Publications

  • Sergej Nowoshilow & Elly M.Tanaka. Introducing www.axolotl-omics.org – an integrated -omics data portal for the axolotl research community. Experimental Cell Research, 1 September 2020, Volume 394, Issue 1, https://doi.org/10.1016/j.yexcr.2020.112143

  • Almedawar S, Vafia K, Schreiter S, Neumann K, Khattak S, Kurth T, Ader M, Karl MO, Tsang SH, Tanaka EM. MERTK-Dependent Ensheathment of Photoreceptor Outer Segments by Human Pluripotent Stem Cell-Derived Retinal Pigment Epithelium. Stem Cell Reports. 2020 Mar 10;14(3):374-389. doi: 10.1016/j.stemcr.2020.02.004.

  • Meyer K, Morales-Navarrete H, Seifert S, Wilsch-Braeuninger M, Dahmen U, Tanaka EM, Brusch L, Kalaidzidis Y, Zerial M. Bile canaliculi remodeling activate YAP via the actin cytoskeleton during liver regeneration. Mol Syst Biol. 2020 Feb;16(2):e8985. doi: 10.15252/msb.20198985.
  • Currie JD, Grosser L, Murawala P, Schuez M, Michel M, Tanaka EM, Sandoval-Guzmán T. The Prrx1 limb enhancer marks an adult subpopulation of injury-responsive dermal fibroblasts. Biol Open. 2019 Jul 18;8(7). pii: bio043711. doi: 10.1242/bio.043711.

  • Masselink W, Reumann D, Murawala P, Pasierbek P, Taniguchi Y, Bonnay F,Meixner K, Knoblich JA, Tanaka EM. (2019) Broad applicability of a streamlined ethyl cinnamate-based clearing procedure. Development. 146:dev166884
  • Fei JF, Lou WP, Knapp D, Murawala P, Gerber T, Taniguchi Y, Nowoshilow S, Khattak S, Tanaka EM. (2018) Application and optimization of CRISPR-Cas9-mediated genome engineering in axolotl (Ambystoma mexicanum). Nat Protoc.  13:2908-2943.

  • Gerber T, Murawala P, Knapp D, Masselink W, Schuez M, Hermann S, Gac-Santel M, Nowoshilow S, Kagejama J, Khattak S, Currie J, Camp JG, Tanaka EM*, Treutlein B* (2018) Single-cell analysis uncovers molecular convergence of cell identities during axolotl limb regeneration. Science, 362(6413).    *Corresponding

  • Medelnik JP, Roensch K, Okawa S, Del Sol A, Chara O, Mchedlishvili L, Tanaka EM. (2018) Signaling-Dependent Control of Apical Membrane Size and Self-Renewal in Rosette-Stage Human Neuroepithelial Stem Cells. Stem Cell Reports. 10:1751-1765.

  • Nowoshilow S, Schloissnig S, Fei JF, Dahl A, Pang AWC, Pippel M, Winkler S, Hastie AR, Young G, Roscito JG, Falcon F, Knapp D, Powell S, Cruz A, Cao H, Habermann H, Hiller M*, Tanaka EM*, Myers EM* (2018). The axolotl genome and the evolution of key tissue formation regulators. Nature, 554(7690):50-55. *Corresponding

  • Oliveira CR, Lemaitre R, Murawala P, Tazaki A, Drechsel DN, Tanaka EM.  (2018) Pseudotyped baculovirus is an effective gene expression tool for studying molecular function during axolotl limb regeneration.  Dev Biol.  S0012-1606(17)30438-4. doi: 10.1016/j.ydbio.2017.10.008
  • Fei JF, Schuez M, Knapp D, Taniguchi Y, Drechsel DN, Tanaka EM. (2017) Efficient gene knockin in axolotl and its use to test the role of satellite cells in limb regeneration. PNAS, 114:12501-12506. doi: 10.1073/pnas.1706855114

  • Kaucka M, Zikmund T, Tesarova M, Gyllborg D, Hellander A, Jaros J, Kaiser J, Petersen J, Szarowska B, Newton PT, Dyachuk V, Li L, Qian H, Johansson AS, Mishina Y, Currie JD, Tanaka EM, Erickson A, Dudley A, Brismar H, Southam P, Coen E, Chen M, Weinstein LS, Hampl A, Arenas E, Chagin AS, Fried K, Adameyko I. (2017) Oriented clonal cell dynamics enables accurate growth and shaping of vertebrate cartilage. Elife. 17:6.

  • Ocaña OH, Coskun H, Minguillón C, Murawala P, Tanaka EM, Galcerán J, Muñoz-Chápuli R, Nieto MA. (2017) A right-handed signalling pathway drives heart looping in vertebrates. Nature. 549:86-90.

  • Wagner I, Wang H, Weissert PM, Straube WL, Shevchenko A, Gentzel M, Brito G,Tazaki A, Oliveira C, Sugiura T, Shevchenko A, Simon A, Drechsel DN, Tanaka EM. (2017) Serum Proteases Potentiate BMP-Induced Cell Cycle Re-entry of Dedifferentiating Muscle Cells during Newt Limb Regeneration. Dev Cell. 40:608-617
  • Rost F, Albors AR, Mazurov V, Brusch L, Deutsch A, Tanaka EM, Chara O. (2016) Accelerated cell divisions drive the outgrowth of the regenerating spinal cord in axolotls. Elife. 25;5.

  • Currie JD, Kawaguchi A, Traspas RM, Schuez M, Chara O, Tanaka EM. (2016) Live Imaging of Axolotl Digit Regeneration Reveals Spatiotemporal Choreography of Diverse Connective Tissue Progenitor Pools. Dev Cell. 39:411-423.

  • Ranga A, Girgin M, Meinhardt A, Eberle D, Caiazzo M, Tanaka EM, Lutolf MP. (2016) Neural tube morphogenesis in synthetic 3D microenvironments. Proc Natl Acad Sci U S A. 113:E6831-E6839.

  • Tanaka EM. The Molecular and Cellular Choreography of Appendage Regeneration.  (2016). Cell. 165:1598-608.

  • Nacu E, Shabanova E, Oliviera C, Drechsel DN, Tanaka EM. (2016)  SHH and FGF8 substitute anterior/posterior tissue interactions to induce limb regeneration.  Nature, 533:407-410.

  • Sugiura T, Wang H, Barsacchi R, Simon A, Tanaka EM.  (2016)  MARCKS-Like Protein is an initiating molecule in axolotl appendage regeneration.  Nature, 531:237-240.

  • Fei JF, Knapp D, Schuez M, Murawala P, Zou Y, Singh P, Drechsel D, Tanaka EM.  (2016) Tissue and time-directed electroporation of CAS9 protein-gRNA complexes in vivo yields efficient multigene knockout for studying gene function in regeneration.  Nature Regenerative Medicine
  • Rodrigo Albors A, Tazaki A, Rost F, Nowoshilow S, Chara O, Tanaka EM (2015) Planar cell polarity-mediated induction of neural stem cell expansion during axolotl spinal cord regeneration. Elife 4: e10230

  • Vincent CD, Rost F, Masselink W, Brusch L, Tanaka EM. (2015). Cellular dynamics underlying regeneration of appropriate segment number during axolotl tail regeneration. BMC Dev Biol. 15(1):48.

  • Albors AR, Tanaka EM (2015) High-efficiency electroporation of the spinal cord in larval axolotl. Methods in Molecular Biology 1290: 115-25

  • Khattak S, Tanaka EM (2015) Transgenesis in axolotl (Ambystoma mexicanum). Methods in molecular biology 1290: 269-77
  • Meinhardt A, Eberle D, Akira Tazaki, Ranga A, Niesche M, Wilsch-Bräuninger M, Stec A, Schackert G, Lutolf M, Tanaka EM.  (2014) Three dimensional reconstitution of the patterned neural tube from embryonic stem cells.  Stem Cell Reports, 3: 987–999.

  • Carido, M., Zhu, Y., Postel, K., Benkner, B., Cimalla, P., Karl, M.O., Kurth, T., Paquet-Durand, F., Koch, E., Munch, T.A., Tanaka, E.M., and Ader, M. (2014). Characterization of a Mouse Model With Complete RPE Loss and Its Use for RPE Cell Transplantation. Investigative ophthalmology & visual science 55, 5431-5444.

  • Ader M, Tanaka EM. Modeling human development in 3D culture. (2014). Curr Opin Cell Biol. 31:23-8.

  •  Fei JF, Schuez M, Tazaki A, Taniguchi Y, Roensch K, Tanaka EM.  (2014). CRISPR-mediated genomic deletion of Sox2 in the axolotl shows a requirement in spinal cord neural stem cell amplification during tail regeneration. Stem Cell Reports, 3:444-459.

  • Khattak, S., P. Murawala, H. Andreas, V. Kappert, M. Schuez, T. Sandoval-Guzman, K. Crawford, and E.M. Tanaka. (2014). Optimized axolotl (Ambystoma mexicanum) husbandry, breeding, metamorphosis, transgenesis and tamoxifen-mediated recombination. Nat Protoc. 9:529-540.

  • Sandoval-Guzman, T., Wang, H., Khattak, S., Schuez, M., Roensch, K., Nacu, E., Tazaki, A., Joven, A., Tanaka, E.M., and Simon, A. (2014). Fundamental Differences in Dedifferentiation and Stem Cell Recruitment during Skeletal Muscle Regeneration in Two Salamander Species. Cell Stem Cell 14:174-187

  • Chara O, Tanaka EM, Brusch L. (2014). Mathematical modeling of regenerative processes. Curr Top Dev Biol,108:283-317.

  • Zarzosa A, Grassme K, Tanaka E, Taniguchi Y, Bramke S, Kurth T, Epperlein H (2014) Axolotls with an under- or oversupply of neural crest can regulate the sizes of their dorsal root ganglia to normal levels. Dev Biol 394: 65-82

  • Diogo R, Nacu E, Tanaka EM (2014) Is salamander limb regeneration really perfect? Anatomical and morphogenetic analysis of forelimb muscle regeneration in GFP-transgenic axolotls as a basis for regenerative, developmental, and evolutionary studies. Anatomical record 297: 1076-89

  • Diogo R, Tanaka EM (2014) Development of fore- and hindlimb muscles in GFP-transgenic axolotls: morphogenesis, the tetrapod bauplan, and new insights on the forelimb-hindlimb enigma. Journal of experimental zoology Part B, Molecular and developmental evolution 322: 106-27

  • Zhu Y, Schreiter S, Tanaka EM (2014) Accelerated Three-Dimensional Neuroepithelium Formation from Human Embryonic Stem Cells and Its Use for Quantitative Differentiation to Human Retinal Pigment Epithelium. Methods in molecular biology
  • Roensch K, Tazaki A, Chara O, Tanaka EM.  (2013). Progressive Specification Rather than Intercalation of Segments During Limb Regeneration Science 34: 1375-1379

  • Khattak S, Schuez M, Richter T , Knapp D, Haigo SL, Sandoval-Guzmán T, Hradlikova K, Duemmler A, Kerney R, Tanaka EM.  (2013).  Germline transgenic methods for tracking cells and testing gene function during regeneration in the axolotl, Stem Cell Reports, 1:90-103

  • Knapp D, Schulz H, Alexander-Rascon C, Volkmer V, Scholz J, Mu Le, Nacu E, Tazaki A, Novozhilov S, Protze S, Jakob T, Hubner H, Habermann B, Tanaka EM. (2013). Comparative Transcriptional Profiling of the Axolotl Limb Identifies a Tripartite Regeneration-Specific Gene Program, PLOSone. 8: e61352

  • Stewart, R., Rascon, C.A., Tian, S., Nie, J., Barry, C., Chu, L.F., Ardalani, H., Wagner, R.J., Probasco, M.D., Bolin, J.M., et al. (2013). Comparative RNA-seq analysis in the unsequenced axolotl: the oncogene burst highlights early gene expression in the blastema. PLoS computational biology 9, e1002936.

  • Zhu Y, Carido M, Meinhardt A, Kurth T, Karl MO, Ader M, Tanaka EM. (2013). Three-dimensional neuroepithelial culture from human embryonic stem cells and its use for quantitative conversion to retinal pigment epithelium. PLoS One. 8:e54552.

  • Nacu E, Glausch M, Le HQ, Damanik FF, Schuez M, Knapp D, Khattak S, Richter T, Tanaka EM. (2013). Connective tissue cells, but not muscle cells, are involved in establishing the proximo-distal outcome of limb regeneration in the axolotl. Development. 140:513-8.

  • Kragl M, Roensch K, Nüsslein I, Tazaki A, Taniguchi Y, Tarui H, Hayashi  T, Agata K, Tanaka EM.  (2013) Muscle and connective tissue progenitor populations show distinct Twist1 and Twist3 expression profiles during axolotl limb regeneration.  Dev Biol, 373:196-204
  • Epperlein HH, Khattak S, Knapp D, Tanaka EM, Malashichev YB. (2012).  Neural crest does not contribute to the neck and shoulder in the axolotl (Ambystoma mexicanum). PLoS One. 7:e52244.

  • Tapia N, Reinhardt P,Duemmler A, Wu G, Araúzo-Bravo MJ, Esch D, Greber B, Cojocaru V, Rascon CA, Tazaki A,Kump K, Voss R, Tanaka EM*, Schöler HR* (2012) Reprogramming to pluripotency is an ancient trait of vertebrate Oct4 and Pou2 proteins Nature Communications, 3:1279,  *Co-corresponding authors

  • Plath K, Srivastava D, Alvarez-Buylla A, Tanaka EM, Kriegstein AR.(2012) Stem Cells  in the Land of the Rising Sun: ISSCR. Cell Stem Cell. 11:607-14.

  • Knapp D, Tanaka EM. (2012) Regeneration and reprogramming. Curr Opin Genet Dev. 22:485-93.

  • Murawala P, Tanaka EM, Currie JD. (2012) Regeneration: The ultimate example of wound  healing. Semin Cell Dev Biol. 23:954-62

  • Tanaka EM. (2012) Regenerative biology: Skin, heal thyself. Nature. 489:508-10.

  • Diogo R, Tanaka EM. (2012) Anatomy of the pectoral and forelimb muscles of wildtype and green fluorescent protein-transgenic axolotls and comparison with other tetrapods including humans: a basis for regenerative, evolutionary and developmental studies. J Anat. 221:622-35.

  • Mchedlishvili L, Mazurov `V, Grassme KS, Goehler K, Robl B, Tazaki A, Roensch K, Duemmler A, Tanaka EM.   (2012) Reconstitution of the central and peripheral nervous system during salamander tail regeneration. PNAS, 109:E2258-66.

  • Protze, S., Khattak, S., Poulet, C., Lindemann, D., Tanaka E.M.*, Ravens, U.*  (2012) A new approach to transcription factor screening for reprogramming of fibroblasts to cardiomyocytes.  Journal of Molecular and Cellular Cardiology, 53:323-32.  *Co-corresponding authors

  • McHedlishvili L, Mazurov V, Tanaka EM. (2012) Reconstitution of the central nervous system during salamander tail regeneration from the implanted neurospheres. Methods Mol Biol. 916:197-202.
  • Jaszai, J., Fargeas, C.A., Graupner, S., Tanaka, E.M., Brand, M., Huttner, W.B., and Corbeil, D. (2011). Distinct and conserved prominin-1/CD133-positive retinal cell populations identified across species. PLoS One 6, e17590.

  • Campbell, L.J., Suarez-Castillo, E.C., Ortiz-Zuazaga, H., Knapp, D., Tanaka, E.M., and Crews, C.M. (2011). Gene expression profile of the regeneration epithelium during axolotl limb regeneration. Dev Dyn 240, 1826-1840.

  • Tanaka, E.M., and Reddien, P.W. (2011). The cellular basis for animal regeneration. Dev Cell 21, 172-185.

  • Nacu, E., and Tanaka, E.M. (2011). Limb regeneration: a new development? Annu Rev Cell Dev Biol 27, 409-440.
  • Antos, C.L., and Tanaka, E.M. (2010). Vertebrates that regenerate as models for guiding stem cels. Adv Exp Med Biol695, 184-214.

  • Berg, D.A., Kirkham, M., Beljajeva, A., Knapp, D., Habermann, B., Ryge, J., Tanaka, E.M., and Simon, A. (2010). Efficient regeneration by activation of neurogenesis in homeostatically quiescent regions of the adult vertebrate brain. Development 137, 4127-4134.

  • Gin, E., Tanaka, E.M., and Brusch, L. (2010). A model for cyst lumen expansion and size regulation via fluid secretion. J Theor Biol 264, 1077-1088.
  • Voss, S.R., Epperlein, H.H., and Tanaka, E.M. (2009). Ambystoma mexicanum, the axolotl: a versatile amphibian model for regeneration, development, and evolution studies. Cold Spring Harb Protoc 2009, pdb emo128.

  • Khattak, S., and Tanaka, E.M. (2009). Axolotl (Ambystoma mexicanum) in vitro fertilization. Cold Spring Harb Protoc2009, pdb prot5263.

  • Khattak, S., Richter, T., and Tanaka, E.M. (2009). Generation of transgenic axolotls (Ambystoma mexicanum). Cold Spring Harb Protoc 2009, pdb prot5264.

  • Nacu, E., Knapp, D., Tanaka, E.M., and Epperlein, H.H. (2009). Axolotl (Ambystoma mexicanum) embryonic transplantation methods. Cold Spring Harb Protoc 2009, pdb prot5265.

  • Kragl, M., and Tanaka, E.M. (2009a). Grafting axolotl (Ambystoma mexicanum) limb skin and cartilage from GFP+ donors to normal hosts. Cold Spring Harb Protoc 2009, pdb prot5266.

  • Kragl, M., and Tanaka, E.M. (2009b). Axolotl (Ambystoma mexicanum) limb and tail amputation. Cold Spring Harb Protoc 2009, pdb prot5267.

  • Kragl, M., Knapp, D., Nacu, E., Khattak, S., Maden, M., Epperlein, H.H., and Tanaka, E.M. (2009). Cells keep a memory of their tissue origin during axolotl limb regeneration. Nature 460, 60-65.

  • Tanaka, E.M., and Ferretti, P. (2009). Considering the evolution of regeneration in the central nervous system. Nat Rev Neurosci 10, 713-723.
  • Kragl, M., Knapp, D., Nacu, E., Khattak, S., Schnapp, E., Epperlein, H.H., and Tanaka, E.M. (2008). Novel insights into the flexibility of cell and positional identity during urodele limb regeneration. Cold Spring Harb Symp Quant Biol73, 583-592.

  • Tanaka, E.M., and Weidinger, G. (2008a). Heads or tails: can Wnt tell which one is up? Nat Cell Biol 10, 122-124.

  • Tanaka, E.M., and Weidinger, G. (2008b). Micromanaging regeneration. Genes Dev 22, 700-705.
  • McHedlishvili, L., Epperlein, H.H., Telzerow, A., and Tanaka, E.M. (2007). A clonal analysis of neural progenitors during axolotl spinal cord regeneration reveals evidence for both spatially restricted and multipotent progenitors. Development 134, 2083-2093.

  • Loof, S., Straube, W.L., Drechsel, D., Tanaka, E.M., and Simon, A. (2007). Plasticity of mammalian myotubes upon stimulation with a thrombin-activated serum factor. Cell Cycle 6, 1096-1101.
  • Sobkow, L., Epperlein, H.H., Herklotz, S., Straube, W.L., and Tanaka, E.M. (2006). A germline GFP transgenic axolotl and its use to track cell fate: dual origin of the fin mesenchyme during development and the fate of blood cells during regeneration. Dev Biol 290, 386-397.

  • Straube, W.L., and Tanaka, E.M. (2006). Reversibility of the differentiated state: regeneration in amphibians. Artif Organs 30, 743-755.
    • Schnapp, E., and Tanaka, E.M. (2005). Quantitative evaluation of morpholino-mediated protein knockdown of GFP, MSX1, and PAX7 during tail regeneration in Ambystoma mexicanum. Dev Dyn 232, 162-170.

    • Schnapp, E., Kragl, M., Rubin, L., and Tanaka, E.M. (2005). Hedgehog signaling controls dorsoventral patterning, blastema cell proliferation and cartilage induction during axolotl tail regeneration. Development 132, 3243-3253.

    • Echeverri, K., and Tanaka, E.M. (2005). Proximodistal patterning during limb regeneration. Dev Biol 279, 391-401.

    • Mercader, N., Tanaka, E.M., and Torres, M. (2005). Proximodistal identity during vertebrate limb regeneration is regulated by Meis homeodomain proteins. Development 132, 4131-4142.
  • Straube, W.L., Brockes, J.P., Drechsel, D.N., and Tanaka, E.M. (2004). Plasticity and reprogramming of differentiated cells in amphibian regeneration: partial purification of a serum factor that triggers cell cycle re-entry in differentiated muscle cells. Cloning Stem Cells 6, 333-344.

  • Habermann, B., Bebin, A.G., Herklotz, S., Volkmer, M., Eckelt, K., Pehlke, K., Epperlein, H.H., Schackert, H.K., Wiebe, G., and Tanaka, E.M. (2004). An Ambystoma mexicanum EST sequencing project: analysis of 17,352 expressed sequence tags from embryonic and regenerating blastema cDNA libraries. Genome Biol 5, R67.
  • Echeverri, K., and Tanaka, E.M. (2003). Electroporation as a tool to study in vivo spinal cord regeneration. Dev Dyn226, 418-425.

  • Tanaka, E.M. (2003a). Regeneration: if they can do it, why can’t we? Cell 113, 559-562.

  • Tanaka, E.M. (2003b). Cell differentiation and cell fate during urodele tail and limb regeneration. Curr Opin Genet Dev13, 497-501.
  • Echeverri, K., and Tanaka, E.M. (2002a). Ectoderm to mesoderm lineage switching during axolotl tail regeneration. Science 298, 1993-1996.

  • Echeverri, K., and Tanaka, E.M. (2002b). Mechanisms of muscle dedifferentiation during regeneration. Semin Cell Dev Biol 13, 353-360.
  • Echeverri, K., Clarke, J.D., and Tanaka, E.M. (2001). In vivo imaging indicates muscle fiber dedifferentiation is a major contributor to the regenerating tail blastema. Dev Biol 236, 151-164
  • Velloso, C.P., Kumar, A., Tanaka, E.M., and Brockes, J.P. (2000). Generation of mononucleate cells from post-mitotic myotubes proceeds in the absence of cell cycle progression. Differentiation 66, 239-246.
  • Tanaka, E.M., Drechsel, D.N., and Brockes, J.P. (1999). Thrombin regulates S-phase re-entry by cultured newt myotubes. Curr Biol 9, 792-799.
  • Tanaka, E.M., and Brockes, J.P. (1998). A target of thrombin activation promotes cell cycle re-entry by urodele muscle cells. Wound Repair Regen 6, 371-381.
  • Tanaka, E.M., Gann, A.A., Gates, P.B., and Brockes, J.P. (1997). Newt myotubes reenter the cell cycle by phosphorylation of the retinoblastoma protein. J Cell Biol 136, 155-165.
  • Odde, D.J., Tanaka, E.M., Hawkins, S.S., and Buettner, H.M. (1996). Stochastic dynamics of the nerve growth cone and its microtubules during neurite outgrowth. Biotechnol Bioeng 50, 452-461.
  • Tanaka, E., Ho, T., and Kirschner, M.W. (1995). The role of microtubule dynamics in growth cone motility and axonal growth. J Cell Biol 128, 139-155.

  • Tanaka, E., and Kirschner, M.W. (1995). The role of microtubules in growth cone turning at substrate boundaries. J Cell Biol 128, 127-137.

  • Tanaka, E.M., and Gann, A.F. (1995). Limb development. The budding role of FGF. Curr Biol 5, 594-597.

  • Tanaka, E., and Sabry, J. (1995). Making the connection: cytoskeletal rearrangements during growth cone guidance. Cell 83, 171-176.
  • Tanaka, E.M., and Kirschner, M.W. (1991). Microtubule behavior in the growth cones of living neurons during axon elongation. J Cell Biol 115, 345-363.