital of Gondar College Of Medical Sciences, Gondar, EthiopiaNov 2001- Aug 2002 Assistant lecturer, Department of Medical Biochemistry, Gondar College of Medical Sciences, Gondar, EthiopiaSept 2004- present PhD work at the Institute of Biochemistry II, Frankfurt Medical School, Frankfurt, GermanyAwards and prizes 08/2001 “Gold Medal” for overall outstanding academic excellence, Gondar College of Medical Sciences, Gondar, Ethiopia08/2001 “Best Medical Student 2000” by Ethiopian Medical AssociationSept 2002- July 2004 German Cancer Research Center (DKFZ) and Center for Molecular Biology Heidelberg (ZMBH) Fellowship for International Masters programme molecular cell biologyScientific publications
2005 Nov, 12 Cbl promotes clustering of endocytic adaptor proteins
Jozic D**, Cardenes N**, Deribe YL**, Moncalian G, Hoeller D, Groemping Y, Dikic I, Rittinger K, Bravo J.
Nature Structural and Molecular Biology 2005 Nov;12(11):972-92006 Dec, 15 Atypical polyproline recognition by the CMS N-terminal Src homology 3 domain
Moncalián G, Cárdenes N, Deribe YL, Spínola-Amilibia M, Dikic I, Bravo J.
J Biol Chem. 2006 Dec 15;281(50):38845-532009 Apr, 29 Caspaes-8 is involved in neovascularization-promoting progenitor cell functions
Scharner D, Rössig L, Carmona G, Chavakis E, Urbich C, Fischer A, Kang TB, Wallach D, Chiang YJ, Deribe YL, Dikic I, Zeiher AM, Dimmeler S.
Arterioscler Thromb Vasc Biol. 2009 Apr;29(4):571-82009 Dec, 22 EGFR trafficking is regulated by the lysine deacetylase HDAC6
Deribe YL, Wild P, Chandrashaker A, Curak J, Schmidt MH, Kalaidzidis Y, Milutinovic N, Kratchmarova I, Buerkle L, Fetchko MJ, Schmidt P, Kittanakom S, Brown KR, Jurisica I, Blagoev B, Zerial M, Stagljar I, Dikic I.
Sci Signal. 2009 Dec 22;2(102)Equally contributing first authors Current research interests
I have a broad research interest in the biology of cancer. In particular, I am interested in how growth factor induced cellular signalling is perturbed in tumor cells and how this is related to basic cellular processes like metabolism, growth and proliferation. In this aspect, how oncogenes and tumor suppressors influence metabolism in cancer tissue is a particularly appealing future research topic for me.
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Philipp Wild studied Biochemistry at the Eberhard Karls University, Tübingen and obtained his diploma degree in 2007. He did his diploma work under the supervision of Dr. Antonin at the Friedrich Miescher Laboratory of the Max Planck Society investigating the molecular mechanism underlying the nuclear import of Cyclin B1. In 2008 he joined the lab of Prof. Ivan Dikic as a PhD student, studying the role of autophagy receptors in immune signaling.
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Philip Wild Educations 2008 PhD student at the Institute of Biochemistry II J. W. Goethe University Medical School Ivan Dikic group: Molecular Signaling 2006 - 2007 Diploma thesis under supervision of Dr. Antonin at the Friedrich Miescher Laboratory in Tübingen. Title of Diploma thesis: „Investigation of the nuclear import mechanism of Cyclin B1”. 2003-2004 Academic year at the Max-Planck-Institute of Biochemistry, Martinsried 2001-2006 Study of Biochemistry at the Eberhard Karls University of Tübingen 2000 Abitur at the Hegel-Gymnasium, Stuttgart 1981 born 23.4.1981 in Stuttgart, Germany
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Marzena (Magda) Bienko studied Biotechnology at the Jagiellonian University in Cracow, Poland.
During her study she visited the lab of Ivan Dikic for an internship and joined his group to do her diploma work as well as the PhD.
Her interest is genomic stability and the role of ubiquitin signaling in its maintenance. In particular, she has been focusing on the role of ubiquitylation and Ub-binding in the process of tolerating DNA damage during its replication, called Translesion Synthesis.Resume of Marzena Bienko +
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Marzena Bienko Educations 2000-2005 Faculty of Biotechnology, Jagiellonian University, Cracow, Poland 2005 Master degree in Biotechnology 2005-present PhD studies in the group of Ivan Dikic Fellowships 2005-2007 Ernst Schering Foundation Scholarship 2007-2009 Josef Buchmann Scholarship Awards July 2006 2nd place in the “Young Cell Signaller” competition organized by Upstate, Dundee, UK Training/Courses
2001-2004 Training in the group of Prof. Joanna Bereta Division of Cell Biochemistry Department of Biophysics, Biochemistry and Biotechnology Jagiellonian University Cracow, Poland February 2005 Practical training at the John Radcliffe Hospital in the group of Dr. Teresa Marafioti University of Oxford Oxford, UK September 2005 Practical training in the group of Prof. Alan Lehmann Sussex Centre for Genome Damage and Stability University of Sussex Falmer, Brighton, UK October 2007 Practical training in the Genetic Instability and Cancer group of Dr. Patricia Kannouche Institut Gustave Roussy Villejuif, France November 2007 “LSM in Biomedical Applications” and “Multifluorescence Imaging and Quantitative colocalization” - two practical courses on Laser Scanning Microscopy organized by Zeiss Jena, Germany November 2008 “Dynamic live cell studies”- practical course on Laser Scanning Microscopy organized by Zeiss Jena, Germany Publications Bienko M, Green CM, Crosetto N, Rudolf F, Zapart G, Coull B, Kannouche P, Wider G, Peter M, Lehmann AR, Hofmann K, Dikic I. Ubiquitin-binding domains in Y-family polymerases regulate translesion synthesis. Science. 2005 Dec Guo C, Tang TS, Bienko M, Parker JL, Bielen AB, Sonoda E, Takeda S, Ulrich HD, Dikic I, Friedberg EC. Ubiquitin-binding motifs in REV1 protein are required for its role in the tolerance of DNA damage. Mol Cell Biol. 2006 Dec Crosetto N, Bienko M, Dikic I. Ubiquitin hubs in oncogenic networks. Mol Cancer Res. 2006 Dec Guo C, Tang TS, Bienko M, Dikic I, Friedberg EC. Requirements for the interaction of mouse Pol kappa with ubiquitin and its biological significance. J Biol Chem 2008 Feb Crosetto N, Bienko M, Hibbert RG, Perica T, Ambrogio C, Kensche T, Hofmann K, Sixma TK, Dikic I. Human Wrnip1 is localized in replication factories in a ubiquitin-binding zinc finger-dependent manner. J Biol Chem 2008 Dec Sabbioneda S, Green CM, Bienko M, Kannouche P, Dikic I, Lehmann AR. Ubiquitin-binding motif of human DNA polymerase eta is required for correct localization. PNAS 2009 Feb Bomar MG, D’Souza S, Bienko M, Dikic I, Walker G, Zhou P. Unconventional Ubiquitin Recognition by the Ubiquitin-Binding Motif within the Y-Family DNA Polymerases iota and Rev1. Mor Cell 2010 Feb Bienko M, Green CM, Sabbioneda S, Crosetto N, Matic I, Hibbert RG, Begovic T, Niimi A, Mann M, Lehmann AR, Dikic I. Regulation of translesion synthesis DNA polymerase η by Monoubiquitination. Mol Cell 2010 Feb
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Sjoerd van Wijk was born in Rotterdam, the Netherlands where he was trained as research technician.
In 2004, he graduated cum laude from Maastricht University, the Netherlands. After that, he finished his PhD in the lab of Prof. Marc Timmers (Department of Physiological Chemistry, University Medical Centre Utrecht, the Netherlands, working on the genome-wide selectivity of E2 and E3 enzymes in the human ubiquitin system, using a combination of high-throughput yeast two-hybrid screens and homology modeling and molecular dynamics analysis.
From that moment, he started as post-doc in the lab of Ivan Dikic, working on systems biology of ubiquitin signaling using a combination of high-accuracy mass-spectrometry and quantitative single molecule microscopy, in healthy and oncogenic conditions.Resume of Sjoerd van Wijk +
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Sjoerd J. L. van Wijk, PhD Present Post-doctoral fellow, Molecular Signaling (Prof. dr. Ivan Dikic), Institute of Biochemistry II, Goethe University, Frankfurt am Main, Germany Education: 2004-2009 PhD, Department of Physiological Chemistry, University Medical Center Utrecht, the Netherlands (advisor: Prof. dr. H. Th. Marc Timmers) 2002-2004 M.Sc. (cum laude) in Biological Health Sciences, Maastricht University, Maastricht, the Netherlands 1996-2000 Biomedical Research technician, Rotterdam University of Applied Sciences, Rotterdam, the Netherlands Work experience 2000-2002 Research technician, Department of Human Biology, Maastricht University, Maastricht, the Netherlands Publications Sjoerd J.L. van Wijk & Geja J. Hageman (2005) Poly(ADP-ribose) polymerase-1 mediated caspase-independent cell death after ischemia/reperfusion. Free Rad. Biol. Med. 39, 81-90 Sjoerd J.L. van Wijk , Sjoerd J. de Vries, Patrick Kemmeren, Anding Huang, Rolf Boelens, Alexandre M.J.J. Bonvin & H.Th. Marc Timmers (2009) A comprehensive framework of E2-RING E3 interactions of the human ubiquitin-proteasome system. Mol. Syst. Biol. 5, 295 Sjoerd J.L. van Wijk & H.Th. Marc Timmers (2009) The family of ubiquitin-conjugating enzymes(E2s): deciding between the life and death of proteins. FASEB J. November 25, 2009 as doi:10.1096/fj.09-136259 Sjoerd J.L. van Wijk (2010) Selectivity of E2-E3 interactions in the human ubiquitin system, PhD Thesis, Utrecht University, ISBN 9789088911446 Sjoerd J.L. van Wijk*, Adrien S.J. Melquiond*, H.Th. Marc Timmers & Alexandre M.J.J. Bonvin. A butterfly effect in protein-protein interactions: how minimal differences in E2 sequence determine RING E3 interaction selectivity (manuscript in preparation) * Equally contributing authors
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Panchali Goswami completed M.Sc in Molecular Biology and Biotechnology from Tezpur University, India, to join Unichem laboratories Ltd., Bangalore (India) as a trainee-research associate. Panchali then started a PhD programme conducted by International Max Planck research school under prof. Werner Kühlbrandt , Max planck institute of Biophysics, in the filed of membrane protein structural studies.
Currently she is working as a post doctoral fellow in lab of Prof. Dikic, her main focus is to study the role of novel ubiquitin binding proteins in inflammatory signaling pathways.Resume of Panchali Goswami +
Panchali Goswami Present status: Post-Doctoral fellow in Prof. Ivan Dikic’s group since October 2008.
Education and Research Experience
Under supervision of Prof. Dr. Werner Kühlbrandt
Department of Structural Biology, Max-Planck Institute for Biophysics, Frankfurt am Main, Germany
Trainee-research associate (Feb 2003-Dec 2003)- Unichem Laboratories Ltd, Bangalore
Masters of Science (M.Sc. Molecular Biology and Biotechnology) July 2000 – 2002, Tezpur University, Assam, India
Project work: Institute of Microbial Technology (Imtech) Chandigarh, India
Bachelor of science (B.Sc.) March 1997 - April 2000, Gauhati University, Guwahati, Assam, IndiaAwards and Scholarships
Tezpur University Gold Medal for securing highest grade point in M.Sc final examination in the Dept. of Molecular Biology& Biotechnology for the year 2002.
Prime Minister of India’s invitee to the Republic day parade for academic performance in the year 2001
Department of Biotechnology, India Merit Scholarship 2000
North-eastern India Council Merit scholarship 2001-2002
Assam State merit Scholarship 1994-1996List of Publications
1.Kedrov A, Wegmann S, Smits SH, Goswami P, Baumann H, Muller DJ.
Detecting molecular interactions that stabilize, activate and guide ligand-binding of the sodium/proton antiporter MjNhaP1 from Methanococcus jannaschii.
J Struct Biol. 2007 Mar 12;
2: Yildiz O, Vinothkumar KR, Goswami P, Kühlbrandt W.
Structure of the monomeric outer-membrane porin OmpG in the open and closed conformation.
EMBO J. 2006 Aug 9;25(15):3702-13
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Doris Popovic studied molecular biology at the University of Zagreb, Croatia, at the Faculty of Science. She did her Diploma at the Institute Ruder Boskovic, Zagreb, under the guidance of Dr. Renata Novak investigating the role of protein CTCF in epigenetic regulation of IGF2 and H19 gene imprinting.
Upon graduation she joined Prof. Dikic group at MedILS, Split , Croatia, for practical programm where she was involved in project: Ubiquitin like modifiers in autophagy.
Currently she is doing her PhD in Prof. Dikic lab Frankfurt working on regulation of autophagy by endocytic pathways and other vesicular trafficking events.Resume of Doris Popovic +
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Doris Popovic Educations 2009- present PhD student at Institute for Biochemistry II, group of Prof. Ivan Dikic 2008-2009 Practical programm at Mediterranean Institute for Life Sciences, Split, Croatia, Tumor Biology Program group of Prof. Ivan Dikic 2008 Diploma thesis: „CTCF protein binding to H19 ICR in Cal27 cells“, Supervision: Dr. Renata Novak
Laboratory of molecular pathology, Ruder Boskovic Institute, Zagreb, Croatia2004-2008 Study of Molecular Biology, Faculty of Math and Natural Sciences, University of Zagreb, Croatia 2004 High School Degree, Chatolic Grammar High School „St. Paul“, Zenica, BiH
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Alexis Rozenknop studied biochemistry at the University of Toulouse, France. To complete his master degree in "Structural Biology and Proteomics", he accomplished a 8 month trainee at Sanofi-Aventis, Frankfurt, Germany, working on "Protein-Ligand interactions by STD-NMR".
Since january 2007, he has started his PhD, "Functionnal and structural studies of Ubiquitin Like Proteins", as a full collaboration between Prof. Dikic and Prof. Doestch at the University of Frankfurt.
In his project, Alexis is interested in structures and dynamics of Ubiquitin Like Proteins involved in autophagy as well as binding studies with different ligands using techniques as NMR or ITC.Resume of Alexis Rozenknop +
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Alexis Rozenknop Educations 2007-current: PhD in Biochemistry: “Functionnal and Structural Studies on Ubiquitin Like Protein” at University of Frankfurt, Germany 2005-2006: 2nd year Master Program of Structural Biochemistry and Proteomics, at University of Toulouse, France 2004-2005: 1st year Master Program of Biochemistry-Biotechnologies at University of Toulouse, France 2003-2004: Bachelor’s degree in Biochemistry at University of Toulouse, France Publications Novak I, Kirkin V, McEwan DG, Zhang J, Wild P, Rozenknop A, Rogov V, Löhr F, Popovic D, Occhipinti A, Reichtert A, Terzic J, Doetsch V, Paul N, Dikic I. Nix is a selective autophagy receptor for mitochondrial clearance. EMBO Reports 2010, 11(1):45-51 Ikeda F, Hecker CM, Rozenknop A, Nordmeier RD, Rogov V, Hofmann K, Akira S, Dötsch V, Dikic I. Involvement of the ubiquitin-like domain of TBK1/IKK-i kinases in regulation of IFN-inducible genes. EMBO J 2007, 26:3451-62
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Birgit Stein Educations 1977-1979 Eudard Stieler Schule, Fulda, Germany Major: Berufsfachschule Ernährung Degree: Intermediate Highschool 1980-1982 Albrecht Thaer Schule, Celle, Germany Major: Small Animal Breeding Degree: Agricultural Technical Assistent (LTA) Experiences 4/2003-7/2003 Research Technician Zement und Kalkwerke Otterbein, Müs, Germany 08/1983 – 10/1988 Research Technician Deutsches Primatenzentrum, Göttingen, Germany 11/1988 – 09/1989 Research Technician New England Primate Research Center, Harvard Medical School, Southborough, MA, USA 01/1990 – 06/1992 Research Technician Pulmonary Center, Boston Universitiy,School of Medicine, Boston, MA, USA 06/1992 – 05/1997 Research Associate Department of Biology, Union College, Schenectady, NY, USA 07/1997 – 10/2003 Research Associate (Technische Assistentin), David Axelrod Institute for Public Health, New York State Department of Health, Albany, NY, USA 10/1999 – 10/2003 Telefon Interviewer Wadsworth Center, State Department of Health, Albany, NY, USA (part time) 11/2003 – 11/2006 Research Associate II UMASS Medical School, Worcester, MA, USA 01/2007 – Technische Laborleiterin Institut für Biochemie II, AG Dikic, Goethe Universität Frankfurt, Frankfurt am Main Deutschland PUBLICATIONS: Chaturvedi V, Fan J, Stein B, Behr MJ, Samsonoff WA, Wickes BL, Chaturvedi S. 2002. Molecular genetic analyses of mating pheromones reveals intervariety mating/hybridization in Cryptococcus neoformans. Infection and Immunity. 70: 5225-5325 Chaturvedi S, Rodeghier B, Fan J, McCleland CM, Wickes BL & Chaturvedi V. 2000. Direct PCR of Cryptococcus neoformans MATalpha and MATa pheromones to determine mating type, ploidy and variety: A tool for epidemiological and molecular pathogenisis studies. Journal of Clinical Microbiology. 38: 2007-2009 Chaturvedi V, Ramani R, Gromadzki S, Rodeghier B, Chang H-G & Morse DL. 2000. Coccidioidomycosis in New York State. Emerging Infectious Diseases. 6: 25-29 Salvo J, Rodeghier B, Rubin A & Troischt T. 1998 Optional Introns in mitochondrial DNA of Podospora anserina are the primary source of observed size polymorphisms. Fungal genetics and Biology. 23: 162-168.
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