ZFIN ID: ZDB-LAB-970417-60
Stainier Lab
PI/Director: Stainier, Didier
Contact Person: Stainier, Didier
Email: Didier.Stainier@mpi-bn.mpg.de
URL: http://www.mpi-hlr.de/index.php?id=18&L=1
Address: Max Planck Institute for Heart and Lung Research Dept. III - Developmental Genetics Ludwigstrasse 43 61231 Bad Nauheim Germany
Country: Germany
Phone: +49 (0)6032 705-1302
Fax: +49 (0)6032 705-1304
Line Designation: bns


GENOMIC FEATURES ORIGINATING FROM THIS LAB
Show first 50 of 413 genomic features


STATEMENT OF RESEARCH INTERESTS
Zebrafish developmental genetics and organ formation:

During metazoan development, groups of cells, often from different germ layers, come together to form the individual organs. As a paradigm to study organogenesis, we are focusing on the development of the heart. The embryonic heart is a simple structure that consists of two concentric epithelial tubes, the outer myocardial tube which forms the muscular component of the heart, and the inner endocardial tube which forms its endothelial lining.

We have elected to study heart development in the zebrafish, Danio rerio, because it offers unique advantages as a vertebrate genetic system and is also ideal for embryological studies. The zebrafish heart is accessible for continued observation and manipulation at all stages of development and offers single cell resolution of its components. Through several genome wide screen in zebrafish, we have identified a large number of mutations that affect heart formation and function.

We are currently using the tools of cellular and molecular biology, embryology and genetics to analyze some of these mutations and further our understanding of the cellular and molecular mechanisms underlying early cardiac morphogenesis. We are especially interested in studying early heart induction. Classical embryological studies have revealed potential roles for both the dorsal organizer and endodermal tissues in this process. We are thus making use of a number of mutations that affect either endodermal or myocardial differentiation to approach this problem. We are also interested in the differentiation of the endocardial cells and are analyzing a mutation called cloche where the heart is lacking the endocardial cells. Eight other mutations affect another aspect of cardiac morphogenesis as they block the fusion of the primitive myocardial tubes. This block results in the differentiation of two hearts, one on either side of the midline, a situation commonly known as cardia bifida. Several of these mutations affect endoderm development primarily and we have directed some of our attention towards this fascinating yet understudied germ layer. This work on early endoderm development has recently progressed to the analysis of another fascinating organ, the liver. To approach liver formation, we are planning a large-scale mutant screen using a transgenic line that expresses GFP in the gut and its associated organs.


LAB MEMBERS
Juan, Thomas Post-Doc Kontarakis, Zacharias Post-Doc Molina-Villa, Tonatiuh Post-Doc
Brand, Koroboshka Chatani, Masahiro Cheung, Isla
Ellis, Greg Evason, Kimberley Hampton, Jennifer
Housley, Michael Kametani, Yoshiko Lee, Philbert
Mellman, Kate Reade, Anna Reischauer, Sven
Staudt, David Yoo, Daniel


ZEBRAFISH PUBLICATIONS OF LAB MEMBERS
Juan, T., Bellec, M., Cardoso, B., Athéa, H., Fukuda, N., Albu, M., Günther, S., Looso, M., Stainier, D.Y.R. (2024) Control of cardiac contractions using Cre-lox and degron strategies in zebrafish. Proceedings of the National Academy of Sciences of the United States of America. 121:e2309842121e2309842121
Ruijmbeek, C.W., Housley, F., Idrees, H., Housley, M.P., Pestel, J., Keller, L., Lai, J.K.H., van der Linde, H.C., Willemsen, R., Piesker, J., Al-Hassnan, Z.N., Almesned, A., Dalinghaus, M., van den Bersselaar, L.M., van Slegtenhorst, M.A., Tessadori, F., Bakkers, J., van Ham, T.J., Stainier, D.Y., Verhagen, J.M., Reischauer, S. (2023) Bi-allelic variants in FLII cause pediatric cardiomyopathy by disrupting cardiomyocyte cell adhesion and myofibril organization. JCI insight. 8(17):
Stainier, D.Y.R., Bakkers, J. (2023) Lifting the cloche: Jeroen Bakkers interviews Didier Stainier. Disease models & mechanisms. 16(5)
Hußmann, M., Schulte, D., Weischer, S., Carlantoni, C., Nakajima, H., Mochizuki, N., Stainier, D.Y.R., Zobel, T., Koch, M., Schulte-Merker, S. (2023) Svep1 is a binding ligand of Tie1 and affects specific aspects of facial lymphatic development in a Vegfc-independent manner. eLIFE. 12:
Morgan, K.J., Doggett, K., Geng, F., Mieruszynski, S., Whitehead, L., Smith, K.A., Hogan, B.M., Simons, C., Baillie, G.J., Molania, R., Papenfuss, A.T., Hall, T.E., Ober, E.A., Stainier, D.Y.R., Gong, Z., Heath, J.K. (2023) ahctf1 and kras mutations combine to amplify oncogenic stress and restrict liver overgrowth in a zebrafish model of hepatocellular carcinoma. eLIFE. 12:
Juan, T., Ribeiro da Silva, A., Cardoso, B., Lim, S., Charteau, V., Stainier, D.Y.R. (2023) Multiple pkd and piezo gene family members are required for atrioventricular valve formation. Nature communications. 14:214214
Nakajima, H., Ishikawa, H., Yamamoto, T., Chiba, A., Fukui, H., Sako, K., Fukumoto, M., Mattonet, K., Kwon, H.B., Hui, S.P., Dobreva, G.D., Kikuchi, K., Helker, C.S.M., Stainier, D.Y.R., Mochizuki, N. (2023) Endoderm-derived islet1-expressing cells differentiate into endothelial cells to function as the vascular HSPC niche in zebrafish. Developmental Cell. 58(3):224-238.e7
Bowman, K.E.R., Ahne, L., O'Brien, L., Vander Mause, E.R., Lu, P., Wallis, B., Evason, K.J., Lim, C.S. (2022) p53-Bad* Fusion Gene Therapy Induces Apoptosis In Vitro and Reduces Zebrafish Tumor Burden in Hepatocellular Carcinoma. Molecular pharmaceutics. 20(1):331-340
Cardeira-da-Silva, J., Bensimon-Brito, A., Tarasco, M., Brandão, A.S., Rosa, J.T., Borbinha, J., Almeida, P.J., Jacinto, A., Cancela, M.L., Gavaia, P.J., Stainier, D.Y.R., Laizé, V. (2022) Fin ray branching is defined by TRAP+ osteolytic tubules in zebrafish. Proceedings of the National Academy of Sciences of the United States of America. 119:e2209231119e2209231119
Jiang, Z., El-Brolosy, M.A., Serobyan, V., Welker, J.M., Retzer, N., Dooley, C.M., Jakutis, G., Juan, T., Fukuda, N., Maischein, H.M., Balciunas, D., Stainier, D.Y.R. (2022) Parental mutations influence wild-type offspring via transcriptional adaptation. Science advances. 8:eabj2029eabj2029
Saraswathy, V.M., Zhou, L., McAdow, A.R., Burris, B., Dogra, D., Reischauer, S., Mokalled, M.H. (2022) Myostatin is a negative regulator of adult neurogenesis after spinal cord injury in zebrafish. Cell Reports. 41:111705111705
Boezio, G.L.M., Zhao, S., Gollin, J., Priya, R., Mansingh, S., Guenther, S., Fukuda, N., Gunawan, F., Stainier, D.Y.R. (2022) The developing epicardium regulates cardiac chamber morphogenesis by promoting cardiomyocyte growth. Disease models & mechanisms. 16(5):
Mattonet, K., Riemslagh, F.W., Guenther, S., Prummel, K.D., Kesavan, G., Hans, S., Ebersberger, I., Brand, M., Burger, A., Reischauer, S., Mosimann, C., Stainier, D.Y.R. (2022) Endothelial versus pronephron fate decision is modulated by the transcription factors Cloche/Npas4l, Tal1, and Lmo2. Science advances. 8:eabn2082
Ellis, J.L., Evason, K.J., Zhang, C., Fourman, M.N., Liu, J., Ninov, N., Delous, M., Vanhollebeke, B., Fiddes, I., Otis, J.P., Houvras, Y., Farber, S.A., Xu, X., Lin, X., Stainier, D.Y.R., Yin, C. (2022) A missense mutation in the proprotein convertase gene furinb causes hepatic cystogenesis during liver development in zebrafish. Hepatology communications. 6(11):3083-3097
Hu, B., Lelek, S., Spanjaard, B., El-Sammak, H., Simões, M.G., Mintcheva, J., Aliee, H., Schäfer, R., Meyer, A.M., Theis, F., Stainier, D.Y.R., Panáková, D., Junker, J.P. (2022) Origin and function of activated fibroblast states during zebrafish heart regeneration. Nature Genetics. 54(8):1227-1237
Tarasco, M., Gavaia, P.J., Bensimon-Brito, A., Cordelières, F.P., Santos, T., Martins, G., de Castro, D.T., Silva, N., Cabrita, E., Bebianno, M.J., Stainier, D.Y.R., Cancela, M.L., Laizé, V. (2022) Effects of pristine or contaminated polyethylene microplastics on zebrafish development. Chemosphere. 303(Pt 3):135198
America, M., Bostaille, N., Eubelen, M., Martin, M., Stainier, D.Y.R., Vanhollebeke, B. (2022) An integrated model for Gpr124 function in Wnt7a/b signaling among vertebrates. Cell Reports. 39:110902
Yang, Y.H.C., Briant, L.J.B., Raab, C.A., Mullapudi, S.T., Maischein, H.M., Kawakami, K., Stainier, D.Y.R. (2022) Innervation modulates the functional connectivity between pancreatic endocrine cells. eLIFE. 11:
Coxam, B., Collins, R.T., Hußmann, M., Huisman, Y., Meier, K., Jung, S., Bartels-Klein, E., Szymborska, A., Finotto, L., Helker, C.S.M., Stainier, D.Y.R., Schulte-Merker, S., Gerhardt, H. (2022) Svep1 stabilizes developmental vascular anastomosis in reduced flow conditions. Development (Cambridge, England). 149(6):
El-Sammak, H., Yang, B., Guenther, S., Chen, W., Marín-Juez, R., Stainier, D.Y.R. (2022) A Vegfc-Emilin2a-Cxcl8a Signaling Axis Required for Zebrafish Cardiac Regeneration. Circulation research. 130(7):1014-1029
Qi, J., Rittershaus, A., Priya, R., Mansingh, S., Stainier, D.Y.R., Helker, C.S.M. (2022) Apelin signaling dependent endocardial protrusions promote cardiac trabeculation in zebrafish. eLIFE. 11:
Carril Pardo, C.A., Massoz, L., Dupont, M.A., Bergemann, D., Bourdouxhe, J., Lavergne, A., Tarifeño-Saldivia, E., Helker, C.S., Stainier, D.Y., Peers, B., Voz, M.M., Manfroid, I. (2022) A δ-cell subpopulation with pro-β cell identity contributes to efficient age-independent recovery in a zebrafish diabetes model. eLIFE. 11:
McGarvey, A.C., Kopp, W., Vučićević, D., Mattonet, K., Kempfer, R., Hirsekorn, A., Bilić, I., Gil, M., Trinks, A., Merks, A.M., Panáková, D., Pombo, A., Akalin, A., Junker, J.P., Stainier, D.Y.R., Garfield, D., Ohler, U., Lacadie, S.A. (2022) Single-cell-resolved dynamics of chromatin architecture delineate cell and regulatory states in zebrafish embryos. Cell genomics. 2:100083100083
Torregrosa-Carrión, R., Piñeiro-Sabarís, R., Siguero-Álvarez, M., Grego-Bessa, J., Luna-Zurita, L., Fernandes, V.S., MacGrogan, D., Stainier, D.Y.R., de la Pompa, J.L. (2021) Adhesion G protein-coupled receptor Gpr126/Adgrg6 is essential for placental development. Science advances. 7:eabj5445
Bensimon-Brito, A., Boezio, G.L.M., Cardeira-da-Silva, J., Wietelmann, A., Ramkumar, S., Lundegaard, P.R., Helker, C.S.M., Ramadass, R., Piesker, J., Nauerth, A., Mueller, C., Stainier, D.Y.R. (2021) Integration of multiple imaging platforms to uncover cardiovascular defects in adult zebrafish. Cardiovascular research. 118(12):2665-2687
Tarasco, M., Gavaia, P.J., Bensimon-Brito, A., Cardeira-da-Silva, J., Ramkumar, S., Cordelières, F.P., Günther, S., Bebianno, M.J., Stainier, D.Y.R., Cancela, M.L., Laizé, V. (2021) New insights into benzo[⍺]pyrene osteotoxicity in zebrafish. Ecotoxicology and environmental safety. 226:112838
Allanki, S., Strilic, B., Scheinberger, L., Onderwater, Y.L., Marks, A., Günther, S., Preussner, J., Kikhi, K., Looso, M., Stainier, D.Y.R., Reischauer, S. (2021) Interleukin-11 signaling promotes cellular reprogramming and limits fibrotic scarring during tissue regeneration. Science advances. 7:eabg6497
Liu, K.C., Villasenor, A., Bertuzzi, M., Schmitner, N., Radros, N., Rautio, L., Mattonet, K., Matsuoka, R.L., Reischauer, S., Stainier, D.Y., Andersson, O. (2021) Insulin-producing β-cells regenerate ectopically from a mesodermal origin under the perturbation of hemato-endothelial specification. eLIFE. 10:
Sarvari, P., Rasouli, S.J., Allanki, S., Stone, O.A., Sokol, A., Graumann, J., Stainier, D.Y.R. (2021) The E3 ubiquitin-protein ligase Rbx1 regulates cardiac wall morphogenesis in zebrafish. Developmental Biology. 480:1-12
Ando, K., Shih, Y.H., Ebarasi, L., Grosse, A., Portman, D., Chiba, A., Mattonet, K., Gerri, C., Stainier, D.Y.R., Mochizuki, N., Fukuhara, S., Betsholtz, C., Lawson, N.D. (2021) Conserved and context-dependent roles for pdgfrb signaling during zebrafish vascular mural cell development. Developmental Biology. 479:11-22
Gentile, A., Bensimon-Brito, A., Priya, R., Maischein, H.M., Piesker, J., Guenther, S., Gunawan, F., Stainier, D.Y. (2021) The EMT transcription factor Snai1 maintains myocardial wall integrity by repressing intermediate filament gene expression. eLIFE. 10:
Boskovic, S., Marin Juez, R., Stamenkovic, N., Radojkovic, D., Yr Stainier, D., Kojic, S. (2021) The stress responsive gene ankrd1a is dynamically regulated during skeletal muscle development and upregulated following cardiac injury in border zone cardiomyocytes in adult zebrafish. Gene. 792:145725
Tsedeke, A.T., Allanki, S., Gentile, A., Jimenez-Amilburu, V., Rasouli, S.J., Guenther, S., Lai, S.L., Stainier, D.Y.R., Marín-Juez, R. (2021) Cardiomyocyte heterogeneity during zebrafish development and regeneration. Developmental Biology. 476:259-271
Blitz, E., Matsuda, H., Guenther, S., Morikawa, T., Kubota, Y., Zada, D., Lerer-Goldshtein, T., Stainier, D.Y.R., Appelbaum, L. (2021) Thyroid hormones regulate goblet cell differentiation and Fgf19-Fgfr4 signaling. Endocrinology. 162(5):
Mukherjee, D., Wagh, G., Mokalled, M.H., Kontarakis, Z., Dickson, A.L., Rayrikar, A., Günther, S., Poss, K.D., Stainier, D.Y.R., Patra, C. (2020) Ccn2a/Ctgfa is an injury-induced matricellular factor that promotes cardiac regeneration in zebrafish. Development (Cambridge, England). 148(2):
Pak, B., Schmitt, C.E., Choi, W., Kim, J.D., Han, O., Alsiö, J., Jung, D.W., Williams, D.R., Coppieters, W., Stainier, D.Y.R., Jin, S.W. (2020) Analyses of Avascular Mutants Reveal Unique Transcriptomic Signature of Non-conventional Endothelial Cells. Frontiers in cell and developmental biology. 8:589717
Priya, R., Allanki, S., Gentile, A., Mansingh, S., Uribe, V., Maischein, H.M., Stainier, D.Y.R. (2020) Tension heterogeneity directs form and fate to pattern the myocardial wall. Nature. 588(7836):130-134
Boezio, G.L., Bensimon-Brito, A., Piesker, J., Guenther, S., Helker, C.S., Stainier, D.Y. (2020) Endothelial TGF-β signaling instructs smooth muscle cell development in the cardiac outflow tract. eLIFE. 9:
Carlantoni, C., Allanki, S., Kontarakis, Z., Rossi, A., Piesker, J., Günther, S., Stainier, D.Y.R. (2020) Tie1 regulates zebrafish cardiac morphogenesis through tolloid-like 1 expression. Developmental Biology. 469:54-67
Helker, C.S., Eberlein, J., Wilhelm, K., Sugino, T., Malchow, J., Schuermann, A., Baumeister, S., Kwon, H.B., Maischein, H.M., Potente, M., Herzog, W., Stainier, D.Y. (2020) Apelin signaling drives vascular endothelial cells towards a pro-angiogenic state. eLIFE. 9:e55589
Jiang, Z., Carlantoni, C., Allanki, S., Ebersberger, I., Stainier, D.Y.R. (2020) Tek/Tie2 is not required for cardiovascular development in zebrafish. Development (Cambridge, England). 147(19):
Fukuda, R., Marín-Juez, R., El-Sammak, H., Beisaw, A., Ramadass, R., Kuenne, C., Guenther, S., Konzer, A., Bhagwat, A.M., Graumann, J., Stainier, D.Y. (2020) Stimulation of glycolysis promotes cardiomyocyte proliferation after injury in adult zebrafish. EMBO reports. 21(8):e49752
Kwon, H.B., Mackie, D.I., Bonnavion, R., Mercier, A.L., Helker, C.S.M., Son, T., Guenter, S., Serafin, D.S., Kim, K.W., Offermanns, S., Caron, K.M., Stainier, D.Y.R. (2020) The Orphan G-Protein Coupled Receptor 182 Is a Negative Regulator of Definitive Hematopoiesis through Leukotriene B4 Signaling. ACS pharmacology & translational science. 3:676-689
Sidhwani, P., Leerberg, D.M., Boezio, G.L.M., Capasso, T.L., Yang, H., Chi, N.C., Roman, B.L., Stainier, D.Y.R., Yelon, D. (2020) Cardiac function modulates endocardial cell dynamics to shape the cardiac outflow tract. Development (Cambridge, England). 147(12):
Beisaw, A., Kuenne, C., Günther, S., Dallmann, J., Wu, C.C., Bentsen, M., Looso, M., Stainier, D. (2020) AP-1 Contributes to Chromatin Accessibility to Promote Sarcomere Disassembly and Cardiomyocyte Protrusion during Zebrafish Heart Regeneration. Circulation research. 126(12):1760-1778
Gunawan, F., Gentile, A., Gauvrit, S., Stainier, D., Bensimon-Brito, A. (2020) Nfatc1 Promotes Interstitial Cell Formation During Cardiac Valve Development in Zebrafish. Circulation research. 126(8):968-984
Kotiyal, S., Fulbright, A., O'Brien, L.K., Evason, K.J. (2020) Quantifying Liver Size in Larval Zebrafish Using Brightfield Microscopy. Journal of visualized experiments : JoVE. (156):
Bagwell, J., Norman, J., Ellis, K.L., Peskin, B., Hwang, J., Ge, X., Nguyen, S., McMenamin, S.K., Stainier, D.Y., Bagnat, M. (2020) Notochord vacuoles absorb compressive bone growth during zebrafish spine formation. eLIFE. 9:
Serobyan, V., Kontarakis, Z., El-Brolosy, M.A., Welker, J.M., Tolstenkov, O., Saadeldein, A.M., Retzer, N., Gottschalk, A., Wehman, A.M., Stainier, D.Y. (2020) Transcriptional adaptation in Caenorhabditis elegans. eLIFE. 9:
Shah, G., Thierbach, K., Schmid, B., Waschke, J., Reade, A., Hlawitschka, M., Roeder, I., Scherf, N., Huisken, J. (2019) Multi-scale imaging and analysis identify pan-embryo cell dynamics of germlayer formation in zebrafish. Nature communications. 10:5753
Bensimon-Brito, A., Ramkumar, S., Boezio, G.L.M., Guenther, S., Kuenne, C., Helker, C.S.M., Sánchez-Iranzo, H., Iloska, D., Piesker, J., Pullamsetti, S., Mercader, N., Beis, D., Stainier, D.Y.R. (2019) TGF-β Signaling Promotes Tissue Formation during Cardiac Valve Regeneration in Adult Zebrafish. Developmental Cell. 52(1):9-20.e7
Marín-Juez, R., El-Sammak, H., Helker, C.S.M., Kamezaki, A., Mullapuli, S.T., Bibli, S.I., Foglia, M.J., Fleming, I., Poss, K.D., Stainier, D.Y.R. (2019) Coronary Revascularization During Heart Regeneration Is Regulated by Epicardial and Endocardial Cues and Forms a Scaffold for Cardiomyocyte Repopulation. Developmental Cell. 51:503-515.e4
Collins, M.M., Ahlberg, G., Hansen, C.V., Guenther, S., Marín-Juez, R., Sokol, A.M., El-Sammak, H., Piesker, J., Hellsten, Y., Olesen, M.S., Stainier, D.Y.R., Lundegaard, P.R. (2019) Early sarcomere and metabolic defects in a zebrafish pitx2c cardiac arrhythmia model. Proceedings of the National Academy of Sciences of the United States of America. 116(48):24115-24121
Gancz, D., Raftrey, B.C., Perlmoter, G., Marín-Juez, R., Semo, J., Matsuoka, R.L., Karra, R., Raviv, H., Moshe, N., Addadi, Y., Golani, O., Poss, K.D., Red-Horse, K., Stainier, D.Y., Yaniv, K. (2019) Distinct origins and molecular mechanisms contribute to lymphatic formation during cardiac growth and regeneration. eLIFE. 8:
Villasenor, A., Gauvrit, S., Collins, M.M., Maischein, H.M., Stainier, D.Y.R. (2019) Hhex regulates the specification and growth of the hepatopancreatic ductal system. Developmental Biology. 458(2):228-236
Mullapudi, S.T., Boezio, G.L.M., Rossi, A., Marass, M., Matsuoka, R.L., Matsuda, H., Helker, C.S.M., Yang, Y.H.C., Stainier, D.Y.R. (2019) Disruption of the pancreatic vasculature in zebrafish affects islet architecture and function. Development (Cambridge, England). 146(21):
Fukuda, R., Gunawan, F., Ramadass, R., Beisaw, A., Konzer, A., Mullapudi, S.T., Gentile, A., Maischein, H.M., Graumann, J., Stainier, D.Y.R. (2019) Mechanical Forces Regulate Cardiomyocyte Myofilament Maturation via the VCL-SSH1-CFL Axis. Developmental Cell. 51(1):62-77.e5
Lai, J.K.H., Gagalova, K.K., Kuenne, C., El-Brolosy, M.A., Stainier, D.Y.R. (2019) Induction of interferon-stimulated genes and cellular stress pathways by morpholinos in zebrafish. Developmental Biology. 454(1):21-28
Helker, C.S.M., Mullapudi, S.T., Mueller, L.M., Preussner, J., Tunaru, S., Skog, O., Kwon, H.B., Kreuder, F., Lancman, J.J., Bonnavion, R., Dong, P.D.S., Looso, M., Offermanns, S., Korsgren, O., Spagnoli, F.M., Stainier, D.Y.R. (2019) Whole organism small molecule screen identifies novel regulators of pancreatic endocrine development. Development (Cambridge, England). 146(14):
Marass, M., Beisaw, A., Gerri, C., Luzzani, F., Fukuda, N., Günther, S., Kuenne, C., Reischauer, S., Stainier, D.Y.R. (2019) Genome-wide strategies reveal target genes of Npas4l associated with vascular development in zebrafish. Development (Cambridge, England). 146(11):
Jiménez-Amilburu, V., Stainier, D.Y.R. (2019) The transmembrane protein Crb2a regulates cardiomyocyte apicobasal polarity and adhesion in zebrafish. Development (Cambridge, England). 146(9):
El-Brolosy, M.A., Kontarakis, Z., Rossi, A., Kuenne, C., Günther, S., Fukuda, N., Kikhi, K., Boezio, G.L.M., Takacs, C.M., Lai, S.L., Fukuda, R., Gerri, C., Giraldez, A.J., Stainier, D.Y.R. (2019) Genetic compensation triggered by mutant mRNA degradation. Nature. 568(7751):193-197
Sokol, A.M., Uszczynska-Ratajczak, B., Collins, M.M., Bazala, M., Topf, U., Lundegaard, P.R., Sugunan, S., Guenther, S., Kuenne, C., Graumann, J., Chan, S.S.L., Stainier, D.Y.R., Chacinska, A. (2019) Correction: Loss of the Mia40a oxidoreductase leads to hepato-pancreatic insufficiency in zebrafish. PLoS Genetics. 15:e1007972
Ando, K., Wang, W., Peng, D., Chiba, A., Lagendijk, A., Barske, L., Crump, J.G., Stainier, D.Y.R., Lendahl, U., Koltowska, K., Hogan, B.M., Fukuhara, S., Mochizuki, N., Betsholtz, C. (2019) Peri-arterial specification of vascular mural cells from naïve mesenchyme requires Notch signaling. Development (Cambridge, England). 146(2):
Chaturantabut, S., Shwartz, A., Evason, K.J., Cox, A.G., Labella, K., Schepers, A.G., Yang, S., Aravena, M., Houvras, Y., Mancio-Silva, L., Romano, S., Gorelick, D.A., Cohen, D.E., Zon, L.I., Bhatia, S.N., North, T.E., Goessling, W. (2019) Estrogen Activation of G protein-coupled Estrogen Receptor 1 Regulates Phosphoinositide 3-kinase and mTOR Signaling to Promote Liver Growth in Zebrafish and Proliferation of Human Hepatocytes. Gastroenterology. 156(6):1788-1804.e13
Gunawan, F., Gentile, A., Fukuda, R., Tsedeke, A.T., Jiménez-Amilburu, V., Ramadass, R., Iida, A., Sehara-Fujisawa, A., Stainier, D.Y.R. (2019) Focal adhesions are essential to drive zebrafish heart valve morphogenesis. The Journal of cell biology. 218(3):1039-1054
Rasouli, S.J., El-Brolosy, M., Tsedeke, A.T., Bensimon-Brito, A., Ghanbari, P., Maischein, H.M., Kuenne, C., Stainier, D.Y. (2018) The flow responsive transcription factor Klf2 is required for myocardial wall integrity by modulating Fgf signaling. eLIFE. 7:
Lai, S.L., Marín-Juez, R., Stainier, D.Y.R. (2018) Immune responses in cardiac repair and regeneration: a comparative point of view. Cellular and molecular life sciences : CMLS. 76(7):1365-1380
Mullapudi, S.T., Helker, C.S., Boezio, G.L., Maischein, H.M., Sokol, A.M., Guenther, S., Matsuda, H., Kubicek, S., Graumann, J., Yang, Y.H.C., Stainier, D.Y. (2018) Screening for insulin-independent pathways that modulate glucose homeostasis identifies androgen receptor antagonists. eLIFE. 7:
Sokol, A.M., Uszczynska-Ratajczak, B., Collins, M.M., Bazala, M., Topf, U., Lundegaard, P.R., Sugunan, S., Guenther, S., Kuenne, C., Graumann, J., Chan, S.S.L., Stainier, D.Y.R., Chacinska, A. (2018) Loss of the Mia40a oxidoreductase leads to hepato-pancreatic insufficiency in zebrafish. PLoS Genetics. 14:e1007743
Anbalagan, S., Gordon, L., Blechman, J., Matsuoka, R.L., Rajamannar, P., Wircer, E., Biran, J., Reuveny, A., Leshkowitz, D., Stainier, D.Y.R., Levkowitz, G. (2018) Pituicyte Cues Regulate the Development of Permeable Neuro-Vascular Interfaces. Developmental Cell. 47(6):711-726.e5
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Yin, C., Evason, K.J., Maher, J.J., and Stainier, D.Y. (2012) The basic helix-loop-helix transcription factor, heart and neural crest derivatives expressed transcript 2, marks hepatic stellate cells in zebrafish: Analysis of stellate cell entry into the developing liver. Hepatology (Baltimore, Md.). 56(5):1958-1970
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Schaub, M., Nussbaum, J., Verkade, H., Ober, E.A., Stainier, D.Y., and Sakaguchi, T.F. (2012) Mutation of zebrafish Snapc4 is associated with loss of the intrahepatic biliary network. Developmental Biology. 363(1):128-137
Balczerski, B., Matsutani, M., Castillo, P., Osborne, N., Stainier, D.Y., and Crump, J.G. (2012) Analysis of Sphingosine-1-phosphate signaling mutants reveals endodermal requirements for the growth but not dorsoventral patterning of jaw skeletal precursors. Developmental Biology. 361(2):230-241
Hugo, S.E., Cruz-Garcia, L., Karanth, S., Anderson, R.M., Stainier, D.Y., and Schlegel, A. (2012) A monocarboxylate transporter required for hepatocyte secretion of ketone bodies during fasting. Genes & Development. 26(3):282-93
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Delous, M., Yin, C., Shin, D., Ninov, N., Debrito Carten, J., Pan, L., Ma, T.P., Farber, S.A., Moens, C.B., and Stainier, D.Y. (2012) sox9b Is a Key Regulator of Pancreaticobiliary Ductal System Development. PLoS Genetics. 8(6):e1002754
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Chatani, M., Takano, Y., and Kudo, A. (2011) Osteoclasts in bone modeling, as revealed by in vivo imaging, are essential for organogenesis in fish. Developmental Biology. 360(1):96-109
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Berdougo, E., Coleman, H., Lee, D.H., Stainier, D.Y., and Yelon, D. (2003) Mutation of weak atrium/atrial myosin heavy chain disrupts atrial function and influences ventricular morphogenesis in zebrafish. Development (Cambridge, England). 130(24):6121-6129
Horne-Badovinac, S., Rebagliati, M., and Stainier, D.Y. (2003) A cellular framework for gut-looping morphogenesis in zebrafish. Science (New York, N.Y.). 302(5645):662-665
Trinh, L.A., Meyer, D., and Stainier, D.Y. (2003) The Mix family homeodomain gene bonnie and clyde functions with other components of the Nodal signaling pathway to regulate neural patterning in zebrafish. Development (Cambridge, England). 130(20):4989-4998
Field, H.A., Dong, P.D., Beis, D., and Stainier, D.Y. (2003) Formation of the digestive system in zebrafish. II. Pancreas morphogenesis. Developmental Biology. 261(1):197-208
Tidyman, W.E., Sehnert, A.J., Huq, A., Agard, J., Deegan, F., Stainier, D.Y., and Ordahl, C.P. (2003) In vivo regulation of the chicken cardiac troponin T gene promoter in zebrafish embryos. Developmental Dynamics : an official publication of the American Association of Anatomists. 227(4):484-496
Miller, C.T., Yelon, D., Stainier, D.Y., and Kimmel, C.B. (2003) Two endothelin 1 effectors, hand2 and bapx1, pattern ventral pharyngeal cartilage and the jaw joint. Development (Cambridge, England). 130(7):1353-1365
Field, H.A., Ober, E.A., Roeser, T., and Stainier, D.Y. (2003) Formation of the digestive system in zebrafish. I. Liver morphogenesis. Developmental Biology. 253(2):279-290
Ober, E.A., Field, H.A., and Stainier, D.Y. (2003) From endoderm formation to liver and pancreas development in zebrafish. Mechanisms of Development. 120(1):5-18
Scott, I.C. and Stainier, D.Y. (2002) Fishing out a new heart. Science (New York, N.Y.). 298(5601):2141-2142
Yelon, D. and Stainier, D.Y.R. (2002) Pattern formation: swimming in retinoic acid. Current biology : CB. 12(2):R707-709
Sehnert, A.J. and Stainier, D.Y.R. (2002) A window to the heart: can zebrafish mutants help us understand heart disease in humans?. Trends in genetics : TIG. 18:10491-10494
Skromne, I., Kikuchi, Y., Stainier, D., and Ho, R.K. (2002) The para-hox gene caudal is required for tail formation in zebrafish. Developmental Biology. 247(2):472-473
Sehnert, A.J., Huq, A., Weinstein, B.M., Walker, C., Fishman, M., and Stainier, D.Y. (2002) Cardiac troponin T is essential in sarcomere assembly and cardiac contractility. Nature Genetics. 31(1):106-110
Stainier, D.Y.R. (2002) A glimpse into the molecular entrails of endoderm formation. Genes & Development. 16(8):893-907
Keegan, B.R., Feldman, J.L., Lee, D.H., Koos, D.S., Ho, R.K., Stainier, D.Y., and Yelon, D. (2002) The elongation factors Pandora/Spt6 and Foggy/Spt5 promote transcription in the zebrafish embryo. Development (Cambridge, England). 129(7):1623-1632
Stainier, D.Y., Beis, D., Jungblut, B., and Bartman, T. (2002) Endocardial cushion formation in zebrafish. Cold Spring Harbor symposia on quantitative biology. 67:49-56
Warga, R.M. and Stainier, D.Y.R. (2002) The guts of endoderm formation. Results and problems in cell differentiation. 40:28-47
Horne-Badovinac, S., Lin, D., Waldron, S., Schwarz, M, Mbamalu, G., Pawson, T., Jan, Y.-N., Stainier, D.Y.R., and Abdelilah-Seyfried, S. (2001) Positional cloning of heart and soul reveals multiple roles for PKCl in zebrafish organogenesis. Current biology : CB. 11(19):1492-1502
Walsh, E.C. and Stainier, D.Y. (2001) UDP-glucose dehydrogenase required for cardiac valve formation in zebrafish. Science (New York, N.Y.). 293(5535):1670-1673
Kikuchi, Y., Agathon, A., Alexander, J., Thisse, C., Waldron, S., Yelon, D., Thisse, B., and Stainier, D.Y. (2001) casanova encodes a novel Sox-related protein necessary and sufficient for early endoderm formation in zebrafish. Genes & Development. 15(12):1493-1505
Reiter, J.F., Verkade, H., and Stainier, D.Y.R. (2001) Bmp2b and Oep promote early myocardial differentiation through their regulation of gata5. Developmental Biology. 234(2):330-338
Reiter, J.F., Kikuchi, Y., and Stainier, D.Y. (2001) Multiple roles for Gata5 in zebrafish endoderm formation. Development (Cambridge, England). 128(1):125-135
Stainier, D.Y.R. (2001) Zebrafish genetics and vertebrate heart formation. Nature reviews. Genetics. 2:39-48
Ehnert, A.J., Huq, A., Tidyman, W., and Stainier, D.Y.R. (2000) A cis-acting element critical for cardiac troponin T expression is revealed by the silent heart mutation in zebrafish. Circulation. 102(18):1144
Liao, W., Ho, C.Y., Yan, Y.L., Postlethwait, J., and Stainier, D.Y.R. (2000) Hhex and Scl function in parallel to regulate early endothelial and blood differentiation in zebrafish. Development (Cambridge, England). 127(20):4303-4313
Motoike, T., Loughna, S., Perens, E., Roman, B.L., Liao, W., Chau, T.C., Richardson, C.D., Kawate, T., Kuno, J., Weinstein, B.M., Stainier, D.Y., and Sato, T.N. (2000) Universal GFP reporter for the study of vascular development. Genesis (New York, N.Y. : 2000). 28(2):75-81
Kupperman, E., An, S., Osborne, N., Waldron, S., and Stainier, D.Y. (2000) A sphingosine-1-phosphate receptor regulates cell migration during vertebrate heart development. Nature. 406(6792):192-195
Yelon, D., Ticho, B., Halpern, M.E., Ruvinsky, I., Ho, R.K., Silver, L.M., and Stainier, D.Y. (2000) The bHLH transcription factor Hand2 plays parallel roles in zebrafish heart and pectoral fin development. Development (Cambridge, England). 127(12):2573-2582
Kikuchi, Y., Trinh, L.A., Reiter, J.F., Alexander, J., Yelon, D., and Stainier, D.Y.R. (2000) The zebrafish bonnie and clyde gene encodes a Mix family homeodomain protein that regulates the generation of endodermal precursors. Genes & Development. 14(10):1279-1289
Griffin, K.J., Stoller, J., Gibson, M., Chen, S., Yelon, D., Stainier, D.Y., and Kimelman, D. (2000) A conserved role for H15-related T-Box transcription factors in zebrafish and Drosophila heart formation. Developmental Biology. 218(2):235-247
Reifers, F., Walsh, E.C., Léger, S., Stainier, D.Y.R., and Brand, M. (2000) Induction and differentiation of the zebrafish heart requires fibroblast growth factor 8 (fgf8/acerebellar). Development (Cambridge, England). 127(2):225-235
Alexander, J., Rothenberg, M., Henry, G.L., and Stainier, D.Y.R. (1999) casanova plays an early and essential role in endoderm formation in zebrafish. Developmental Biology. 215(2):343-357
Reiter, J.F., Alexander, J., Rodaway, A., Yelon, D., Patient, R., Holder, N., and Stainier, D.Y. (1999) Gata5 is required for the development of the heart and endoderm in zebrafish. Genes & Development. 13(22):2983-2995
Alexander, J. and Stainier, D.Y. (1999) A molecular pathway leading to endoderm formation in zebrafish. Current biology : CB. 9(20):1147-1157
Ho, C.Y., Houart, C., Wilson, S.W., and Stainier, D.Y. (1999) A role for the extraembryonic yolk syncytial layer in patterning the zebrafish embryo suggested by properties of the hex gene. Current biology : CB. 9(19):1131-1134
Yelon, D., Horne, S.A., and Stainier, D.Y.R. (1999) Restricted expression of cardiac myosin genes reveals regulated aspects of heart tube assembly in zebrafish. Developmental Biology. 214(1):23-37
Parker, L. and Stainier, D.Y. (1999) Cell-autonomous and non-autonomous requirements for the zebrafish gene cloche in hematopoiesis. Development (Cambridge, England). 126(12):2643-2651
Yelon, D. and Stainier, D.Y. (1999) Patterning during organogenesis: genetic analysis of cardiac chamber formation. Seminars in cell & developmental biology. 10(2):93-98
Parker, L.H., Zon, L.I., and Stainier, D.Y. (1999) Vascular and blood gene expression. In The Zebrafish: Biology. H.W. Detrich, L.I. Zon, and M. Westerfield, eds. Methods Cell Biol.. 59:313-336
Karlovich, C.A., John, R.M., Ramirez, L., Stainier, D.Y.R., and Myers, R.M. (1998) Characterization of the Huntington's disease (HD) gene homolog in zebrafish Danio rerio. Gene. 217:117-125
Reifers, F., Bohli, H., Walsh, E.C., Crossley, P.H., Stainier, D.Y., and Brand, M. (1998) Fgf8 is mutated in zebrafish acerebellar (ace) mutants and is required for maintenance of midbrain-hindbrain boundary development and somitogenesis. Development (Cambridge, England). 125:2381-2395
Lyons, M.S., Bell, B., Stainier, D., and Peters, K.G. (1998) Isolation of the zebrafish homologues for the tie-1 and tie-2 endothelium-specific receptor tyrosine kinases. Developmental Dynamics : an official publication of the American Association of Anatomists. 212(1):133-140
Haun, C., Alexander, J., Stainier, D.Y., and Okkema, P.G. (1998) Rescue of Caenorhabditis elegans pharyngeal development by a vertebrate heart specification gene. Proceedings of the National Academy of Sciences of the United States of America. 95:5072-5075
Alexander, J., Stainier, D.Y.R., and Yelon, D. (1998) Screening mosaic F1 females for mutations affecting zebrafish heart induction and patterning. Developmental genetics. 22:288-299
Fishman, M., D.Y. Stainier, R. Breitbart, and M. Westerfield (1997) Zebrafish: Genetic and embryological methods in a transparent vertebrate embryo. Methods in cell biology. 52:67-82
Liao, W., Bisgrove, B.W., Sawyer, H., Hug, B., Bell, B., Peters, K., Grunwald, D.J., and Stainier, D.Y.R. (1997) The zebrafish gene cloche acts upstream of a flk-1 homologue to regulate endothelial cell differentiation. Development (Cambridge, England). 124(2):381-389
Abdelilah, S., Mountcastle-Shah, E., Harvey, M., Solnica-Krezel, L., Schier, A.F., Stemple, D.L., Malicki, J., Neuhauss, S.C., Zwartkruis, F., Stainier, D.Y., Rangini, Z., and Driever, W. (1996) Mutations affecting neural survival in the zebrafish Danio rerio. Development (Cambridge, England). 123:217-227
Driever, W., Solnica-Krezel, L., Schier, A.F., Neuhauss, S.C., Malicki, J., Stemple, D.L., Stainier, D.Y., Zwartkruis, F., Abdelilah, S., Rangini, Z., Belak, J., and Boggs, C. (1996) A genetic screen for mutations affecting embryogenesis in zebrafish. Development (Cambridge, England). 123:37-46
Malicki, J., Neuhauss, S.C., Schier, A.F., Solnica-Krezel, L., Stemple, D.L., Stainier, D.Y., Abdelilah, S., Zwartkruis, F., Rangini, Z., and Driever, W. (1996) Mutations affecting development of the zebrafish retina. Development (Cambridge, England). 123:263-273
Malicki, J., Schier, A.F., Solnica-Krezel, L., Stemple, D.L., Neuhauss, S.C., Stainier, D.Y., Abdelilah, S., Rangini, Z., Zwartkruis, F., and Driever, W. (1996) Mutations affecting development of the zebrafish ear. Development (Cambridge, England). 123:275-283
Neuhauss, S.C., Solnica-Krezel, L., Schier, A.F., Zwartkruis, F., Stemple, D.L., Malicki, J., Abdelilah, S., Stainier, D.Y., and Driever, W. (1996) Mutations affecting craniofacial development in zebrafish. Development (Cambridge, England). 123:357-367
Schier, A.F., Neuhauss, S.C., Harvey, M., Malicki, J., Solnica-Krezel, L., Stainier, D.Y., Zwartkruis, F., Abdelilah, S., Stemple, D.L., Rangini, Z., Yang, H., and Driever, W. (1996) Mutations affecting the development of the embryonic zebrafish brain. Development (Cambridge, England). 123:165-178
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Weinstein, B.M., Schier, A.F., Abdelilah, S., Malicki, J., Solnica-Krezel, L., Stemple, D.L., Stainier, D.Y., Zwartkruis, F., Driever, W., and Fishman, M.C. (1996) Hematopoietic mutations in the zebrafish. Development (Cambridge, England). 123:303-309
Ticho, B.S., Stainier, D.Y.R., Fishman, M.C., and Breitbart, R.E. (1996) Three zebrafish MEF2 genes delineate somitic and cardiac muscle development in wild-type and mutant embryos. Mechanisms of Development. 59(2):205-218
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Lee, R.K.K., Stainier, D.Y.R., Weinstein, B.M., and Fishman, M.C. (1994) Cardiovascular development in the zebrafish. II. Endocardial progenitors are sequestered within the heart field. Development (Cambridge, England). 120:3361-3366
Abdelilah, S., Solnica-Krezel, L., Stainier, D.Y.R., and Driever, W. (1994) Implications for dorsoventral axis determination from the zebrafish mutation janus. Nature. 370:468-471
Fishman, M.C. and Stainier, D.Y.R. (1994) Cardiovascular development: prospects for a genetic approach. Circulation research. 74:757-763
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