Didier Y R Stainier

Summary

Affiliation: University of California
Country: USA

Publications

  1. ncbi The elongation factors Pandora/Spt6 and Foggy/Spt5 promote transcription in the zebrafish embryo
    Brian R Keegan
    Developmental Genetics Program and Department of Cell Biology, Skirball Institute of Biomolecular Medicine, New York University School of Medicine, New York, NY, USA
    Development 129:1623-32. 2002
  2. ncbi Fgf10 regulates hepatopancreatic ductal system patterning and differentiation
    P Duc Si Dong
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, and the Diabetes Center, University of California, San Francisco, 1550 Fourth Street, San Francisco, California 94158, USA
    Nat Genet 39:397-402. 2007
  3. pmc Hand2 regulates extracellular matrix remodeling essential for gut-looping morphogenesis in zebrafish
    Chunyue Yin
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics, and Human Genetics, Cardiovascular Research Institute, Liver Center, University of California, San Francisco, San Francisco, CA 94158, USA
    Dev Cell 18:973-84. 2010
  4. pmc Graded levels of Ptf1a differentially regulate endocrine and exocrine fates in the developing pancreas
    P Duc Si Dong
    Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, California 94158, USA
    Genes Dev 22:1445-50. 2008
  5. pmc Multiple roles for Med12 in vertebrate endoderm development
    Chong Hyun Shin
    Department of Biochemistry and Biophysics, Liver Center, University of California, San Francisco, CA 94158, USA
    Dev Biol 317:467-79. 2008
  6. pmc Tbx5 and Bmp signaling are essential for proepicardium specification in zebrafish
    Jiandong Liu
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, Cardiovascular Research Institute, and Liver Center, University of California, San Francisco, CA 94158, USA
    Circ Res 106:1818-28. 2010
  7. ncbi The g protein-coupled receptor agtrl1b regulates early development of myocardial progenitors
    Ian C Scott
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, and Cardiovascular Research Institute, University of California, San Francisco, 1550 4th Street, San Francisco, CA 94158, USA
    Dev Cell 12:403-13. 2007
  8. pmc Restriction of hepatic competence by Fgf signaling
    Donghun Shin
    Department of Biochemistry and Biophysics, Liver Center, Institute for Regeneration Medicine, University of California, San Francisco, CA 94158, USA
    Development 138:1339-48. 2011
  9. pmc Cardiac conduction is required to preserve cardiac chamber morphology
    Neil C Chi
    Departments of Biochemistry and Biophysics, Cardiovascular Research Institute, University of California, San Francisco, CA 94158, USA
    Proc Natl Acad Sci U S A 107:14662-7. 2010
  10. pmc A transgene-assisted genetic screen identifies essential regulators of vascular development in vertebrate embryos
    Suk Won Jin
    Department of Biochemistry and Biophysics, Genetics and Human Genetics, and Cardiovascular Research Institute, University of California San Francisco, CA 94158, USA
    Dev Biol 307:29-42. 2007

Detail Information

Publications98

  1. ncbi The elongation factors Pandora/Spt6 and Foggy/Spt5 promote transcription in the zebrafish embryo
    Brian R Keegan
    Developmental Genetics Program and Department of Cell Biology, Skirball Institute of Biomolecular Medicine, New York University School of Medicine, New York, NY, USA
    Development 129:1623-32. 2002
    ..This study provides the first genetic evidence for parallel functions of Spt6 and Spt5 in metazoans and establishes a system for the future analysis of transcription elongation during development...
  2. ncbi Fgf10 regulates hepatopancreatic ductal system patterning and differentiation
    P Duc Si Dong
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, and the Diabetes Center, University of California, San Francisco, 1550 Fourth Street, San Francisco, California 94158, USA
    Nat Genet 39:397-402. 2007
    ..These data shed light onto how the multipotent cells of the foregut endoderm, and subsequently those of the hepatopancreatic duct, are directed toward different organ fates...
  3. pmc Hand2 regulates extracellular matrix remodeling essential for gut-looping morphogenesis in zebrafish
    Chunyue Yin
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics, and Human Genetics, Cardiovascular Research Institute, Liver Center, University of California, San Francisco, San Francisco, CA 94158, USA
    Dev Cell 18:973-84. 2010
    ..Our study reveals an unexpected role for Hand2, a key regulator of cell specification and differentiation, in modulating ECM remodeling during organogenesis...
  4. pmc Graded levels of Ptf1a differentially regulate endocrine and exocrine fates in the developing pancreas
    P Duc Si Dong
    Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, California 94158, USA
    Genes Dev 22:1445-50. 2008
    ..We propose that low levels of Ptf1a promote endocrine fate, whereas high levels repress endocrine fate and promote exocrine fate...
  5. pmc Multiple roles for Med12 in vertebrate endoderm development
    Chong Hyun Shin
    Department of Biochemistry and Biophysics, Liver Center, University of California, San Francisco, CA 94158, USA
    Dev Biol 317:467-79. 2008
    ....
  6. pmc Tbx5 and Bmp signaling are essential for proepicardium specification in zebrafish
    Jiandong Liu
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, Cardiovascular Research Institute, and Liver Center, University of California, San Francisco, CA 94158, USA
    Circ Res 106:1818-28. 2010
    ..Despite the importance of these cells in cardiac development, function and regeneration, the signals required for the specification of the PE remain largely unexplored...
  7. ncbi The g protein-coupled receptor agtrl1b regulates early development of myocardial progenitors
    Ian C Scott
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, and Cardiovascular Research Institute, University of California, San Francisco, 1550 4th Street, San Francisco, CA 94158, USA
    Dev Cell 12:403-13. 2007
    ..These results support a model in which agtrl1b regulates the migration of cells fated to form myocardial progenitors...
  8. pmc Restriction of hepatic competence by Fgf signaling
    Donghun Shin
    Department of Biochemistry and Biophysics, Liver Center, Institute for Regeneration Medicine, University of California, San Francisco, CA 94158, USA
    Development 138:1339-48. 2011
    ..These data provide in vivo evidence that endodermal cells outside the liver-forming region retain hepatic competence and show that an extrinsic signal, Fgf10a, negatively regulates hepatic competence...
  9. pmc Cardiac conduction is required to preserve cardiac chamber morphology
    Neil C Chi
    Departments of Biochemistry and Biophysics, Cardiovascular Research Institute, University of California, San Francisco, CA 94158, USA
    Proc Natl Acad Sci U S A 107:14662-7. 2010
    ..Overall, these in vivo studies indicate that cardiac electrical forces are required to preserve cardiac chamber morphology and may act as a key epigenetic factor in cardiac remodeling...
  10. pmc A transgene-assisted genetic screen identifies essential regulators of vascular development in vertebrate embryos
    Suk Won Jin
    Department of Biochemistry and Biophysics, Genetics and Human Genetics, and Cardiovascular Research Institute, University of California San Francisco, CA 94158, USA
    Dev Biol 307:29-42. 2007
    ..The analysis of the newly defined loci should lead to a greater understanding of vascular development and possibly provide new drug targets to treat the numerous pathologies associated with dysregulated blood vessel growth...
  11. pmc microRNA-138 modulates cardiac patterning during embryonic development
    Sarah U Morton
    Gladstone Institute of Cardiovascular Disease, Department of Pediatrics, University of California, San Francisco, CA 94158, USA
    Proc Natl Acad Sci U S A 105:17830-5. 2008
    ....
  12. ncbi The yolk syncytial layer regulates myocardial migration by influencing extracellular matrix assembly in zebrafish
    Takuya Sakaguchi
    Department of Biochemistry and Biophysics and Programs in Developmental Biology, Genetics and Human Genetics, Cardiovascular Research Institute, University of California, San Francisco, San Francisco, CA 94143 2711, USA
    Development 133:4063-72. 2006
    ..Based on these data, we propose that the extra-embryonic YSL regulates myocardial migration, at least in part by influencing fibronectin expression and subsequent assembly of the extracellular matrix in embryonic tissues...
  13. ncbi Conditional targeted cell ablation in zebrafish: a new tool for regeneration studies
    Silvia Curado
    Department of Biochemistry and Biophysics, Cardiovascular Research Institute, University of California at San Francisco, San Francisco, California 94158 2324, USA
    Dev Dyn 236:1025-35. 2007
    ....
  14. pmc Intra-endodermal interactions are required for pancreatic beta cell induction
    Won Suk Chung
    Department of Biochemistry and Biophysics, and the Diabetes Center, University of California, San Francisco, 1550 4th Street, San Francisco, CA 94158, USA
    Dev Cell 14:582-93. 2008
    ....
  15. pmc Chromatin remodelling complex dosage modulates transcription factor function in heart development
    Jun K Takeuchi
    Gladstone Institute of Cardiovascular Disease, San Francisco, California 94158, USA
    Nat Commun 2:187. 2011
    ....
  16. pmc Arterial-venous segregation by selective cell sprouting: an alternative mode of blood vessel formation
    Shane P Herbert
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, Cardiovascular Research Institute, University of California, San Francisco, CA 94158, USA
    Science 326:294-8. 2009
    ..Thus, directional control of progenitor migration drives arterial-venous segregation and generation of separate parallel vessels from a single precursor vessel, a process essential for vascular development...
  17. pmc Loss of Dnmt1 catalytic activity reveals multiple roles for DNA methylation during pancreas development and regeneration
    Ryan M Anderson
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics, and Human Genetics, Diabetes Center, and Liver Center, University of California, San Francisco, San Francisco, CA 94158 2324, USA
    Dev Biol 334:213-23. 2009
    ..In addition, Dnmt1 may influence the differentiation of pancreatic beta cell progenitors or the reprogramming of cells toward the pancreatic beta cell fate...
  18. pmc Laminin β1a controls distinct steps during the establishment of digestive organ laterality
    Tatiana Hochgreb-Hägele
    Department of Biochemistry and Biophysics, Programs in Developmental and Stem Cell Biology, Genetics and Human Genetics, Liver Center and Diabetes Center, Institute for Regeneration Medicine, University of California, San Francisco, CA 94158, USA
    Development 140:2734-45. 2013
    ..Loss of Lamb1a function also results in aberrant protrusion of LPM cells into the gut. Collectively, our results provide cellular and molecular mechanisms by which extracellular matrix proteins regulate left-right organ morphogenesis...
  19. ncbi Genetic and cellular analyses of zebrafish atrioventricular cushion and valve development
    Dimitris Beis
    Department of Biochemistry and Biophysics and Cardiovascular Research Institute, University of California, San Francisco, San Francisco, CA 94143, USA
    Development 132:4193-204. 2005
    ..This collection of mutants provides a unique set of tools to further our understanding of the genetic basis of cell behavior and differentiation during AV valve development...
  20. pmc Haematopoietic stem cells derive directly from aortic endothelium during development
    Julien Y Bertrand
    Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, California 92093 0380, USA
    Nature 464:108-11. 2010
    ..Finally, using a permanent lineage tracing strategy, we demonstrate that the HSCs generated from haemogenic endothelium are the lineal founders of the adult haematopoietic system...
  21. pmc Foxn4 directly regulates tbx2b expression and atrioventricular canal formation
    Neil C Chi
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, University of California, San Francisco, San Francisco, California 94158, USA
    Genes Dev 22:734-9. 2008
    ..sli/foxn4 is expressed in the AV canal, and its encoded product binds to a highly conserved tbx2 enhancer domain that contains Foxn4- and T-box-binding sites, both necessary to regulate tbx2b expression in the AV canal...
  22. pmc The extracellular domain of Smoothened regulates ciliary localization and is required for high-level Hh signaling
    Pia Aanstad
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics, and Human Genetics, Cardiovascular Research Institute, Diabetes Center, University of California, San Francisco, CA 94158, USA
    Curr Biol 19:1034-9. 2009
    ..These data indicate that the ECD, previously thought to be dispensable for vertebrate Smo function, both regulates Smo ciliary localization and is essential for high-level Hh signaling...
  23. pmc MicroRNA-10 regulates the angiogenic behavior of zebrafish and human endothelial cells by promoting vascular endothelial growth factor signaling
    David Hassel
    Gladstone Institute of Cardiovascular Disease, San Francisco, CA 94158, USA
    Circ Res 111:1421-33. 2012
    ..Various signaling pathways control the behavior of endothelial cells, but their posttranscriptional dose titration by microRNAs is poorly understood...
  24. pmc ETS factors regulate Vegf-dependent arterial specification
    Joshua D Wythe
    Gladstone Institute of Cardiovascular Disease, San Francisco, CA 94158, USA
    Dev Cell 26:45-58. 2013
    ....
  25. pmc In vivo cardiac reprogramming contributes to zebrafish heart regeneration
    Ruilin Zhang
    Department of Medicine, Division of Cardiology, University of California, San Diego, La Jolla, California 92093, USA
    Nature 498:497-501. 2013
    ....
  26. pmc Intrinsic and extrinsic modifiers of the regulative capacity of the developing liver
    Donghun Shin
    Department of Biochemistry and Biophysics, Programs in Developmental and Stem Cell Biology, Genetics and Human Genetics, Institute for Regeneration Medicine, Diabetes Center and Liver Center, University of California, San Francisco, CA 94158, USA
    Mech Dev 128:525-35. 2012
    ..Altogether, these studies reveal that there is more than one way to form a liver, and provide molecular insights into the phenomenon of tissue plasticity...
  27. pmc A Slit/miR-218/Robo regulatory loop is required during heart tube formation in zebrafish
    Jason E Fish
    Gladstone Institute of Cardiovascular Disease, San Francisco, CA 94158, USA
    Development 138:1409-19. 2011
    ..These findings suggest a new paradigm for microRNA-based control of ligand-receptor interactions and provide evidence for a novel signaling pathway regulating vertebrate heart tube assembly...
  28. pmc The mitochondrial import gene tomm22 is specifically required for hepatocyte survival and provides a liver regeneration model
    Silvia Curado
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, University of California San Francisco, 1550 Fourth Street, San Francisco, CA 94158 2324, USA
    Dis Model Mech 3:486-95. 2010
    ..We used this regeneration model to analyze the signaling commonalities between hepatocyte development and regeneration...
  29. pmc Regulation of intrahepatic biliary duct morphogenesis by Claudin 15-like b
    Isla D Cheung
    Department of Biochemistry and Biophysics, Program in Developmental and Stem Cell Biology, and Institute for Regeneration Medicine, University of California, San Francisco, CA 94158, USA
    Dev Biol 361:68-78. 2012
    ..Thus, cldn15lb mutants provide a novel in vivo model to study the role of tight junction proteins in the remodeling of the biliary network and hereditary cholestasis...
  30. ncbi Hand2 regulates epithelial formation during myocardial diferentiation
    Le A Trinh
    Department of Biochemistry and Biophysics Programs in Developmental Biology, Genetics, and Human Genetics, University of California, San Francisco, San Francisco, California 94143, USA
    Curr Biol 15:441-6. 2005
    ..Furthermore, these results demonstrate that two independent processes, the polarizaton of myocardial precursors and the allocation of proper cell number, contribute to myocardial development...
  31. ncbi A mutation in zebrafish hmgcr1b reveals a role for isoprenoids in vertebrate heart-tube formation
    Leonard D'Amico
    Department of Biochemistry and Biophysics, Cardiovascular Research Institute, University of California, San Francisco, 1550 Fourth Street, San Francisco, California 94158, USA
    Curr Biol 17:252-9. 2007
    ..We conclude that protein prenylation, acting downstream of Hmgcr1b and possibly through Ras and, or, Rho signaling, is required for the morphogenesis of the myocardial sheets for formation of the primitive heart tube...
  32. ncbi Cardiac development
    Le A Trinh
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics, and Human Genetics, University of California, San Francisco, California 94143 0448, USA
    Methods Cell Biol 76:455-73. 2004
  33. ncbi Fibronectin regulates epithelial organization during myocardial migration in zebrafish
    L A Trinh
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, University of California, San Francisco, San Francisco, CA 94143, USA
    Dev Cell 6:371-82. 2004
    ..These data suggest that myocardial migration is dependent on epithelial integrity...
  34. pmc 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
    Chunyue Yin
    Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, CA, USA
    Hepatology 56:1958-70. 2012
    ..We also performed a pilot chemical screen and identified two compounds that affect HSC numbers during development...
  35. ncbi Cellular and molecular analyses of vascular tube and lumen formation in zebrafish
    Suk Won Jin
    Department of Biochemistry and Biophysics and Cardiovascular Research Institute, Program in Developmental Biology, University of California San Francisco, 1550 Fourth Street, San Francisco, CA 94143, USA
    Development 132:5199-209. 2005
    ..These studies provide the tools and a cellular framework for the investigation of mutations affecting vasculogenesis in zebrafish...
  36. ncbi Bmp and Fgf signaling are essential for liver specification in zebrafish
    Donghun Shin
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, Liver Center, University of California, San Francisco, CA 94158, USA
    Development 134:2041-50. 2007
    ....
  37. ncbi Mesodermal Wnt2b signalling positively regulates liver specification
    Elke A Ober
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, and the Liver Center, University of California, San Francisco, 1550 Fourth Street, San Francisco, California 94143, USA
    Nature 442:688-91. 2006
    ..Taken together, these data reveal an unexpected positive role for Wnt signalling in liver specification, and indicate a possible common theme for the localized formation of endodermal organs along the gut tube...
  38. pmc The spinster homolog, two of hearts, is required for sphingosine 1-phosphate signaling in zebrafish
    Nick Osborne
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, Cardiovascular Research Institute, University of California, San Francisco, 1550 Fourth Street, San Francisco, CA 94143, USA
    Curr Biol 18:1882-8. 2008
    ..Through gain- and loss-of-function analyses, we show that toh is required for signaling by S1P(2). Further evidence indicates that Toh is involved in the trafficking or cellular release of S1P...
  39. pmc Early myocardial function affects endocardial cushion development in zebrafish
    Thomas Bartman
    Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, USA
    PLoS Biol 2:E129. 2004
    ....
  40. doi Metabolic regulation of cellular plasticity in the pancreas
    Nikolay Ninov
    Department of Biochemistry and Biophysics, Programs in Developmental and Stem Cell Biology, Genetics and Human Genetics, The Diabetes Center, Institute for Regeneration Medicine and Liver Center, University of California, San Francisco, 1550 4 th Street, San Francisco, CA 94158, USA
    Curr Biol 23:1242-50. 2013
    ..Thus, this study reveals critical insights into how cells modulate their plasticity in response to metabolic cues and identifies nutrient-sensitive progenitors in the mature pancreas. ..
  41. pmc Regulation of neurocoel morphogenesis by Pard6 gamma b
    Chantilly Munson
    Department of Biochemistry and Biophysics, Genetics and Human Genetics, University of California, San Francisco, CA 94158, USA
    Dev Biol 324:41-54. 2008
    ..Altogether, these data indicate a previously unappreciated functional diversity and complexity within the vertebrate pard6 gene family...
  42. pmc Endothelial signals modulate hepatocyte apicobasal polarization in zebrafish
    Takuya F Sakaguchi
    Department of Biochemistry and Biophysics, Program in Developmental Biology, University of California, San Francisco, California 94158, USA
    Curr Biol 18:1565-71. 2008
    ....
  43. doi Optogenetic control of cardiac function
    Aristides B Arrenberg
    Department of Physiology, University of California, San Francisco, CA 94158, USA
    Science 330:971-4. 2010
    ..Our studies combine optogenetics and light-sheet microscopy to reveal the emergence of organ function during development...
  44. pmc Suppression of Alk8-mediated Bmp signaling cell-autonomously induces pancreatic beta-cells in zebrafish
    Won Suk Chung
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, The Liver Center, Institute for Regeneration Medicine and Diabetes Center, University of California, San Francisco, CA 94158, USA
    Proc Natl Acad Sci U S A 107:1142-7. 2010
    ..These results provide important unique insight into the intercellular signaling environment necessary for in vivo and in vitro generation of beta-cells...
  45. pmc Adenosine signaling promotes regeneration of pancreatic β cells in vivo
    Olov Andersson
    Department of Biochemistry and Biophysics, Program in Developmental and Stem Cell Biology and Program in Genetics and Human Genetics, Diabetes Center, Institute for Regeneration Medicine and Liver Center, University of California, San Francisco, 1550 4th Street, San Francisco, CA 94158, USA
    Cell Metab 15:885-94. 2012
    ..With this whole-organism screen, we identified components of the adenosine pathway that could be therapeutically targeted for the treatment of diabetes...
  46. pmc Determination of endothelial stalk versus tip cell potential during angiogenesis by H2.0-like homeobox-1
    Shane P Herbert
    Department of Biochemistry and Biophysics, Programs in Developmental and Stem Cell Biology, Genetics and Human Genetics, Cardiovascular Research Institute, University of California, San Francisco, San Francisco, CA 94158, USA
    Curr Biol 22:1789-94. 2012
    ..Hence, Hlx1-mediated maintenance of SC potential regulates angiogenesis, a finding that may have novel implications for sprouting morphogenesis of other tissues...
  47. pmc miR-126 regulates angiogenic signaling and vascular integrity
    Jason E Fish
    Gladstone Institute of Cardiovascular Disease, San Francisco, CA 94158, USA
    Dev Cell 15:272-84. 2008
    ..These findings illustrate that a single miRNA can regulate vascular integrity and angiogenesis, providing a new target for modulating vascular formation and function...
  48. pmc Bmp2 signaling regulates the hepatic versus pancreatic fate decision
    Won Suk Chung
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, University of California, San Francisco, 1550 4th Street, San Francisco, CA 94158, USA
    Dev Cell 15:738-48. 2008
    ..These data provide in vivo evidence for the existence of bipotential hepatopancreatic progenitors and indicate that their fate is regulated by the medio-lateral patterning of the endodermal sheet, a process controlled by Bmp2b...
  49. pmc Genetic evidence for a noncanonical function of seryl-tRNA synthetase in vascular development
    Wiebke Herzog
    Department of Biochemistry and Biophysics and The Cardiovascular Research Institute, Programs in Developmental Biology, Genetics, and Human Genetics, University of California, San Francisco, San Francisco, CA 94158, USA
    Circ Res 104:1260-6. 2009
    ..These analyses of zebrafish and human endothelial cells reveal a new noncanonical function of Sars in endothelial development...
  50. ncbi Formation of the digestive system in zebrafish. II. Pancreas morphogenesis
    Holly A Field
    Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA 94143, USA
    Dev Biol 261:197-208. 2003
    ....
  51. ncbi A cellular framework for gut-looping morphogenesis in zebrafish
    Sally Horne-Badovinac
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics, and Human Genetics, University of California, San Francisco, CA 94143, USA
    Science 302:662-5. 2003
    ..Finally, reducing left-sided Nodal activity randomizes the pattern of LPM migration and gut looping. These results reveal a cellular framework for the regulation of organ laterality by asymmetrically expressed genes...
  52. pmc Iroquois homeobox gene 3 establishes fast conduction in the cardiac His-Purkinje network
    Shan Shan Zhang
    Gladstone Institute of Cardiovascular Disease, San Francisco, CA 94158, USA
    Proc Natl Acad Sci U S A 108:13576-81. 2011
    ..Irx3 directly represses Cx43 transcription and indirectly activates Cx40 transcription. Our results reveal a critical role for Irx3 in the precise regulation of intercellular gap junction coupling and impulse propagation in the heart...
  53. pmc A dual role for ErbB2 signaling in cardiac trabeculation
    Jiandong Liu
    Department of Biochemistry and Biophysics, University of California, San Francisco, CA 94158, USA
    Development 137:3867-75. 2010
    ....
  54. pmc Nodal signaling regulates endodermal cell motility and actin dynamics via Rac1 and Prex1
    Stephanie Woo
    Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA 94158, USA
    J Cell Biol 198:941-52. 2012
    ..Together, our results reveal a novel role for Nodal signaling in regulating actin dynamics and migration behavior, which are crucial for endodermal morphogenesis and cell fate decisions...
  55. pmc Distinct populations of quiescent and proliferative pancreatic beta-cells identified by HOTcre mediated labeling
    Daniel Hesselson
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, Institute for Regeneration Medicine, Liver Center and Diabetes Center, University of California, 1550 Fourth Street, San Francisco, CA 94158, USA
    Proc Natl Acad Sci U S A 106:14896-901. 2009
    ..g., diabetes mellitus). Our data reveal the existence of distinct populations of beta-cells in vivo and should help develop better strategies to regulate beta-cell differentiation and proliferation...
  56. ncbi The HeArt of regeneration
    Silvia Curado
    Department of Biochemistry and Biophysics and The Cardiovascular Research Institute, University of California, San Francisco, 1550 Fourth Street, San Francisco, CA 94158, USA
    Cell 127:462-4. 2006
    ..analyze regeneration in the zebrafish heart. Their work indicates that new cardiomyocytes originate from undifferentiated progenitor cells and reveals a critical role for the epicardium, the cellular layer that covers the heart...
  57. ncbi No organ left behind: tales of gut development and evolution
    Didier Y R Stainier
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, University of California, San Francisco, San Francisco, CA 94143 2711, USA
    Science 307:1902-4. 2005
    ..The patterning of the gut along its longitudinal, dorsoventral, left-right, and radial axes is one of the fascinating issues that pertain to the development, function, and homeostasis of this understudied organ...
  58. doi High-speed imaging of developing heart valves reveals interplay of morphogenesis and function
    Paul J Scherz
    Department of Biochemistry and Biophysics, Cardiovascular Research Institute, University of California, San Francisco, San Francisco, CA 94158, USA
    Development 135:1179-87. 2008
    ..Thus, different signaling pathways regulate distinct aspects of the behavior of individual cells during valve morphogenesis, thereby influencing specific facets of valve function...
  59. pmc Vegfc is required for vascular development and endoderm morphogenesis in zebrafish
    Elke A Ober
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, University of California, San Francisco, California 94143 0448, USA
    EMBO Rep 5:78-84. 2004
    ....
  60. ncbi Genetic control of single lumen formation in the zebrafish gut
    Michel Bagnat
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, University of California, San Francisco, 1550 Fourth Street, San Francisco, California 94158 2324, USA
    Nat Cell Biol 9:954-60. 2007
    ..This work shows that single lumen formation is genetically controlled and appears to be driven by the accumulation of fluid...
  61. ncbi Birc2 (cIap1) regulates endothelial cell integrity and blood vessel homeostasis
    Massimo M Santoro
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, and Cardiovascular Research Institute, University of California San Francisco, San Francisco, California 94158, USA
    Nat Genet 39:1397-402. 2007
    ....
  62. pmc Nitroreductase-mediated cell/tissue ablation in zebrafish: a spatially and temporally controlled ablation method with applications in developmental and regeneration studies
    Silvia Curado
    Department of Biochemistry and Biophysics, Program in Developmental Biology, Liver Center, Diabetes Center and the Cardiovascular Research Institute, University of California, San Francisco, San Francisco, California 94158 2324, USA
    Nat Protoc 3:948-54. 2008
    ..Using this protocol, cell ablation can be achieved in 12-72 h, depending on the transgenic line used, and recovery initiates within the following 24 h...
  63. pmc Whole-organism screening for gluconeogenesis identifies activators of fasting metabolism
    Philipp Gut
    Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, California, USA
    Nat Chem Biol 9:97-104. 2013
    ..Thus, using a whole-organism screening strategy, this study has identified new small-molecule activators of fasting metabolism...
  64. pmc Different levels of Notch signaling regulate quiescence, renewal and differentiation in pancreatic endocrine progenitors
    Nikolay Ninov
    Department of Biochemistry and Biophysics, Programs in Developmental and Stem Cell Biology, Genetics and Human Genetics, Diabetes Center, and Liver Center, University of California, San Francisco, San Francisco, CA 94158, USA
    Development 139:1557-67. 2012
    ..These data show that different levels of Notch signaling drive distinct behaviors in a progenitor population...
  65. pmc Suppression of Ptf1a activity induces acinar-to-endocrine conversion
    Daniel Hesselson
    Department of Biochemistry and Biophysics, Programs in Developmental and Stem Cell Biology, Genetics, and Human Genetics, Institute for Regeneration Medicine, Liver Center, and Diabetes Center, University of California, San Francisco, 1550 Fourth Street, San Francisco, CA 94158, USA
    Curr Biol 21:712-7. 2011
    ..These data indicate that targeted postembryonic disruption of the acinar cell fate can restore the developmental plasticity that is lost during development...
  66. pmc Limited forward trafficking of connexin 43 reduces cell-cell coupling in stressed human and mouse myocardium
    James W Smyth
    Cardiovascular Research Institute, Department of Medicine, University of California San Francisco, 505 Parnassus Avenue, San Francisco, CA 94143, USA
    J Clin Invest 120:266-79. 2010
    ..We anticipate that protecting the microtubule-based forward delivery apparatus of connexons could improve cell-cell coupling and reduce ischemia-related cardiac arrhythmias...
  67. ncbi A common progenitor for haematopoietic and endothelial lineages in the zebrafish gastrula
    Kevin M Vogeli
    Department of Biochemistry and Biophysics, University of California, San Francisco, 1550 Fourth Street, San Francisco, California 94158 2324, USA
    Nature 443:337-9. 2006
    ..Our results provide in vivo evidence supporting the existence of the haemangioblast and reveal distinct features of this cell population...
  68. pmc Combinatorial regulation of endothelial gene expression by ets and forkhead transcription factors
    Sarah De Val
    Cardiovascular Research Institute, University of California, San Francisco, San Francisco, CA 94158 2517, USA
    Cell 135:1053-64. 2008
    ..Finally, we show that FOX:ETS motifs are present in many known endothelial-specific enhancers and that this motif is an efficient predictor of endothelial enhancers in the human genome...
  69. pmc Selective plane illumination microscopy techniques in developmental biology
    Jan Huisken
    Department of Biochemistry and Biophysics, and Cardiovascular Research Institute, University of California, San Francisco, CA 94158, USA
    Development 136:1963-75. 2009
    ....
  70. pmc Zebrafish model for human long QT syndrome
    Rima Arnaout
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics, and Human Genetics, Cardiovascular Research Institute, University of California, 1550 Fourth Street, San Francisco, CA 94158, USA
    Proc Natl Acad Sci U S A 104:11316-21. 2007
    ..Our findings provide insight into the pathogenesis of homozygous kcnh2 mutations and expand the use of zebrafish mutants as a model system to study human arrhythmias...
  71. ncbi Formation of the digestive system in zebrafish. I. Liver morphogenesis
    Holly A Field
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, University of California, San Francisco, San Francisco, CA 94143, USA
    Dev Biol 253:279-90. 2003
    ....
  72. pmc Molecular control of endothelial cell behaviour during blood vessel morphogenesis
    Shane P Herbert
    Department of Biochemistry and Biophysics, Program in Developmental Biology, Cardiovascular Research Institute, University of California, San Francisco, California 94158, USA
    Nat Rev Mol Cell Biol 12:551-64. 2011
    ..These emerging frameworks controlling angiogenesis provide unique insights into fundamental biological processes common to other systems, such as tissue branching morphogenesis, mechanotransduction and tubulogenesis...
  73. ncbi In vivo cell biology: following the zebrafish trend
    Dimitris Beis
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, Cardiovascular Research Institute, University of California San Francisco, San Francisco, CA 94143 2711, USA
    Trends Cell Biol 16:105-12. 2006
    ..Although this model system has been predominantly appreciated for its amenability to forward genetics, current advances in imaging technology and an increasing number of transgenic lines are bringing it closer to its full potential...
  74. ncbi deLiver'in regeneration: injury response and development
    Silvia Curado
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, Liver Center, Diabetes Center and the Cardiovascular Research Institute, University of California, San Francisco, CA 94158 2324, USA
    Semin Liver Dis 30:288-95. 2010
    ..Also, as our understanding of liver development is becoming more detailed, it is important to evaluate the commonalities and differences between organ development and regeneration...
  75. ncbi Vertebrate Smoothened functions at the primary cilium
    Kevin C Corbit
    Developmental and Stem Cell Biology Program, University of California, San Francisco, California 94143, USA
    Nature 437:1018-21. 2005
    ..Thus, Hh-dependent translocation to cilia is essential for Smo activity, suggesting that Smo acts at the primary cilium...
  76. ncbi Even fluorescence excitation by multidirectional selective plane illumination microscopy (mSPIM)
    Jan Huisken
    Department of Biochemistry and Biophysics, University of California San Francisco, 1550 Fourth Street, San Francisco, California 94158 2324, USA
    Opt Lett 32:2608-10. 2007
    ..The multidirectional illumination proves essential in biological specimens such as millimeter-sized embryos. The performance of mSPIM is demonstrated by the imaging of live zebrafish embryos...
  77. ncbi Entrails, heart, brain, limbs, and lymphatics- a recipe for success?
    Didier Y R Stainier
    Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA 94143, USA
    Dev Cell 5:193-6. 2003
    ..Discussions extended into the late hours of the night as the meeting participants indulged in tasting some of their favorite organs, in the form of Spanish delicacies...
  78. ncbi A glimpse into the molecular entrails of endoderm formation
    Didier Y R Stainier
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics, and Human Genetics, University of California, San Francisco, San Francisco, California 94143 0448, USA
    Genes Dev 16:893-907. 2002
  79. ncbi Two endothelin 1 effectors, hand2 and bapx1, pattern ventral pharyngeal cartilage and the jaw joint
    Craig T Miller
    Institute of Neuroscience, 1254 University of Oregon, Eugene, OR 97403, USA
    Development 130:1353-65. 2003
    ..Together our results reveal two critical edn1 effectors that pattern the vertebrate jaw: hand2 specifies ventral pharyngeal cartilage of the lower jaw and bapx1 specifies the jaw joint...
  80. ncbi Cardiac troponin T is essential in sarcomere assembly and cardiac contractility
    Amy J Sehnert
    Department of Biochemistry and Biophysics, University of California at San Francisco, 513 Parnassus Avenue, Box 0448, San Francisco, California 94143 0448, USA
    Nat Genet 31:106-10. 2002
    ....
  81. ncbi From endoderm formation to liver and pancreas development in zebrafish
    Elke A Ober
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, University of California, San Francisco, CA 94143 0448, USA
    Mech Dev 120:5-18. 2003
    ..The generation of transgenic lines expressing GFP in these organs promises to be particularly helpful in such studies...
  82. ncbi Development. Fishing out a new heart
    Ian C Scott
    Department of Biochemistry and Biophysics, University of California, San Francisco, CA 94143, USA
    Science 298:2141-2. 2002
  83. ncbi Lipid receptors in cardiovascular development
    Nick Osborne
    Department of Biochemistry and Biophysics, University of California, San Francisco, California 94143 0448, USA
    Annu Rev Physiol 65:23-43. 2003
    ....
  84. ncbi A window to the heart: can zebrafish mutants help us understand heart disease in humans?
    Amy J Sehnert
    Departmentt of Pediatrics, Pediatric Cardiology Division, University of California, San Fransisco, 513 Parnassus Avenue, San Francisco, CA 94143, USA
    Trends Genet 18:491-4. 2002
    ..Today, studies of zebrafish mutants with defective heart function are providing insight into the genes required to generate a normal heartbeat...
  85. ncbi Pattern formation: swimming in retinoic acid
    Deborah Yelon
    Developmental Genetics Program and Department of Cell Biology, Skirball Institute of Biomolecular Medicine, New York University School of Medicine, New York, NY 10016, USA
    Curr Biol 12:R707-9. 2002
    ..Recent studies in zebrafish extend this model by demonstrating the influence of retinoic acid on endoderm regionalization...
  86. ncbi The guts of endoderm formation
    Rachel M Warga
    Department of Biology, University of Rochester, Rochester, New York 14627, USA
    Results Probl Cell Differ 40:28-47. 2002
    ..In addition, we refer to the cells that contribute to the endoderm as progenitors prior to their involution and precursors after their involution...
  87. ncbi In vivo regulation of the chicken cardiac troponin T gene promoter in zebrafish embryos
    William E Tidyman
    Department of Anatomy and Cardiovascular Research Institute, University of California San Francisco, 94143, USA
    Dev Dyn 227:484-96. 2003
    ..Thus, the PARP-I transcriptional regulatory mechanism that governs muscle specificity of the chicken cTnT promoter is conserved across several chordate classes spanning at least 350 million years of evolution...
  88. ncbi Microsomal triglyceride transfer protein is required for yolk lipid utilization and absorption of dietary lipids in zebrafish larvae
    Amnon Schlegel
    Department of Biochemistry and Biophysics, University of California, MC 2711, 1550 Fourth Street, Room 381, San Francisco, California 94143, USA
    Biochemistry 45:15179-87. 2006
    ..Importantly, the vasculature appeared unaffected in Mtp MO-injected larvae. These studies indicate that zebrafish larvae are suitable for genetic studies of lipid transport and metabolism...
  89. pmc Genetic and physiologic dissection of the vertebrate cardiac conduction system
    Neil C Chi
    Department of Biochemistry and Biophysics and Programs in Developmental Biology, Genetics, and Human Genetics, University of California San Francisco, San Francisco, California, United States of America
    PLoS Biol 6:e109. 2008
    ....
  90. ncbi Formation of the digestive system in zebrafish: III. Intestinal epithelium morphogenesis
    Annie N Y Ng
    Colon Molecular and Cell Biology Laboratory, Ludwig Institute for Cancer Research, Post Office Box 2008, Royal Melbourne Hospital, Parkville, Victoria 3050, Australia
    Dev Biol 286:114-35. 2005
    ..At 126 hpf, the posterior intestine remains an unfolded monolayer of simple columnar epithelium...
  91. ncbi nanor, a novel zygotic gene, is expressed initially at the midblastula transition in zebrafish
    Ronan T Bree
    Department of Biochemistry, National Centre for Biomedical Engineering Science, National University of Ireland, Galway, Ireland
    Biochem Biophys Res Commun 333:722-8. 2005
    ..It is initially expressed after the MBT at the sphere stage and during epiboly it is expressed in the forerunner cells. At 24 h post-fertilization, expression is solely anterior...
  92. ncbi Microarray analysis of zebrafish cloche mutant using amplified cDNA and identification of potential downstream target genes
    Feng Qian
    Laboratory of Molecular and Developmental Immunology, Institute of Molecular and Cell Biology, Proteos, Singapore
    Dev Dyn 233:1163-72. 2005
    ..Our study provides valuable information for studying hematopoiesis and vessel formation. The method described here offers a powerful tool for gene expression profiling of zebrafish mutants in general...
  93. ncbi The endothelial-cell-derived secreted factor Egfl7 regulates vascular tube formation
    Leon H Parker
    Molecular Biology Department, Genentech Inc, South San Francisco, California 94080, USA
    Nature 428:754-8. 2004
    ..This process fails to take place in Egfl7 knockdown embryos, leading to the failure of vascular tube formation. Our study defines a regulator that controls a specific and important step in vasculogenesis...
  94. ncbi Notch signaling can regulate endoderm formation in zebrafish
    Yutaka Kikuchi
    Division of Biological Science, Graduate School of Science, Nagoya University, Furo cho, Chikusa ku, Nagoya, Japan
    Dev Dyn 229:756-62. 2004
    ..Altogether, these results suggest that Notch signaling plays a role in the formation of the endoderm, possibly in its segregation from the mesoderm...
  95. ncbi Mutation of weak atrium/atrial myosin heavy chain disrupts atrial function and influences ventricular morphogenesis in zebrafish
    Eli Berdougo
    Developmental Genetics Program and Department of Cell Biology, Skirball Institute of Biomolecular Medicine, New York University School of Medicine, New York, NY 10016, USA
    Development 130:6121-9. 2003
    ..These findings are relevant to our understanding of congenital defects in cardiac chamber morphogenesis...
  96. ncbi Developmental biology: twisting the body into shape
    Ian C Scott
    Nature 425:461-3. 2003
  97. ncbi The Mix family homeodomain gene bonnie and clyde functions with other components of the Nodal signaling pathway to regulate neural patterning in zebrafish
    L A Trinh
    Department of Biochemistry and Biophysics, Programs in Developmental Biology, Genetics and Human Genetics, University of California, San Francisco, San Francisco, CA 94143 0448, USA
    Development 130:4989-98. 2003
    ....
  98. pmc Lessons from "lower" organisms: what worms, flies, and zebrafish can teach us about human energy metabolism
    Amnon Schlegel
    Department of Biochemistry and Biophysics, Division of Endocrinology at the University of California San Francisco, San Francisco, California, United States of America
    PLoS Genet 3:e199. 2007
    ..We summarize findings in these organisms that shed light on highly conserved pathways of energy homeostasis...