ZFIN ID: ZDB-PERS-970124-1
Strähle, Uwe
Email: uwe.straehle@kit.edu
URL: http://www.itg.kit.edu/straehle.php
Affiliation: European Zebrafish Resource Center (EZRC)
and also: Strähle Lab
Address: Karlsruher Institut für Technologie (KIT) Institute of Toxicology and Genetics Campus Nord Postfach 3640 76021 Karlsruhe Germany
Country: Germany
Phone: +49-721-608-23291
Fax: +49-721-608-3354
Orcid ID:


BIOGRAPHY AND RESEARCH INTERESTS
BIOGRAPHY:

Director of the Institute of Toxicology and Genetics (ITG) at the Karlsruhe Institute of Technology (KIT) and Professor of the University of Heidelberg

1985-1988:
Graduate and Ph.D. degrees from German Cancer Research Centre at the University of Heidelberg.

1988-1994:
Postdoctoral employment at the German Cancer Research Centre, the University of Oregon, and the University of Oxford.

1994-2003:
Research Director at CNRS, Group Leader at IGBMC.
University of Strasbourg

2003- :
Karlsruhe Institute of Technology (KIT)
Director of the Institute of Toxicology and Genetics (ITG)

RESEARCH INTERESTS:

We study the development and regeneration of the vertebrate nervous system and the musculature. Our main goals are to understand the gene networks controlling differentiation and function of the nervous system and musculature, and how these processes are disturbed by environmental toxins. We use genetics and systems biology to model and thereby unravel the underlying regulatory processes. As experimental systems, we employ mostly the zebrafish.

The regulatory architecture of the the zebrafish genome, a systems approach

A key challenge in the post-genome sequencing era is the comprehensive elucidation of the function of the genes and their regulation. The retrieval of genetic information (i.e. expression) is differently regulated depending on cell type and state of the cell. Cross-talk between cells by secretion of signaling molecules is essential for development and body homeostasis. Disturbance of these processes leads to malformations and disease including cancer. In particular, differential transcription into mRNA is a major mechanism controlling the expression of individual genes in development and body homeostasis. Transcription of genes is controlled by specific DNA elements (cis-regulatory elements) that either regulate the access to the DNA via modulating the chromatin structure and/or mediate the recruitment of sequence-specific transcription factors. We refer to all of these genes as transcription regulators (TRs).

The cis-regulatory elements of downstream genes are integration points, at which different signals converge to coordinately regulate gene programs characteristic of the cell states from a pluripotent stem cell to a particular differentiated cell state. A major emphasis of our work is the elucidation and functional characterization of the cis-regulatory architecture of the zebrafish genome. We have undertaken a systematic screen for TRs in the zebrafish genome and determined their expression in the 24 hour old embryo. So far we have mapped the expression pattern of more than 1000 TRs. These patterns will be matched to the temporal and spatial activity of enhancers to derive rules of the regulatory code. In selected structures of the developing central nervous system such as for example the ventral spinal cord, we systematically knock-down TRs and carry out protein/protein and protein/DNA interaction studies to assess the regulatory networks by functional means. The long-term plan is to derive quantitative models of these regulatory processes that integrate all available data in comprehensive and illustrative models that will also be useful to inform and educate the broader public.

Genetics of nervous system and muscle development and maintenance

Motility develops very early in the zebrafish embryo offering a fast assay in screens to identify mutations in genes involved in the development and function of the muscle and the Picture Gallery - Fig. 3embryonic nervous system. We carried out such F3 screens previously and are in the process to clone the affected genes. These zebrafish mutants mimic myopathies and neuropathies of humans. They serve therefore as important models to investigate the molecular mechanisms underlying the corresponding human pathologies.

Development is driven by the controlled differentiation of embryonic stem cells. Stem cells play also crucial roles in the maintenance of tissues in the adult organism. We are interested to elucidate and compare the mechanisms of stem cell maintenance and differentiation in the muscle and nervous system of the embryo and the adult. Zebrafish are well suited for such a research interest as they show even in the adult central nervous system a remarkable ability to regenerate.

The zebrafish embryo as a model for molecular toxicology

We are exposed to a steadily increasing number of different chemicals. A central issue for human health protection is the development of efficient animal models to monitor and to predict the toxic affect of existing and novel compounds. Our aim is to develop the zebrafish as animal model for molecular toxicology. We use microarray technology, transgenesis and genetics to unravel the molecular pathways affected by model toxins. We focus on toxins that affect neural and muscular development. We believe that this work will elucidate the molecular mechanism of toxicity and help to predict the toxicity of novel compounds.


PUBLICATIONS
Jarque, S., Fetter, E., Veneman, W.J., Spaink, H.P., Peravali, R., Strähle, U., Scholz, S. (2018) An automated screening method for detecting compounds with goitrogenic activity using transgenic zebrafish embryos. PLoS One. 13:e0203087
Mane, S.R., Hsiao, I.L., Takamiya, M., Le, D., Straehle, U., Barner-Kowollik, C., Weiss, C., Delaittre, G. (2018) Intrinsically Fluorescent, Stealth Polypyrazoline Nanoparticles with Large Stokes Shift for In Vivo Imaging. Small (Weinheim an der Bergstrasse, Germany). 14(36):e1801571
Schott, B., Traub, M., Schlagenhauf, C., Takamiya, M., Antritter, T., Bartschat, A., Löffler, K., Blessing, D., Otte, J.C., Kobitski, A.Y., Nienhaus, G.U., Strähle, U., Mikut, R., Stegmaier, J. (2018) EmbryoMiner: A new framework for interactive knowledge discovery in large-scale cell tracking data of developing embryos. PLoS Computational Biology. 14:e1006128
Weger, M., Diotel, N., Weger, B.D., Beil, T., Zaucker, A., Eachus, H.L., Oakes, J.A., do Rego, J.L., Storbeck, K.H., Gut, P., Straehle, U., Rastegar, S., Mueller, F., Krone, N. (2018) Expression and activity profiling of the steroidogenic enzymes of glucocorticoid biosynthesis and the fdx1 co-factors in zebrafish. Journal of neuroendocrinology. 30(4):e12586
Paone, C., Rudeck, S., Etard, C., Strähle, U., Rottbauer, W., Just, S. (2018) Loss of zebrafish Smyd1a interferes with myofibrillar integrity without triggering the misfolded myosin response. Biochemical and Biophysical Research Communications. 496(2):339-345
Bedell, V., Buglo, E., Marcato, D., Pylatiuk, C., Mikut, R., Stegmaier, J., Scudder, W., Wray, M., Züchner, S., Strähle, U., Peravali, R., Dallman, J.E. (2018) Zebrafish: A Pharmacogenetic Model for Anesthesia. Methods in enzymology. 602:189-209
Köhler, A., Collymore, C., Finger-Baier, K., Geisler, R., Kaufmann, L., Pounder, K.C., Schulte-Merker, S., Valentim, A., Varga, Z.M., Weiss, J., Strähle, U. (2017) Report of Workshop on Euthanasia for Zebrafish-A Matter of Welfare and Science. Zebrafish. 14(6):547-551
Etard, C., Joshi, S., Stegmaier, J., Mikut, R., Strähle, U. (2017) Tracking of Indels by DEcomposition is a Simple and Effective Method to Assess Efficiency of Guide RNAs in Zebrafish. Zebrafish. 14(6):586-588
Hausen, J., Otte, J.C., Legradi, J., Yang, L., Strähle, U., Fenske, M., Hecker, M., Tang, S., Hammers-Wirtz, M., Hollert, H., Keiter, S.H., Ottermanns, R. (2017) Fishing for contaminants: identification of three mechanism specific transcriptome signatures using Danio rerio embryos. Environmental science and pollution research international. 25(5):4023-4036
Wild, R., Klems, A., Takamiya, M., Hayashi, Y., Strähle, U., Ando, K., Mochizuki, N., van Impel, A., Schulte-Merker, S., Krueger, J., Preau, L., le Noble, F. (2017) Neuronal sFlt1 and Vegfaa determine venous sprouting and spinal cord vascularization. Nature communications. 8:13991
Geisler, R., Köhler, A., Dickmeis, T., Strähle, U. (2017) Archiving of zebrafish lines can reduce animal experiments in biomedical research. EMBO reports. 18(1):1-2
Angelin, A., Kassel, O., Rastegar, S., Strähle, U., Niemeyer, C.M. (2016) Protein-Functionalized DNA Nanostructures as Tools to Control Transcription in Zebrafish Embryos. ChemistryOpen. 6:33-39
Lopes, S.S., Distel, M., Linker, C., Fior, R., Monteiro, R., Bianco, I.H., Portugues, R., Strähle, U., Saúde, L. (2016) Report of the 4th European Zebrafish Principal Investigator Meeting. Zebrafish. 13(6):590-595
Valentim, A.M., van Eeden, F.J., Strähle, U., Olsson, I.A. (2016) Euthanizing zebrafish legally in Europe: Are the approved methods of euthanizing zebrafish appropriate to research reality and animal welfare?. EMBO reports. 17(12):1688-1689
Stoetzel, C., Bär, S., De Craene, J.O., Scheidecker, S., Etard, C., Chicher, J., Reck, J.R., Perrault, I., Geoffroy, V., Chennen, K., Strähle, U., Hammann, P., Friant, S., Dollfus, H. (2016) A mutation in VPS15 (PIK3R4) causes a ciliopathy and affects IFT20 release from the cis-Golgi. Nature communications. 7:13586
Middel, V., Zhou, L., Takamiya, M., Beil, T., Shahid, M., Roostalu, U., Grabher, C., Rastegar, S., Reischl, M., Nienhaus, G.U., Strähle, U. (2016) Dysferlin-mediated phosphatidylserine sorting engages macrophages in sarcolemma repair. Nature communications. 7:12875
Basu, S., Hadzhiev, Y., Petrosino, G., Nepal, C., Gehrig, J., Armant, O., Ferg, M., Strahle, U., Sanges, R., Müller, F. (2016) The Tetraodon nigroviridis reference transcriptome: developmental transition, length retention and microsynteny of long non-coding RNAs in a compact vertebrate genome. Scientific Reports. 6:33210
Hilinski, W.C., Bostrom, J.R., England, S.J., Juárez-Morales, J.L., de Jager, S., Armant, O., Legradi, J., Strähle, U., Link, B.A., Lewis, K.E. (2016) Lmx1b is required for the glutamatergic fates of a subset of spinal cord neurons. Neural Development. 11:16
Rudeck, S., Etard, C., Khan, M.M., Rottbauer, W., Rudolf, R., Strähle, U., Just, S. (2016) A compact unc45b-promoter drives muscle-specific expression in zebrafish and mouse. Genesis (New York, N.Y. : 2000). 54(8):431-8
Geisler, R., Borel, N., Ferg, M., Maier, J.V., Strähle, U. (2016) Maintenance of Zebrafish Lines at the European Zebrafish Resource Center. Zebrafish. 13 Suppl 1:S19-23
Strähle, U., Ferg, M., Armant, O., Gradl, M., Kaufmann, L., Rastegar, S. (2016) HeRBi: Helmholtz Repository of Bioparts. Zebrafish. 13(3):234-5
Armant, O., Gourain, V., Etard, C., Strähle, U. (2016) Whole transcriptome data analysis of zebrafish mutants affecting muscle development. Data in brief. 8:61-8
Takamiya, M., Xu, F., Suhonen, H., Gourain, V., Yang, L., Ho, N.Y., Helfen, L., Schröck, A., Etard, C., Grabher, C., Rastegar, S., Schlunck, G., Reinhard, T., Baumbach, T., Strähle, U. (2016) Melanosomes in pigmented epithelia maintain eye lens transparency during zebrafish embryonic development. Scientific Reports. 6:25046
Shahid, M., Takamiya, M., Stegmaier, J., Middel, V., Gradl, M., Klüver, N., Mikut, R., Dickmeis, T., Scholz, S., Rastegar, S., Yang, L., Strähle, U. (2016) Zebrafish biosensor for toxicant induced muscle hyperactivity. Scientific Reports. 6:23768
Rastegar, S., Strähle, U. (2016) The Zebrafish as Model for Deciphering the Regulatory Architecture of Vertebrate Genomes. Advances in genetics. 95:195-216
Etard, C., Armant, O., Roostalu, U., Gourain, V., Ferg, M., Strähle, U. (2015) Loss of function of myosin chaperones triggers Hsf1-mediated transcriptional response in skeletal muscle cells. Genome biology. 16:267
Hausen, J., Otte, J.C., Strähle, U., Hammers-Wirtz, M., Hollert, H., Keiter, S.H., Ottermanns, R. (2015) Fold-change threshold screening: a robust algorithm to unmask hidden gene expression patterns in noisy aggregated transcriptome data. Environmental science and pollution research international. 22(21):16384-92
Beyer, H.M., Juillot, S., Herbst, K., Samodelov, S.L., Müller, K., Schamel, W.W., Römer, W., Schäfer, E., Nagy, F., Straehle, U., Weber, W., Zurbriggen, M.D. (2015) Red light-regulated reversible nuclear localization of proteins in mammalian cells and zebrafish. ACS synthetic biology. 4(9):951-8
Diotel, N., Beil, T., Strähle, U., Rastegar, S. (2015) Differential expression of id genes and their potential regulator znf238 in zebrafish adult neural progenitor cells and neurons suggests distinct functions in adult neurogenesis. Gene Expression Patterns. 19(1-2):1-13
Diotel, N., Viales, R.R., Armant, O., März, M., Ferg, M., Rastegar, S., Strähle, U. (2015) Comprehensive expression map of transcription regulators in the adult zebrafish telencephalon reveals distinct neurogenic niches. The Journal of comparative neurology. 523(8):1202-21
Naville, M., Ishibashi, M., Ferg, M., Bengani, H., Rinkwitz, S., Krecsmarik, M., Hawkins, T.A., Wilson, S.W., Manning, E., Chilamakuri, C.S., Wilson, D.I., Louis, A., Lucy Raymond, F., Rastegar, S., Strähle, U., Lenhard, B., Bally-Cuif, L., van Heyningen, V., FitzPatrick, D.R., Becker, T.S., Roest Crollius, H. (2015) Long-range evolutionary constraints reveal cis-regulatory interactions on the human X chromosome. Nature communications. 6:6904
Scheidecker, S., Etard, C., Haren, L., Stoetzel, C., Hull, S., Arno, G., Plagnol, V., Drunat, S., Passemard, S., Toutain, A., Obringer, C., Koob, M., Geoffroy, V., Marion, V., Strähle, U., Ostergaard, P., Verloes, A., Merdes, A., Moore, A.T., Dollfus, H. (2015) Mutations in TUBGCP4 Alter Microtubule Organization via the γ-Tubulin Ring Complex in Autosomal-Recessive Microcephaly with Chorioretinopathy. American journal of human genetics. 96(4):666-74
Rodriguez Viales, R., Diotel, N., Ferg, M., Armant, O., Eich, J., Alunni, A., März, M., Bally-Cuif, L., Rastegar, S., Strähle, U. (2015) The helix-loop-helix protein Id1 controls stem cell proliferation during regenerative neurogenesis in the adult zebrafish telencephalon. Stem Cells. 33(3):892-903
Kobitski, A.Y., Otte, J.C., Takamiya, M., Schäfer, B., Mertes, J., Stegmaier, J., Rastegar, S., Rindone, F., Hartmann, V., Stotzka, R., García, A., van Wezel, J., Mikut, R., Strähle, U., Nienhaus, G.U. (2015) An ensemble-averaged, cell density-based digital model of zebrafish embryo development derived from light-sheet microscopy data with single-cell resolution. Scientific Reports. 5:8601
Takamiya, M., Weger, B.D., Schindler, S., Beil, T., Yang, L., Armant, O., Ferg, M., Schlunck, G., Reinhard, T., Dickmeis, T., Rastegar, S., Strähle, U. (2015) Molecular Description of Eye Defects in the Zebrafish Pax6b Mutant, sunrise, Reveals a Pax6b-Dependent Genetic Network in the Developing Anterior Chamber. PLoS One. 10:e0117645
Marcato, D., Alshut, R., Breitwieser, H., Mikut, R., Strahle, U., Pylatiuk, C., Peravali, R. (2015) An automated and high-throughput Photomotor Response platform for chemical screens. Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual Conference. 2015:7728-7731
Bluhm, K., Otte, J.C., Yang, L., Zinsmeister, C., Legradi, J., Keiter, S., Kosmehl, T., Braunbeck, T., Strähle, U., Hollert, H. (2014) Impacts of Different Exposure Scenarios on Transcript Abundances in Danio rerio Embryos when Investigating the Toxicological Burden of Riverine Sediments. PLoS One. 9:e106523
Schmidt, R., Beil, T., Strähle, U., Rastegar, S. (2014) Stab wound injury of the zebrafish adult telencephalon: a method to investigate vertebrate brain neurogenesis and regeneration. Journal of visualized experiments : JoVE. (90):e51753
Haberle, V., Li, N., Hadzhiev, Y., Plessy, C., Previti, C., Nepal, C., Gehrig, J., Dong, X., Akalin, A., Suzuki, A.M., van IJcken, W.F., Armant, O., Ferg, M., Strähle, U., Carninci, P., Müller, F., and Lenhard, B. (2014) Two independent transcription initiation codes overlap on vertebrate core promoters. Nature. 507(7492):381-385
Ferg, M., Armant, O., Yang, L., Dickmeis, T., Rastegar, S., and Strähle, U. (2014) Gene transcription in the zebrafish embryo: regulators and networks. Briefings in Functional Genomics. 13(2):131-43
Stegmaier, J., Shahid, M., Takamiya, M., Yang, L., Rastegar, S., Reischl, M., Strähle, U., and Mikut, R. (2014) Automated prior knowledge-based quantification of neuronal patterns in the spinal cord of zebrafish. Bioinformatics (Oxford, England). 30(5):726-33
Stegmaier, J., Otte, J.C., Kobitski, A., Bartschat, A., Garcia, A., Nienhaus, G.U., Strähle, U., Mikut, R. (2014) Fast segmentation of stained nuclei in terabyte-scale, time resolved 3D microscopy image stacks. PLoS One. 9:e90036
Tixier, V., Bataillé, L., Etard, C., Jagla, T., Weger, M., Daponte, J.P., Strähle, U., Dickmeis, T., and Jagla, K. (2013) Glycolysis supports embryonic muscle growth by promoting myoblast fusion. Proc. Natl. Acad. Sci. USA. 110(47):18982-7
Nepal, C., Hadzhiev, Y., Previty, C., Haberle, V., Li, N., Takahashi, H., Suzuki, A.M., Sheng, Y., Abdelhamid, R., Anand, S., Gehrig, J., Akalin, A., Kockx, C., van der Sloot, A., van Ijcken, W., Armant, O., Rastegar, S., Straehle, U., Stupka, E., Carninci, P., Lenhard, B., and Muller, F. (2013) Dynamic regulation of the transcription initiation landscape at single nucleotide resolution during vertebrate embryogenesis. Genome research. 23(11):1938-50
Mikut, R., Dickmeis, T., Driever, W., Geurts, P., Hamprecht, F.A., Kausler, B.X., Ledesma-Carbayo, M.J., Marée, R., Mikula, K., Pantazis, P., Ronneberger, O., Santos, A., Stotzka, R., Strähle, U., and Peyriéras, N. (2013) Automated Processing of Zebrafish Imaging Data: A Survey. Zebrafish. 10(3):401-21
Weger, M., Weger, B.D., Diotel, N., Rastegar, S., Hirota, T., Kay, S.A., Strähle, U., and Dickmeis, T. (2013) Real-time in vivo monitoring of circadian E-box enhancer activity: A robust and sensitive zebrafish reporter line for developmental, chemical and neural biology of the circadian clock. Developmental Biology. 380(2):259-73
Armant, O., März, M., Schmidt, R., Ferg, M., Diotel, N., Ertzer, R., Bryne, J.C., Yang, L., Baader, I., Reischl, M., Legradi, J., Mikut, R., Stemple, D., Ijcken, W.V., van der Sloot, A., Lenhard, B., Strähle, U., and Rastegar, S. (2013) Genome-wide, whole mount in situ analysis of transcriptional regulators in zebrafish embryos. Developmental Biology. 380(2):351-62
Ho, N.Y., Yang, L., Legradi, J., Armant, O., Takamiya, M., Rastegar, S., and Strähle, U. (2013) Gene Responses in the Central Nervous System of Zebrafish Embryos Exposed to the Neurotoxicant Methyl Mercury. Environ. Sci. Technol.. 47(7):3316-25
Sanges, R., Hadzhiev, Y., Gueroult-Bellone, M., Roure, A., Ferg, M., Meola, N., Amore, G., Basu, S., Brown, E.R., De Simone, M., Petrera, F., Licastro, D., Strahle, U., Banfi, S., Lemaire, P., Birney, E., Muller, F., and Stupka, E. (2013) Highly conserved elements discovered in vertebrates are present in non-syntenic loci of tunicates, act as enhancers and can be transcribed during development. Nucleic acids research. 41(6):3600-3618
Cavodeassi, F., Bene, F.D., Fürthauer, M., Grabher, C., Herzog, W., Lehtonen, S., Linker, C., Mercader, N., Mikut, R., Norton, W., Strähle, U., Tiso, N., and Foulkes, N.S. (2013) Report of the Second European Zebrafish Principal Investigator Meeting in Karlsruhe, Germany, March 21-24, 2012. Zebrafish. 10(1):119-23
Schmidt, R., Strähle, U., and Scholpp, S. (2013) Neurogenesis in zebrafish -- from embryo to adult. Neural Development. 8(1):3
Strähle, U., and Schmidt, R. (2012) A universal program for tissue regeneration?. Developmental Cell. 23(6):1123-1124
Zhang, J., Jeradi, S., Strähle, U., and Akimenko, M.A. (2012) Laser ablation of the sonic hedgehog-a-expressing cells during fin regeneration affects ray branching morphogenesis. Developmental Biology. 365(2):424-433
Boggetti, B., Jasik, J., Takamiya, M., Strähle, U., Reugels, A.M., and Campos-Ortega, J.A. (2012) NBP, a zebrafish homolog of human Kank3, is a novel Numb interactor essential for epidermal integrity and neurulation. Developmental Biology. 365(1):164-174
Kosmehl, T., Otte, J.C., Yang, L., Legradi, J., Bluhm, K., Zinsmeister, C., Keiter, S.H., Reifferscheid, G., Manz, W., Braunbeck, T., Strähle, U., and Hollert, H. (2012) A combined DNA-microarray and mechanism-specific toxicity approach with zebrafish embryos to investigate the pollution of river sediments. Reproductive toxicology (Elmsford, N.Y.). 33(2):245-253
Strähle, U., Scholz, S., Geisler, R., Greiner, P., Hollert, H., Rastegar, S., Schumacher, A., Selderslaghs, I., Weiss, C., Witters, H., and Braunbeck, T. (2012) Zebrafish embryos as an alternative to animal experiments-A commentary on the definition of the onset of protected life stages in animal welfare regulations. Reproductive toxicology (Elmsford, N.Y.). 33(2):128-132
Roostalu, U., and Strähle, U. (2012) In Vivo imaging of molecular interactions at damaged sarcolemma. Developmental Cell. 22(3):515-529
Otten, C., van der Ven, P.F., Lewrenz, I., Paul, S., Steinhagen, A., Busch-Nentwich, E., Eichhorst, J., Wiesner, B., Stemple, D., Strähle, U., Fürst, D.O., and Abdelilah-Seyfried, S. (2012) Xirp proteins mark injured skeletal muscle in zebrafish. PLoS One. 7(2):e31041
Bloch-Zupan, A., Jamet, X., Etard, C., Laugel, V., Muller, J., Geoffroy, V., Strauss, J.P., Pelletier, V., Marion, V., Poch, O., Strahle, U., Stoetzel, C., and Dollfus, H. (2011) Homozygosity Mapping and Candidate Prioritization Identify Mutations, Missed by Whole-Exome Sequencing, in SMOC2, Causing Major Dental Developmental Defects. American journal of human genetics. 89(6):773-781
Just, S., Meder, B., Berger, I.M., Etard, C., Trano, N., Patzel, E., Hassel, D., Marquart, S., Dahme, T., Vogel, B., Fishman, M.C., Katus, H.A., Strähle, U., and Rottbauer, W. (2011) The myosin-interacting protein SMYD1 is essential for sarcomere organization. Journal of Cell Science. 124(Pt 18):3127-36
März, M., Schmidt, R., Rastegar, S., and Strähle, U. (2011) Regenerative response following stab injury in the adult zebrafish telencephalon. Developmental dynamics : an official publication of the American Association of Anatomists. 240(9):2221-2231
Busch, W., Duis, K., Fenske, M., Maack, G., Legler, J., Padilla, S., Strähle, U., Witters, H., and Scholz, S. (2011) The zebrafish embryo model in toxicology and teratology. Reproductive toxicology (Elmsford, N.Y.). 31(4):585-588
Klüver, N., Yang, L., Busch, W., Scheffler, K., Renner, P., Strähle, U., and Scholz, S. (2011) Transcriptional Response of Zebrafish Embryos Exposed to Neurotoxic Compounds Reveals a Muscle Activity Dependent hspb11 Expression. PLoS One. 6(12):e29063
März, M., Schmidt, R., Rastegar, S., and Strähle, U. (2010) Expression of the transcription factor Olig2 in proliferating cells in the adult zebrafish telencephalon. Developmental dynamics : an official publication of the American Association of Anatomists. 239(12):3336-3349
Tschopp, M., Takamiya, M., Cerveny, K.L., Gestri, G., Biehlmaier, O., Wilson, S.W., Strähle, U., and Neuhauss, S.C. (2010) Funduscopy in adult zebrafish and its application to isolate mutant strains with ocular defects. PLoS One. 5(11):e15427
Lang, M., Hadzhiev, Y., Siegel, N., Amemiya, C.T., Parada, C., Strähle, U., Becker, M.B., Muller, F., and Meyer, A. (2010) Conservation of shh cis-regulatory architecture of the coelacanth is consistent with its ancestral phylogenetic position. EvoDevo. 1(1):11
Strähle, U., and Grabher, C. (2010) The zebrafish embryo as a model for assessing off-target drug effects. Disease models & mechanisms. 3(11-12):689-692
Wahl, M., Guenther, R., Yang, L., Bergman, A., Straehle, U., Strack, S., and Weiss, C. (2010) Polybrominated diphenyl ethers and arylhydrocarbon receptor agonists: Different toxicity and target gene expression. Toxicology letters. 198(2):119-126
Brennan, C., Dosch, R., Haramis, A.P., Luckenbacher, T., Martinez-Morales, J.R., Moro, E., Polok, B., Ramesh, T.M., Russell, C., Argenton, F., and Strähle, U. (2010) Report of the European Zebrafish Principal Investigator Meeting in Padua, Italy, March 18-22, 2010. Zebrafish. 7(3):305-310
Yang, L., Rastegar, S., and Strähle, U. (2010) Regulatory interactions specifying Kolmer-Agduhr interneurons. Development (Cambridge, England). 137(16):2713-2722
Yang, L., Ho, N.Y., Muller, F., and Strahle, U. (2010) Methyl mercury suppresses the formation of the tail primordium in developing zebrafish embryos. Toxicological sciences : an official journal of the Society of Toxicology. 115(2):379-390
Etard, C., Roostalu, U., and Strähle, U. (2010) Lack of Apobec2-related proteins causes a dystrophic muscle phenotype in zebrafish embryos. The Journal of cell biology. 189(3):527-539
März, M., Chapouton, P., Diotel, N., Vaillant, C., Hesl, B., Takamiya, M., Lam, C.S., Kah, O., Bally-Cuif, L., and Strähle, U. (2010) Heterogeneity in progenitor cell subtypes in the ventricular zone of the zebrafish adult telencephalon. Glia. 58(7):870-888
Grabher, C., Patton, E.E., and Strähle, U. (2010) Sharing Chemical Libraries Within the European Zebrafish Community. Zebrafish. 7(1):83
Alshut, R., Legradi, J., Liebel, U., Yang, L., van Wezel, J., Strähle, U., Mikut, R., and Reischl, M. (2010) Methods for Automated High-Throughput Toxicity Testing Using Zebrafish Embryos. KI 2010: Advances in Artificial Intelligence. 6359:219-226
Alshut, R., Legradi, J., Mikut, R., Strähle, U., and Reischl, M. (2009) Robust Identification of Coagulated Zebrafish Eggs using Image Processing and Classification Techniques. Proceedings 19 Workshop Computational Intelligence. 50:9-21
Yang, L., Ho, N.Y., Alshut, R., Legradi, J., Weiss, C., Reischl, M., Mikut, R., Liebel, U., Müller, F., and Strähle, U. (2009) Zebrafish embryos as models for embryotoxic and teratological effects of chemicals. Reproductive toxicology (Elmsford, N.Y.). 28(2):245-253
Lam, C.S., Maerz, M., and Strähle, U. (2009) gfap and nestin reporter lines reveal characteristics of neural progenitors in the adult zebrafish brain. Developmental dynamics : an official publication of the American Association of Anatomists. 238(2):475-486
Wahl, M., Lahni, B., Guenther, R., Kuch, B., Yang, L., Straehle, U., Strack, S., and Weiss, C. (2008) A technical mixture of 2,2',4,4'-tetrabromo diphenyl ether (BDE47) and brominated furans triggers aryl hydrocarbon receptor (AhR) mediated gene expression and toxicity. Chemosphere.. 73(2):209-215
Rastegar, S., Hess, I., Dickmeis, T., Nicod, J.C., Ertzer, R., Hadzhiev, Y., Thies, W.G., Scherer, G., and Strähle, U. (2008) The words of the regulatory code are arranged in a variable manner in highly conserved enhancers. Developmental Biology. 318(2):366-377
Etard, C., Roostalu, U., and Strähle, U. (2008) Shuttling of the chaperones Unc45b and Hsp90a between the A band and the Z line of the myofibril. The Journal of cell biology. 180(6):1163-1175
Strähle, U., and Rastegar, S. (2008) Conserved non-coding sequences and transcriptional regulation. Brain research bulletin. 75(2-4):225-230
Hawkins, T.A., Haramis, A.P., Etard, C., Prodromou, C., Vaughan, C.K., Ashworth, R., Ray, S., Behra, M., Holder, N., Talbot, W.S., Pearl, L.H., Strähle, U., and Wilson, S.W. (2008) The ATPase-dependent chaperoning activity of Hsp90a regulates thick filament formation and integration during skeletal muscle myofibrillogenesis. Development (Cambridge, England). 135(6):1147-1156
Vinothkumar, S., Rastegar, S., Takamiya, M., Ertzer, R., and Strähle, U. (2008) Sequential and cooperative action of Fgfs and Shh in the zebrafish retina. Developmental Biology. 314(1):200-214
Pézeron, G., Lambert, G., Dickmeis, T., Strähle, U., Rosa, F.M., and Mourrain, P. (2008) Rasl11b knock down in zebrafish suppresses one-eyed-pinhead mutant phenotype. PLoS One. 3(1):e1434
Ferg, M., Sanges, R., Gehrig, J., Kiss, J., Bauer, M., Lovas, A., Szabo, M., Yang, L., Straehle, U., Pankratz, M.J., Olasz, F., Stupka, E., and Müller, F. (2007) The TATA-binding protein regulates maternal mRNA degradation and differential zygotic transcription in zebrafish. The EMBO journal. 26(17):3945-3956
Etard, C., Behra, M., Fischer, N., Hutcheson, D., Geisler, R., and Strähle, U. (2007) The UCS factor Steif/Unc-45b interacts with the heat shock protein Hsp90a during myofibrillogenesis. Developmental Biology. 308(1):133-143
Hadzhiev, Y., Lele, Z., Schindler, S., Wilson, S.W., Ahlberg, P., Straehle, U., and Mueller, F. (2007) Hedgehog signaling patterns the outgrowth of unpaired skeletal appendages in zebrafish. BMC Developmental Biology. 7(1):75
Ertzer, R., Muller, F., Hadzhiev, Y., Rathnam, S., Fischer, N., Rastegar, S., and Strähle, U. (2007) Cooperation of sonic hedgehog enhancers in midline expression. Developmental Biology. 301(2):578-589
Yang, L., Kemadjou, J.R., Zinsmeister, C., Legradi, J., Bauer, M., Muller, F., Pankratz, M., Jakel, J., and Straehle, U. (2007) Transcriptional profiling reveals barcode-like toxicogenomic responses in the zebrafish embryo. Genome biology. 8(10):R227
Adolf, B., Chapouton, P., Lam, C.S., Topp, S., Tannhauser, B., Strähle, U., Gotz, M., and Bally-Cuif, L. (2006) Conserved and acquired features of adult neurogenesis in the zebrafish telencephalon. Developmental Biology. 295(1):278-293
Ninkovic, J., Folchert, A., Makhankov, Y.V., Neuhauss, S.C., Sillaber, I., Straehle, U., and Bally-Cuif, L. (2006) Genetic identification of AChE as a positive modulator of addiction to the psychostimulant D-amphetamine in zebrafish. Journal of neurobiology. 66(5):463-475
Yu, R.M., Lin, C.C., Chan, P.K., Chow, E.S., Murphy, M.B., Chan, B.P., Muller, F., Strähle, U., and Cheng, S.H. (2006) Four-dimensional Imaging and Quantification of Gene Expression in Early Developing Zebrafish (Danio rerio) Embryos. Toxicological sciences : an official journal of the Society of Toxicology. 90(2):529-538
Cheng, C.W., Yan, C.H., Hui, C.C., Strähle, U., and Cheng, S.H. (2006) The homeobox gene irx1a is required for the propagation of the neurogenic waves in the zebrafish retina. Mechanisms of Development. 123(3):252-263
Lam, C.S., Rastegar, S., and Strähle, U. (2006) Distribution of cannabinoid receptor 1 in the CNS of zebrafish. Neuroscience. 138(1):83-95
Knaut, H., Blader, P., Strähle, U., and Schier, A.F. (2005) Assembly of trigeminal sensory Ganglia by chemokine signaling. Neuron. 47(5):653-666
Plessy, C., Dickmeis, T., Chalmel, F., and Strähle, U. (2005) Enhancer sequence conservation between vertebrates is favoured in developmental regulator genes. Trends in genetics : TIG. 21(4):207-210
Lam, C.S., Korzh, V., and Strähle, U. (2005) Zebrafish embryos are susceptible to the dopaminergic neurotoxin MPTP. The European journal of neuroscience. 21(6):1758-1762
Norton, W.H., Mangoli, M., Lele, Z., Pogoda, H.M., Diamond, B., Mercurio, S., Russell, C., Teraoka, H., Stickney, H.L., Rauch, G.J., Heisenberg, C.P., Houart, C., Schilling, T.F., Frohnhoefer, H.G., Rastegar, S., Neumann, C.J., Gardiner, R.M., Strähle, U., Geisler, R., Rees, M., Talbot, W.S., and Wilson, S.W. (2005) Monorail/Foxa2 regulates floorplate differentiation and specification of oligodendrocytes, serotonergic raphe neurones and cranial motoneurones. Development (Cambridge, England). 132(4):645-658
Strähle, U., and Korzh, V. (2004) Development of the Primary Nervous System of the Zebrafish Embryo. In Fish Development and Genetics - the Zebrafish and Medaka Models. Gong, Z. and Korh, V., Eds. Book series of "Molecular Aspects of Fish and Marine Biology". 2
Blader, P., Lam, C.S., Rastegar, S., Scardigli, R., Nicod, J.C., Simplicio, N., Plessy, C., Fischer, N., Schuurmans, C., Guillemot, F., and Strähle, U. (2004) Conserved and acquired features of neurogenin1 regulation. Development (Cambridge, England). 131(22):5627-5637
Shkumatava, A., Fischer, S., Müller, F., Strähle, U., and Neumann, C.J. (2004) Sonic hedgehog, secreted by amacrine cells, acts as a short-range signal to direct differentiation and lamination in the zebrafish retina. Development (Cambridge, England). 131(16):3849-3858
Geling, A., Plessy, C., Rastegar, S., Strähle, U., and Bally-Cuif, L. (2004) Her5 acts as a prepattern factor that blocks neurogenin1 and coe2 expression upstream of Notch to inhibit neurogenesis at the midbrain-hindbrain boundary. Development (Cambridge, England). 131(9):1993-2006
Strähle, U., Lam, C.S., Ertzer, R., and Rastegar, S. (2004) Vertebrate floor-plate specification: variations on common themes. Trends in genetics : TIG. 20(3):155-162
Behra, M., Etard, C., Cousin, X., and Strähle, U. (2004) The use of zebrafish mutants to identify secondary target effects of acetylcholine esterase inhibitors. Toxicological sciences : an official journal of the Society of Toxicology. 77(2):325-333
Dickmeis, T., Plessy, C., Rastegar, S., Aanstad, P., Herwig, R., Chalmel, F., Fischer, N., and Strähle, U. (2004) Expression profiling and comparative genomics identify a conserved regulatory region controlling midline expression in the zebrafish embryo. Genome research. 14(2):228-238
Mathieu, J., Griffin, K., Herbomel, P., Dickmeis, T., Strähle, U., Kimelman, D., Rosa, F.M., and Peyriéras, N. (2004) Nodal and Fgf pathways interact through a positive regulatory loop and synergize to maintain mesodermal cell populations. Development (Cambridge, England). 131(3):629-641
Dufourcq, P., Rastegar, S., Strähle, U., and Blader, P. (2004) Parapineal specific expression of gfi1 in the zebrafish epithalamus. Gene Expression Patterns. 4(1):53-57
Hill, A., Howard, C.V., Strähle, U., and Cossins, A. (2003) Neuro-developmental defects in zebrafish (Danio rerio) at environmentally relevant dioxin (TCDD) concentrations. Toxicological sciences : an official journal of the Society of Toxicology. 76(2):392-399
Szabo, M., Müller, F., Kiss, J., Balduf, C., Strähle, U., and Olasz, F. (2003) Transposition and targeting of the prokaryotic mobile element IS30 in zebrafish. FEBS letters. 550(1-3):46-50
Blader, P., Plessy, C., and Strähle, U. (2003) Multiple regulatory elements with spatially and temporally distinct activities control neurogenin1 expression in primary neurons of the zebrafish embryo. Mechanisms of Development. 120(2):211-218
Albert, S., Müller, F., Fischer, N., Biellmann, D., Neumann, C., Blader, P., and Strähle, U. (2003) Cyclops-independent floor plate differentiation in zebrafish embryos. Developmental dynamics : an official publication of the American Association of Anatomists. 226(1):59-66
Rastegar, S., Albert, S., Le Roux, I., Fischer, N., Blader, P., Müller, F., and Strähle, U. (2002) A floor plate enhancer of the zebrafish netrin1 gene requires Cyclops (Nodal) signalling and the winged helix transcription factor FoxA2. Developmental Biology. 252(1):1-14
Korzh, V. and Strähle, U. (2002) Proneural, prosensory, antiglial: the many faces of neurogenins. Trends in neurosciences. 25(12):603-605
Müller, F., Blader, P., and Strähle, U. (2002) Search for enhancers: teleost models in comparative genomic and transgenic analysis of cis regulatory elements. BioEssays : news and reviews in molecular, cellular and developmental biology. 24(6):564-572
Dickmeis, T., Rastegar, S., Lam, C.S., Aanstad, P., Clark, M., Fischer, N., Rosa, F., Korzh, V., and Strähle, U. (2002) Expression of the helix-loop-helix gene id3 in the zebrafish embryo. Mechanisms of Development. 113(1):99-109
Behra, M., Cousin, X., Bertrand, C., Vonesch, J.L., Biellmann, D., Chatonnet, A., and Strähle, U. (2002) Acetylcholinesterase is required for neuronal and muscular development in the zebrafish embryo. Nature Neuroscience. 5(2):111-118
Aoki T.O., David, N.B., Minchiotti, G., Saint-Etienne, L., Dickmeis, T., Persico, G.M., Strähle, U., Mourrain, P., and Rosa, F.M. (2002) Molecular integration of casanova in the Nodal signalling pathway controlling endoderm formation. Development (Cambridge, England). 129(2):275-286
Dickmeis, T., Rastegar, S., Aanstad, P., Clark, M., Fischer, N., Plessy, C., Rosa, F., Korzh, V., Strähle, U. (2001) Expression of brain subtype creatine kinase in the zebrafish embryo. Mechanisms of Development. 109(2):409-412
Dickmeis, T., Rastegar, S., Aanstad, P., Clark, M., Fischer, N., Korzh, V., and Strähle, U. (2001) Expression of the anti-dorsalizing morphogenetic protein gene in the zebrafish embryo. Development genes and evolution. 211(11):568-572
Dickmeis, T., Aanstad, P., Clark, M., Fischer, N., Herwig, R., Mourrain, P., Blader, P., Rosa, F., Lehrach, H., and Strähle, U. (2001) Identification of nodal signaling targets by array analysis of induced complex probes. Developmental dynamics : an official publication of the American Association of Anatomists. 222(4):571-580
Cheng, C.W., Hui, C.C., Strähle, U., and Cheng, S.H. (2001) Identification and expression of zebrafish Iroquois homeobox gene irx1. Development genes and evolution. 211(8-9):442-444
Bolaños-Jiménez, F., Bordais, A., Behra, M., Strähle, U., Mornet, D., Sahel, J., and Rendon, A. (2001) Molecular cloning and characterization of dystrophin and Dp71, two products of the Duchenne Muscular Dystrophy gene, in zebrafish. Gene. 274(1-2):217-226
Dickmeis, T., Mourrain, P., Saint-Etienne, L., Fischer, N., Aanstad, P., Clark, M., Strähle, U., and Rosa, F. (2001) A crucial component of the endoderm formation pathway, CASANOVA, is encoded by a novel sox-related gene. Genes and Development. 15(12):1487-1492
Bolaños-Jiménez, F., Bordais, A., Behra, M., Strähle, U., Sahel, J., and Rendon, A. (2001) Dystrophin and Dp71, two products of the DMD gene, show a different pattern of expression during embryonic development in zebrafish. Mechanisms of Development. 102(1-2):239-241
Müller, F., Lakatos, L., Dantonel, J., Strähle, U., and Tora, L. (2001) TBP is not universally required for zygotic RNA polymerase II transcription in zebrafish. Current biology : CB. 11(4):282-287
Müller, F., Albert, S., Blader, P., Fischer, N., Hallonet, M., and Strähle, U. (2000) Direct action of the Nodal-related signal Cyclops in induction of sonic hedgehog in the ventral midline of the CNS. Development (Cambridge, England). 127(18):3889-3897
Kiecker, C., Müller, F., Wu, W., Glinka, A., Strähle, U., and Niehrs, C. (2000) Phenotypic effects in Xenopus and zebrafish suggest that one-eyed pinhead functions as antagonist of BMP signalling. Mechanisms of Development. 94(1-2):37-46
Blader, P. and Strähle, U. (2000) Zebrafish developmental genetics and central nervous system development. Hum. Mol. Genet.. 9(6):945-951
Müller, F., Blader, P., Rastegar, S., Fischer, N., Knochel, W., Strähle, U. (1999) Characterization of zebrafish smad1, smad2 and smad5: the amino-terminus of Smad1 and Smad5 is required for specific function in the embryo. Mechanisms of Development. 88(1):73-88
Müller, F., Chang, B., Albert, S., Fischer, N., Tora, L., and Strähle, U. (1999) Intronic enhancers control expression of zebrafish sonic hedgehog in floor plate and notochord. Development (Cambridge, England). 126(10):2103-2116
Hammerschmidt, M., Blader, P., and Strähle, U. (1999) Strategies to perturb zebrafish development. In The Zebrafish: Biology. H.W. Detrich, L.I. Zon, and M. Westerfield, eds. Methods Cell Biol.. 59:87-115
Whitmore, D., Foulkes, N.S., Strähle, U., and Sassone-Corsi, P. (1998) Zebrafish Clock rhythmic expression reveals independent peripheral circadian oscillators. Nature Neuroscience. 1(8):701-707
Blader, P. and Strähle, U. (1998) Ethanol impairs migration of the prechordal plate in the zebrafish embryo. Developmental Biology. 201:185-201
Blader, P. and Strähle, U. (1998) Casting an eye over cyclopia. Nature. 395:112-113
Schauerte, H.E., van Eeden, F.J.M., Fricke, C., Odenthal, J., Strähle, U., Haffter, P. (1998) Sonic hedgehog is not required for the induction of medial floor plate cells in the zebrafish. Development (Cambridge, England). 125:2983-2993
Peyriéras, N., Strähle, U., and Rosa, F. (1998) Conversion of zebrafish blastomeres to an endodermal fate by TGF-ß-related signaling. Current biology : CB. 8:783-786
Blader, P., Rastegar, S., Fischer, N., and Strähle, U. (1997) Cleavage of the BMP-4 antagonist chordin by zebrafish tolloid. Science (New York, N.Y.). 278(5345):1937-1940
Blader, P., Fischer, N., Gradwohl, G., Guillemot, F., and Strähle, U. (1997) The activity of Neurogenin1 is controlled by local cues in the zebrafish embryo. Development (Cambridge, England). 124:4557-4569
Chang, B.E., Blader, P., Fischer, N., Ingham, P.W., and Strähle, U. (1997) Axial (HNF3b) and retinoic acid receptors are regulators of the zebrafish sonic hedgehog promoter. The EMBO journal. 16(13):3955-3964
Macdonald, R., Scholes, J., Strähle, U., Brennan, C., Holder, N., Brand, M., and Wilson, S.W. (1997) The Pax protein Noi is required for commissural axon pathway formation in the rostral forebrain. Development (Cambridge, England). 124(12):2397-2408
Strähle, U., Jesuthasan, S., Blader, P., Garcia-Villalba, P., Hatta, K., and Ingham, P.W. (1997) one-eyed pinhead is required for development of the ventral midline of the zebrafish (Danio rerio) neural tube. Genes and function. 1:131-148
Strähle, U., Fischer, N., and Blader, P. (1997) Expression and regulation of a netrin homologue in the zebrafish embryo. Mechanisms of Development. 62(2):147-160
Jesuthasan, S. and Strähle, U. (1997) Dynamic microtubules and specification of the zebrafish embryonic axis. Current biology : CB. 7(1):31-42
Rauch, G.-J., Hammerschmidt, M., Blader, P., Schauerte, H.E., Strähle, U., Ingham, P.W., McMahon, A.P. and Haffter, P. (1997) WNT5 is required for tail formation in the zebrafish embryo. Cold Spring Harbor symposia on quantitative biology. 62:227-233
Strähle, U., Blader, P., and Ingham, P.W. (1996) Expression of axial and sonic hedgehog in wildtype and midline defective zebrafish embryos. The International journal of developmental biology. 40(5):929-940
Blader, P., Strähle, U., and Ingham, P.W. (1996) Three Wnt genes expressed in a wide variety of tissues during development of the zebrafish, Danio rerio: developmental and evolutionary perspectives. Development genes and evolution. 206(1):3-13
Kiefer, P., Strähle, U., and Dickson, C. (1996) The zebrafish Fgf-3 gene: cDNA sequence, transcript structure and genomic organization. Gene. 168(2):211-215
DeVries, C.J.M., DeBoer, J., Joore, J., Strähle, U., VanAchterberg, T.A.E., Huylebröck, D., Verschüren, K., Miyazono, K., VandenEijnden-vanRaaij, A.J.M., and Zivkovic, D. (1996) Active complex formation of type I and type II activin and TGF beta receptors in vivo as studied by overexpression in zebrafish embryos. Mechanisms of Development. 54(2):225-236
Strähle, U. and Blader, P. (1994) Early neurogenesis in the zebrafish embryo. FASEB journal : official publication of the Federation of American Societies for Experimental Biology. 8:692-698
Strähle, U., Blader, P., Adam, J., and Ingham, P.W. (1994) A simple and efficient procedure for non-isotopic in situ hybridization to sectioned material. Trends in genetics : TIG. 10:75-76
Strähle, U., and Jesuthasan, S. (1993) Ultraviolet irradiation impairs epiboly in zebrafish embryos: evidence for a microtubule-dependent mechanism of epiboly. Development (Cambridge, England). 119:909-919
Strähle, U., Blader, P., Henrique, D., and Ingham, P.W. (1993) Axial, a zebrafish gene expressed along the developing body axis, shows altered expression in cyclops mutant embryos. Genes and Development. 7:1436-1446
Strähle, U. and Ingham, P.W. (1992) Flight of fancy or a major new school?. Current biology : CB. 2:135-138

NON-ZEBRAFISH PUBLICATIONS
Str�hle U, Boshart M, Klock G, Stewart F, Sch�tz G (1989). Glucocorticoid- and progesterone-specific effects are determined by differential expression of the respective hormone receptors. Nature.339(6226):629-32.

Str�hle U, Schmid W, Sch�tz G (1988).Synergistic action of the glucocorticoid receptor with transcription factors.EMBO J.7(11):3389-95

Str�hle U, Klock G, Sch�tz G (1987). A DNA sequence of 15 base pairs is sufficient to mediate both glucocorticoid and progesterone induction of gene expression. Proc Natl Acad Sci U S A.84(22):7871-5