Arnab Nayak

PhD

 

 

Kontakt

PhD Arnab Nayak

Tel:  +49 511 532 -2094 (Büro), -3654 (Labor)

Fax: +49 511 532 -4296

Adresse: 30625 Hannover, Carl-Neuberg-Str.1

Büro:  Gebäude J03, Block 01, Ebene 03, Raum 1340

 

 

 

 

Werdegang

With a scholarship from the Graduate school in Immunomodulation in Germany, Arnab worked on his PhD thesis at Institute of Pathology, University of Wuerzburg.
His PhD project was focused on the regulation of transcription factor (NFATc1) function by sumoylation and its consequences in T cell differentiation. He moved to Cambridge University, UK for a postdoctoral research project involving TAO1 kinase protein controls mitosis.
At Institute of biochemistry (Goethe University Frankfurt) he investigated the mechanisms by which reverse sumoylation signaling regulates transcriptional processes. Currently, his project at the Institute of Molecular and Cell Physiology addresses the effect of natural occurring myosin mutations in human familial hypertrophic cardiomyopathies. By employing TIRFM and optical trapping, he is trying to understand the effect of sumoylation on molecular motor proteins at a single molecule resolution. His other projects address epigenetic regulations that dictate muscle function and muscle atophy.

 

Aktuelle Forschungsschwerpunkte

Cell biology, Cancer biology, Chromatin & Epigenetics, Mitosis, Molecular motor protein, Proteomics, Stem cells, SUMOylation

 

Expertisen

  • Cell biology, Biochemistry and Molecular Biology
    Isolation and in vitro culture of CD34+ stem cell from human cord blood. Isolation and in vitro culture of mouse lymphocytes (CD4+ T cells, CD4+CD25+ regulatory T cells) followed by FACS. Generation of stable cell line (conditional protein expression, Flip-in tet-on and tet-off system). Gene-specific proteomics by exploiting CRISPR/Cas9 genome editing tool, 2-D gel electrophoresis, chromatin immunoprecipitation (ChIP), ChIP-Seq, coimmunoprecipitation, reporter gene activity assay, western Hybridization. Molecular cloning, DNA sequencing, and site-directed mutagenesis. Tandem affinity purification (TAP) of bait proteins followed by mass spectrometric analysis. Real time qPCR analysis of homeobox gene expression. Expression (in E. coli. and mammalian cells) and purification of recombinant protein by affinity chromatography, siRNA-mediated protein knock down.
  • Mass spectrometry (MS) and large-scale proteomics
    I extensively work with LTQ Velos and Orbitrap elite mass spectrometers (related techniques, troubleshooting associated with the MS system hardware and software) on a regular basis in the core MS facility in our institute (IBCII, Frankfurt). Maintenance and calibration of these mass spectrometers was a part of my regular job. In combination with other core members, I have generated a MS-based technology platform and offered proteomics-based solution to my collaborators. By using LC/MS-based techniques I have perform various types of proteomic analysis such as SILAC-based studies, label-free quantifications, Di-gly SUMO proteomics.
  • Microscopy
    Confocal laser scanning microscopy. Total Internal Reflection Fluorescence (TIRF) microscopy.

 

Wissenschaftliche Artikel in Fachzeitschriften

  • Nayak A*, Lopez-Davila AJ, Kefalakes E, Holler T, Kraft T, Amrute-Nayak M. (2019). Regulation of SETD7 Methyltransferase by SENP3 is Crucial for Sarcomere Organization and Cachexia. Cell Reports. Vol 27, issue 9, P2725-2736.e4, May 28. (* shared corresponding author)
  • Amrute-Nayak M, Nayak A, Steffen W, Tsiavaliaris G, Scholz T, Brenner B. (2019). Transformation of Conventional, Non-processive Myosin II into a Fast Processive Motor. (2019). Small. Feb;15(7)
  • Nayak, A*., Reck, A., Morsczeck, C., and Muller, S. (2017). Flightless-I governs cell fate by recruiting the SUMO isopeptidase SENP3 to distinct HOX genes. Epigenetics Chromatin .10, 15. (* shared corresponding author)
  • Jung, J., Nayak, A., Schaeffer, V., Starzetz, T., Kirsch, A.K., Muller, S., Dikic, I., Mittelbronn, M., and Behrends, C. (2017). Multiplex image-based autophagy RNAi screening identifies SMCR8 as ULK1 kinase activity and gene expression regulator. Elife 6
  • Tamura, N., Simon, J.E., Nayak, A., Shenoy, R., Hiroi, N., Boilot, V., Funahashi, A., and Draviam, V.M. (2015). A proteomic study of mitotic phase-specific interactors of EB1 reveals a role for SXIP-mediated protein interactions in anaphase onset. Biol Open 4, 155-169
  • Nayak, A., Viale-Bouroncle, S., Morsczeck, C., and Muller, S. (2014). The SUMO-specific isopeptidase SENP3 regulates MLL1/MLL2 methyltransferase complexes and controls osteogenic differentiation. Mol Cell 55, 47-58
  • Raman, N., Nayak, A., and Muller, S. (2014). mTOR signaling regulates nucleolar targeting of the SUMO-specific isopeptidase SENP3. Mol Cell Biol 34, 4474-4484
  • Nayak, A., Glockner-Pagel, J., Vaeth, M., Schumann, J.E., Buttmann, M., Bopp, T., Schmitt, E., Serfling, E., and Berberich-Siebelt, F. (2009). Sumoylation of the transcription factor NFATc1 leads to its subnuclear relocalization and interleukin-2 repression by histone deacetylase. J Biol Chem 284, 10935-10946.

 

Peer-Review-Artikel

  • Muller, S., and Nayak, A*. (2016). Inhibition of MLL1 histone methyltransferase brings the developmental clock back to naive pluripotency. Stem Cell Investig 3, 58. (* -corresponding author).
  • Nayak, A., and Muller, S. (2014). SUMO-specific proteases/isopeptidases: SENPs and beyond. Genome Biol 15, 422.

 

 

Veröffentlichte Abstracts / Preise

  • Best talk award at 6th UCT science day (Goethe University Frankfurt, september 2014)
  • Fritz Thyseen foundation reseach fellowship for my postdoctoral study.
  • Career Development Fellowship (CDF) award from MRC-LMB, Cambridge, UK.
  • Best poster award at EMBO conference on chromatin and epigenetics 2007, EMBL, Heidelberg, Germany.
  • Fellowships from Granduate School of Immunomodulation (Würzburg University) and Hannover Biomedical Reseacrh School (HBRS, MHH) Germany for doctoral studies.
  • Junior Research Fellowship award by CSIR (Center for Scientific and Industrial Research)- NET (National Eligibility Test), India.
  • GATE (Graduate Aptitude Test for Engineering) fellowship.
  • Junior research fellowship by NCCS Pune, India.
  • National Talent Search scholarship, India.

 

Förderungen

DFG seit 2019