Imaging Machine – Applications 

  • Schindler, M., Siegerist, F., Lange, T., Simm, S., Bach, S. M., Klawitter, M., … & Endlich, N. (2023). A Novel High-Content Screening Assay Identified Belinostat as Protective in a Focal Segmental Glomerulosclerosis–like Zebrafish Model. Journal of the American Society of Nephrology, 10-1681.
  • Ernst, A., Piragyte, I., MP, A. M., Le, N. D., Grandgirard, D., Leib, S., … & Mercader, N. (2023). Identification of side effects of COVID-19 drug candidates on embryogenesis using an integrated zebrafish screening platform. Sci Rep 13, 17037.
  • Gierten, J., Welz, B., Fitzgerald, TW., Thumberger, T., … & Birney, E., Wittbrodt, J. (2023). Natural genetic variation quantitatively regulates heart-rate and -dimension, bioRxiv 2023.09.01.555906.
  • Čapek, D., Safroshkin, M., Morales-Navarrete, H., Toulany, N., Arutyunov, G., Kurzbach, A., … & Müller, P. (2023). EmbryoNet: using deep learning to link embryonic phenotypes to signaling pathways. Nat Methods 2023 May 8.
  • Rederer, A., Rose, V., Krüger, R., Schmittutz, L., Swierzy, I., Fischer, L., … & Müller-Deile, J. (2023). Partner, Neighbor, Housekeeper and Dimension: 3D versus 2D Glomerular Co-Cultures Reveal Drawbacks of Currently Used Cell Culture Models. International Journal of Molecular Sciences, 24(12), 10384.
  • Vedder, V. L., Reinberger, T., Haider, S. M., Eichelmann, L., Odenthal, N., Abdelilah-Seyfried, S., … & Erdmann, J. (2023). pyHeart4Fish: Chamber-specific heart phenotype quantification of zebrafish in high-content screens. Frontiers in Cell and Developmental Biology, 11, 378.
  • Stokkermans, A., Chakrabarti, A., Subramanian, K., Wang, L., Yin, S., Moghe, P., … & Ikmi, A. (2022). Muscular hydraulics drive larva-polyp morphogenesis. Current Biology.
  • Ristov, M. C., Lange, T., Artelt, N., Nath, N., Kuss, A. W., Gehrig, J., … & Endlich, N. (2022). The shGlomAssay combines high-throughput drug screening with downstream analyses and reveals the protective role of Vitamin D3 and Calcipotriol on podocytes. Frontiers in Cell and Developmental Biology, 955.
  • Thumberger, T., Tavhelidse-Suck, T., Gutierrez-Triana, J. A., Cornean, A., Medert, R., Welz, B., … & Wittbrodt, J. (2022). Boosting targeted genome editing using the hei-tag. eLife, 11, e70558.
  • Müller-Deile, J., Sopel, N., Ohs, A., Rose, V., Gröner, M., Wrede, C., … & Schiffer, M. (2021). Glomerular Endothelial Cell-Derived microRNA-192 Regulates Nephronectin Expression in Idiopathic Membranous Glomerulonephritis. Journal of the American Society of Nephrology, 32(11), 2777-2794.
  • Bartosova, M., Ridinger, D., Marinovic, I., Heigwer, J., Zhang, C., Levai, E., … & Zarogiannis, S. G. (2021). An Experimental Workflow for Studying Barrier Integrity, Permeability, and Tight Junction Composition and Localization in a Single Endothelial Cell Monolayer: Proof of Concept. International journal of molecular sciences, 22(15), 8178.
  • Zilova L, Weinhardt V, Tavhelidse T, Schlagheck C, Thumberger T, Wittbrodt J. (2021) Fish primary embryonic pluripotent cells assemble into retinal tissue mirroring in vivo early eye development. Elife. 2021 Jul 12;10:e66998.
  • Hammouda, O.T., Wu M. Y., Kaul, V., Thumberger, T., Wittbrodt, J. (2021). In vivo identification and validation of novel potential predictors for human cardiovascular diseases. PLoS ONE 16(12): e0261572.
  • Steenbergen, P. J., Heigwer, J., Pandey, G., Tönshoff, B., Gehrig, J., Westhoff, J. H. (2020). A Multiparametric Assay Platform for Simultaneous In Vivo Assessment of Pronephric Morphology, Renal Function and Heart Rate in Larval Zebrafish. Cells, 9(5), 1269.
  • Westhoff, J. H., Steenbergen, P. J., Thomas, L. S., Heigwer, J., Bruckner, T., Cooper, L., Tönshoff, B., Hoffmann, GF., Gehrig, J. (2020). In vivo high-content screening in zebrafish for developmental nephrotoxicity of approved drugs. Front. Cell Dev. Biol. 8:583.
  • Böffert, R., Businger, R., Preiß, H., Ehmann, D., Truffault, V., Simon, C., Ruetalo, N., Hamprecht, K., Müller, P., Wehkamp, J., Schindler, M. (2020). The human α-defensin-derived peptide HD5 (1–9) inhibits cellular attachment and entry of human cytomegalovirus. Antiviral Research, 104779.
  • Gierten, J., Pylatiuk, C., Hammouda, O. T., Schock, C., Stegmaier, J., Wittbrodt, J., Gehrig, J., Loosli, F. (2020). Automated high-throughput heartbeat quantification in medaka and zebrafish embryos under physiological conditions. Scientific Reports, 10(1), 1-12.  
  • Lischik, C. Q., Adelmann, L., & Wittbrodt, J. (2019). Enhanced in vivo-imaging in medaka by optimized anaesthesia, fluorescent protein selection and removal of pigmentation. PloS one, 14(3). 
  • Hammouda, O. T., Böttger, F., Wittbrodt, J., Thumberger, T. (2019). Swift Large-scale Examination of Directed Genome Editing. PloS one, 14(3). 
  • Pandey, G., Westhoff, J. H., Schaefer, F., Gehrig, J. (2019). A smart imaging workflow for organ-specific screening in a cystic kidney zebrafish disease model. International journal of molecular sciences, 20(6), 1290.  
  • Schendzielorz, A. B., Schulz, C., Lytovchenko, O., Clancy, A., Guiard, B., Ieva, R., van der Laan, M., Rehling, P. (2017). Two distinct membrane potential–dependent steps drive mitochondrial matrix protein translocation. Journal of Cell Biology, 216(1), 83-92. 
  • Arakel, E. C., Richter, K. P., Clancy, A., & Schwappach, B. (2016). δ-COP contains a helix C-terminal to its longin domain key to COPI dynamics and function. Proceedings of the National Academy of Sciences, 113(25), 6916-6921.
  • Rivera-Monroy, J., Musiol, L., Unthan-Fechner, K., Farkas, Á., Clancy, A., Coy-Vergara, J., Weill, U.,  Gockel, S., Lin, S.Y., Corey, D.P., Kohl, T., Ströbel, P., Schuldiner, M., Schwappach, B., Vilardi, F. (2016). Mice lacking WRB reveal differential biogenesis requirements of tail-anchored proteins in vivo. Scientific reports, 6, 39464. 

Other relevant publications by ACQUIFER staff 

  • Thomas, L.S.V., Schaefer, F., Gehrig J. (2020). Fiji plugins for qualitative image annotations: routine analysis and application to image classification. F1000Research 2020, 9:1248.
  • Thomas, L. S. V., Gehrig, J. (2020). Multi-Template Matching: a versatile tool for object-localization in microscopy images. BMC bioinformatics, 21(1), 1-8. 
  • Thomas L. S. V., Gehrig, J. (2020) ImageJ/Fiji ROI 1-click tools for rapid manual image annotations and measurements. microPublication Biology  
  • Gehrig, J., Pandey, G., Westhoff, J. H. (2018). Zebrafish as a model for drug screening in genetic kidney diseases. Frontiers in pediatrics, 6, 183. 
  • Wittbrodt, J. N., Liebel, U., Gehrig, J. (2014). Generation of orientation tools for automated zebrafish screening assays using desktop 3D printing. BMC biotechnology, 14(1), 36. 
  • Westhoff, J. H., Giselbrecht, S., Schmidts, M., Schindler, S., Beales, P. L., Tönshoff, B., Liebel, U., Gehrig, J. (2013). Development of an automated imaging pipeline for the analysis of the zebrafish larval kidney. PLoS One, 8(12).