Transcriptional profiling of endogenous germ layer precursor cells identifies dusp4 as an essential gene in zebrafish endoderm specification.

Abstract:

:A major goal for developmental biologists is to define the behaviors and molecular contents of differentiating cells. We have devised a strategy for isolating cells from diverse embryonic regions and stages in the zebrafish, using computer-guided laser photoconversion of injected Kaede protein and flow cytometry. This strategy enabled us to perform a genome-wide transcriptome comparison of germ layer precursor cells. Mesendoderm and ectoderm precursors cells isolated by this method differentiated appropriately in transplantation assays. Microarray analysis of these cells reidentified known genes at least as efficiently as previously reported strategies that relied on artificial mesendoderm activation or inhibition. We also identified a large set of uncharacterized mesendoderm-enriched genes as well as ectoderm-enriched genes. Loss-of-function studies revealed that one of these genes, the MAP kinase inhibitor dusp4, is essential for early development. Embryos injected with antisense morpholino oligonucleotides that targeted Dusp4 displayed necrosis of head tissues. Marker analysis during late gastrulation revealed a specific loss of sox17, but not of other endoderm markers, and analysis at later stages revealed a loss of foregut and pancreatic endoderm. This specific loss of sox17 establishes a new class of endoderm specification defect.

authors

Brown JL,Snir M,Noushmehr H,Kirby M,Hong SK,Elkahloun AG,Feldman B

doi

10.1073/pnas.0805589105

subject

Has Abstract

pub_date

2008-08-26 00:00:00

pages

12337-42

issue

34

eissn

0027-8424

issn

1091-6490

pii

0805589105

journal_volume

105

pub_type

杂志文章
  • Association of integrase, matrix, and reverse transcriptase antigens of human immunodeficiency virus type 1 with viral nucleic acids following acute infection.

    abstract::We have examined components of the preintegration complex of human immunodeficiency virus type 1 (HIV-1) and have analyzed features which govern the association of these components. HIV-1 nucleoprotein complexes, isolated from nuclear and cytoplasmic extracts of CD4+ cells after acute virus infection, contained viral ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.90.13.6125

    authors: Bukrinsky MI,Sharova N,McDonald TL,Pushkarskaya T,Tarpley WG,Stevenson M

    更新日期:1993-07-01 00:00:00

  • The retinal chromophore/chloride ion pair: structure of the photoisomerization path and interplay of charge transfer and covalent states.

    abstract::Ab initio multi-reference second-order perturbation theory computations are used to explore the photochemical behavior of two ion pairs constituted by a chloride counterion interacting with either a rhodopsin or bacteriorhodopsin chromophore model (i.e., the 4-cis-gamma-methylnona-2,4,6,8-tetraeniminium and all-trans-...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0408723102

    authors: Cembran A,Bernardi F,Olivucci M,Garavelli M

    更新日期:2005-05-03 00:00:00

  • Cell water dynamics on multiple time scales.

    abstract::Water-biomolecule interactions have been extensively studied in dilute solutions, crystals, and rehydrated powders, but none of these model systems may capture the behavior of water in the highly organized intracellular milieu. Because of the experimental difficulty of selectively probing the structure and dynamics of...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0709585105

    authors: Persson E,Halle B

    更新日期:2008-04-29 00:00:00

  • IonStar enables high-precision, low-missing-data proteomics quantification in large biological cohorts.

    abstract::Reproducible quantification of large biological cohorts is critical for clinical/pharmaceutical proteomics yet remains challenging because most prevalent methods suffer from drastically declined commonly quantified proteins and substantially deteriorated quantitative quality as cohort size expands. MS2-based data-inde...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1800541115

    authors: Shen X,Shen S,Li J,Hu Q,Nie L,Tu C,Wang X,Poulsen DJ,Orsburn BC,Wang J,Qu J

    更新日期:2018-05-22 00:00:00

  • Elimination of residual metastatic prostate cancer after surgery and adjunctive cytotoxic T lymphocyte-associated antigen 4 (CTLA-4) blockade immunotherapy.

    abstract::Cancer relapse after surgery is a common occurrence, most frequently resulting from the outgrowth of minimal residual disease in the form of metastases. We examined the effectiveness of cytotoxic T lymphocyte-associated antigen 4 (CTLA-4) blockade as an adjunctive immunotherapy to reduce metastatic relapse after prima...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.96.26.15074

    authors: Kwon ED,Foster BA,Hurwitz AA,Madias C,Allison JP,Greenberg NM,Burg MB

    更新日期:1999-12-21 00:00:00

  • AtVPS41-mediated endocytic pathway is essential for pollen tube-stigma interaction in Arabidopsis.

    abstract::In flowering plants, extensive male-female interactions are required for successful fertilization in which various signaling cascades are involved. Prevacuolar compartments (PVC) and vacuoles are two types of subcellular compartments that terminate signal transduction by sequestrating signaling molecules in yeast and ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1602757113

    authors: Hao L,Liu J,Zhong S,Gu H,Qu LJ

    更新日期:2016-05-31 00:00:00

  • Model of clustering of earthquakes.

    abstract::A two-dimensional model of the expansion of a crack in an elastic medium is considered in which friction depends on the slip rate and the modulus of cohesion depends on the speed of expansion of the crack. Elastic waves are neglected (quasi-static model). Under some conditions, the expansion of the crack is realized b...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.78.9.5284

    authors: Barenblatt GI,Keilis-Borok VI,Vishik MM

    更新日期:1981-09-01 00:00:00

  • Uniparental inheritance of mitochondrial and chloroplast genes: mechanisms and evolution.

    abstract::In nearly all eukaryotes, at least some individuals inherit mitochondrial and chloroplast genes from only one parent. There is no single mechanism of uniparental inheritance: organelle gene inheritance is blocked by a variety of mechanisms and at different stages of reproduction in different species. Frequent changes ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章,评审

    doi:10.1073/pnas.92.25.11331

    authors: Birky CW Jr

    更新日期:1995-12-05 00:00:00

  • Unified cochlear model for low- and high-frequency mammalian hearing.

    abstract::The spatial variations of the intricate cytoarchitecture, fluid scalae, and mechano-electric transduction in the mammalian cochlea have long been postulated to provide the organ with the ability to perform a real-time, time-frequency processing of sound. However, the precise manner by which this tripartite coupling en...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1900695116

    authors: Sasmal A,Grosh K

    更新日期:2019-07-09 00:00:00

  • Concerted biosynthesis of an insect elicitor of plant volatiles.

    abstract::A variety of agricultural plant species, including corn, respond to insect herbivore damage by releasing large quantities of volatile compounds and, as a result, become highly attractive to parasitic wasps that attack the herbivores. An elicitor of plant volatiles, N-(17-hydroxylinolenoyl)-L-glutamine, named volicitin...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.95.23.13971

    authors: Paré PW,Alborn HT,Tumlinson JH

    更新日期:1998-11-10 00:00:00

  • A global suppressor motif for p53 cancer mutants.

    abstract::The transcription factor and tumor suppressor protein p53 is frequently inactivated in human cancers. In many cases, p53 gene mutations result in high levels of inactive, full-length p53 protein with one amino acid change in the core domain that recognizes p53 DNA-binding sites. The ability to endow function to mutate...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0401162101

    authors: Baroni TE,Wang T,Qian H,Dearth LR,Truong LN,Zeng J,Denes AE,Chen SW,Brachmann RK

    更新日期:2004-04-06 00:00:00

  • Isolation and visualization of large compact ribonucleoprotein particles of specific nuclear RNAs.

    abstract::We have previously shown that nuclear transcripts of the multifunctional enzyme, carbamoyl-phosphate synthetase, aspartate transcarbamylase, dihydroorotase RNA can be released from nuclei of Syrian hamster cells as compact ribonucleoprotein (RNP) particles that sediment at the 200S region in a sucrose gradient. The 20...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.86.2.466

    authors: Spann P,Feinerman M,Sperling J,Sperling R

    更新日期:1989-01-01 00:00:00

  • Time-resolved x-ray diffraction reveals multiple conformations in the M-N transition of the bacteriorhodopsin photocycle.

    abstract::We measured the M-N transition of wild-type bacteriorhodopsin (pH 9, 10 degrees C) by time-resolved x-ray diffraction study at SPring8 BL45XU-A. We confirmed the accumulation of M and N intermediates by absorbance measurements, and we found that the time resolution of x-ray diffraction experiments (244 ms) was suffici...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.260504897

    authors: Oka T,Yagi N,Fujisawa T,Kamikubo H,Tokunaga F,Kataoka M

    更新日期:2000-12-19 00:00:00

  • Role of cyclophilin A in the uptake of HIV-1 by macrophages and T lymphocytes.

    abstract::Cyclophilins are a family of proteins that bind cyclosporin A (CsA) and possess peptidyl-prolyl cis-trans isomerase activity. In addition, they are secreted by activated cells and act in a cytokine-like manner, presumably via signaling through a cell surface cyclophilin receptor. More recently, host-derived cyclophili...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.95.4.1758

    authors: Sherry B,Zybarth G,Alfano M,Dubrovsky L,Mitchell R,Rich D,Ulrich P,Bucala R,Cerami A,Bukrinsky M

    更新日期:1998-02-17 00:00:00

  • Label-free Raman observation of cytochrome c dynamics during apoptosis.

    abstract::We performed label-free observation of molecular dynamics in apoptotic cells by Raman microscopy. Dynamic changes in cytochrome c distribution at the Raman band of 750 cm(-1) were observed after adding an apoptosis inducer to the cells. The comparison of mitochondria fluorescence images and Raman images of cytochrome ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1107524108

    authors: Okada M,Smith NI,Palonpon AF,Endo H,Kawata S,Sodeoka M,Fujita K

    更新日期:2012-01-03 00:00:00

  • Engineered leucine zippers show that hemiphosphorylated CREB complexes are transcriptionally active.

    abstract::The ability of basic/leucine zipper transcription factors to form homo- and heterodimers potentially increases the diversity of signaling pathways that can impinge upon a single genetic element. The capacity of these proteins to dimerize in various combinations complicates the analysis of their functional properties, ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.90.19.9046

    authors: Loriaux MM,Rehfuss RP,Brennan RG,Goodman RH

    更新日期:1993-10-01 00:00:00

  • Brain regions and functional interactions supporting early word recognition in the face of input variability.

    abstract::Perception and cognition in infants have been traditionally investigated using habituation paradigms, assuming that babies' memories in laboratory contexts are best constructed after numerous repetitions of the very same stimulus in the absence of interference. A crucial, yet open, question regards how babies deal wit...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1617589114

    authors: Benavides-Varela S,Siugzdaite R,Gómez DM,Macagno F,Cattarossi L,Mehler J

    更新日期:2017-07-18 00:00:00

  • Evidence for intron capture: an unusual path for the evolution of proteins.

    abstract::Most new genes are thought to evolve from preexisting genes but duplications of entire genes or shuffling of preexisting exons provides only a limited repertoire of new sequences that can be presented to a cell. Only pieces that previously existed can be used in the construction and any further divergence depends on t...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.91.16.7506

    authors: Golding GB,Tsao N,Pearlman RE

    更新日期:1994-08-02 00:00:00

  • Endothelial NMDA receptors mediate activity-dependent brain hemodynamic responses in mice.

    abstract::Dynamic coupling of blood supply with energy demand is a natural brain property that requires signaling between synapses and endothelial cells. Our previous work showed that cortical arteriole lumen diameter is regulated by N-methyl-d-aspartate receptors (NMDARs) expressed by brain endothelial cells. The purpose of th...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1902647116

    authors: Hogan-Cann AD,Lu P,Anderson CM

    更新日期:2019-05-21 00:00:00

  • Soluble dextran-hemoglobin complex as a potential blood substitute.

    abstract::A complex between soluble dextran and human hemoglobin has been synthesized by two different methods. In the alkylation method, hemoglobin was allowed to react with bromoacetyl groups incorporated into the dextran; the yield of the complex was about 80% in terms of the hemoglobin used. In the dialdehyde method, hemogl...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.73.6.2128

    authors: Tam SC,Blumenstein J,Wong JT

    更新日期:1976-06-01 00:00:00

  • alpha-Amanitin-insensitive transcription of mouse beta major-globin 5'-flanking and structural gene sequences correlates with mRNA expression.

    abstract::A small proportion of the RNAs of mouse reticulocytes consists of beta major-globin mRNA sequences linked to sequences transcribed from the 5'-flanking region of the beta major-globin gene. These upstream RNAs are polyadenylylated and contain 700-800 nucleotides, and their 5' regions are heterogeneous. RNAs with simil...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.81.24.7782

    authors: Carlson DP,Ross J

    更新日期:1984-12-01 00:00:00

  • Reduction of seizures by transplantation of cortical GABAergic interneuron precursors into Kv1.1 mutant mice.

    abstract::Epilepsy, a disease characterized by abnormal brain activity, is a disabling and potentially life-threatening condition for nearly 1% of the world population. Unfortunately, modulation of brain excitability using available antiepileptic drugs can have serious side effects, especially in the developing brain, and some ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0900141106

    authors: Baraban SC,Southwell DG,Estrada RC,Jones DL,Sebe JY,Alfaro-Cervello C,García-Verdugo JM,Rubenstein JL,Alvarez-Buylla A

    更新日期:2009-09-08 00:00:00

  • A eukaryotic enzyme that can disjoin dead-end covalent complexes between DNA and type I topoisomerases.

    abstract::The covalent joining of topoisomerases to DNA is normally a transient step in the reaction cycle of these important enzymes. However, under a variety of circumstances, the covalent complex is converted to a long-lived or dead-end product that can result in chromosome breakage and cell death. We have discovered and par...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.93.21.11534

    authors: Yang SW,Burgin AB Jr,Huizenga BN,Robertson CA,Yao KC,Nash HA

    更新日期:1996-10-15 00:00:00

  • Biological and serological characterization of radiation leukemia virus.

    abstract::Radiation leukemia virus, isolated from radiation-induced lymphomas in C57BL/Ka mice and propagated in that strain, is thymotropic and leukemogenic in vivo but replicates poorly, if at all, in mouse and mink fibroblast cultures in vitro. Comparative studies indicate that this naturally occurring virus is distinct from...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.73.12.4675

    authors: Declève A,Lieberman M,Ihle JN,Kaplan HS

    更新日期:1976-12-01 00:00:00

  • Recurrent mismatch binding by MutS mobile clamps on DNA localizes repair complexes nearby.

    abstract::DNA mismatch repair (MMR), the guardian of the genome, commences when MutS identifies a mismatch and recruits MutL to nick the error-containing strand, allowing excision and DNA resynthesis. Dominant MMR models posit that after mismatch recognition, ATP converts MutS to a hydrolysis-independent, diffusive mobile clamp...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1918517117

    authors: Hao P,LeBlanc SJ,Case BC,Elston TC,Hingorani MM,Erie DA,Weninger KR

    更新日期:2020-07-28 00:00:00

  • Triphosphate residues at the 5' ends of rRNA precursor and 5S RNA from Dictyostelium discoideum.

    abstract::We present here direct evidence for the preservation of a transcriptional initiation sequence in a eukaryotic rRNA precursor: the 5'-end group for precursor to 17S rRNA (p17S RNA) from Dictyostelium discoideum is identified as the triphosphate residue pppA-. We also show that mature 5S RNA form Dictyostelium bears a d...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.75.2.740

    authors: Batts-Young B,Lodish HF

    更新日期:1978-02-01 00:00:00

  • Long noncoding RNA NEAT1 (nuclear paraspeckle assembly transcript 1) is critical for phenotypic switching of vascular smooth muscle cells.

    abstract::In response to vascular injury, vascular smooth muscle cells (VSMCs) may switch from a contractile to a proliferative phenotype thereby contributing to neointima formation. Previous studies showed that the long noncoding RNA (lncRNA) NEAT1 is critical for paraspeckle formation and tumorigenesis by promoting cell proli...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1803725115

    authors: Ahmed ASI,Dong K,Liu J,Wen T,Yu L,Xu F,Kang X,Osman I,Hu G,Bunting KM,Crethers D,Gao H,Zhang W,Liu Y,Wen K,Agarwal G,Hirose T,Nakagawa S,Vazdarjanova A,Zhou J

    更新日期:2018-09-11 00:00:00

  • Genetic code origins: tRNAs older than their synthetases?

    abstract::We present a phylogenetic analysis to determine whether a given tRNA molecule was established in evolution before its cognate aminoacyl-tRNA synthetase. The earlier appearance of tRNA versus their metabolically related enzymes is a prediction of the RNA world theory, but the available synthetase and tRNA sequences pre...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.95.19.11295

    authors: Ribas de Pouplana L,Turner RJ,Steer BA,Schimmel P

    更新日期:1998-09-15 00:00:00

  • Opponent melanopsin and S-cone signals in the human pupillary light response.

    abstract::In the human, cone photoreceptors (L, M, and S) and the melanopsin-containing, intrinsically photosensitive retinal ganglion cells (ipRGCs) are active at daytime light intensities. Signals from cones are combined both additively and in opposition to create the perception of overall light and color. Similar mechanisms ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1400942111

    authors: Spitschan M,Jain S,Brainard DH,Aguirre GK

    更新日期:2014-10-28 00:00:00

  • A model system to study genomic imprinting of human genes.

    abstract::Somatic-cell hybrids have been shown to maintain the correct epigenetic chromatin states to study developmental globin gene expression as well as gene expression on the active and inactive X chromosomes. This suggests the potential use of somatic-cell hybrids containing either a maternal or a paternal human chromosome...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.95.25.14857

    authors: Gabriel JM,Higgins MJ,Gebuhr TC,Shows TB,Saitoh S,Nicholls RD

    更新日期:1998-12-08 00:00:00