Yutaka Satou

Work

京都大学 / Kyoto University
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准教授 / Associate Professor

Japan

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京都大学 / Kyoto University
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助教授 / Associate Professor

Japan

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京都大学 / Kyoto University
|

助手 / Teaching Associate / Research Associate

Japan

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Publications

A master regulatory loop that activates genes in a temporally coordinated manner in muscle cells of ascidian embryos

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Development

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Identification and Classification of Zinc Finger Proteins Encoded in the Genome of an Ascidian

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genesis

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Ascidian embryonic cells with properties of neural-crest cells and neuromesodermal progenitors of vertebrates

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Nature Ecology & Evolution

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BMP signaling is required to form the anterior neural plate border in ascidian embryos

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Development Genes and Evolution

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A digital twin reproducing gene regulatory network dynamics of early Ciona embryos indicates robust buffers in the network

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PLOS Genetics

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A digital twin reproducing gene regulatory network dynamics of early Ciona embryos indicates robust buffers in the network

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PLOS Genetics

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A Manually Curated Gene Model Set for an Ascidian, Ciona robusta (Ciona intestinalis Type A)

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Zoological Science

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Tracing the evolutionary history of blood cells to the unicellular ancestor of animals

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Blood

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Regulators specifying cell fate activate cell cycle regulator genes to determine cell numbers in ascidian larval tissues

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Development

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Protein kinases and protein phosphatases encoded in the Ciona robusta genome

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genesis

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Tbx15/18/22 shares a binding site with Tbx6-r.b to maintain expression of a muscle structural gene in ascidian late embryos

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Developmental Biology

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Using linkage logic theory to control dynamics of a gene regulatory network of a chordate embryo.

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Scientific reports

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Cell geometry, signal dampening, and a bimodal transcriptional response underlie the spatial precision of an ERK-mediated embryonic induction

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Developmental Cell

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Cis-regulatory code for determining the action of Foxd as both an activator and a repressor in ascidian embryos

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Developmental Biology

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The gene regulatory system for specifying germ layers in early embryos of the simple chordate

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Science Advances

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Chromosomal Inversion Polymorphisms in Two Sympatric Ascidian Lineages

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Genome Biology and Evolution

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Two distinct motifs for Zic-r.a drive specific gene expression in two cell lineages

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Development

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The genetic program to specify ectodermal cells in ascidian embryos

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Development, Growth & Differentiation

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A gene regulatory network for cell fate specification in Ciona embryos

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Current Topics in Developmental Biology

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book-chapter

A single-cell analysis of the molecular lineage of chordate embryogenesis

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Science Advances

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Gata is ubiquitously required for the earliest zygotic gene transcription in the ascidian embryo

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Developmental Biology

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The regulatory pathway from genes directly activated by maternal factors to muscle structural genes in ascidian embryos

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Development

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Foxg specifies sensory neurons in the anterior neural plate border of the ascidian embryo

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Nature Communications

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A Nearly Complete Genome of Ciona intestinalis Type A (C. robusta) Reveals the Contribution of Inversion to Chromosomal Evolution in the Genus Ciona

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Genome Biology and Evolution

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A nearly-complete genome of Ciona intestinalis type A (C. robusta) reveals the contribution of inversion to chromosomal evolution in the genus Ciona

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Genome Biology and Evolution

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Initiation of the zygotic genetic program in the ascidian embryo

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Semin Cell Dev Biol

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Controlling Cell Fate Specification System by Key Genes Determined from Network Structure

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iScience

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Dynamics of two key maternal factors that initiate zygotic regulatory programs in ascidian embryos

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Developmental Biology

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Distinct regulation of Snail in two muscle lineages of the ascidian embryo achieves temporal coordination of muscle development

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Development

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Ascidian Zic Genes

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Adv Exp Med Biol

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Microinjection of Exogenous Nucleic Acids into Eggs: Ciona Species

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Transgenic Ascidians

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other

ANISEED 2017: extending the integrated ascidian database to the exploration and evolutionary comparison of genome-scale datasets

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Nucleic Acids Res

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Differential gene expression along the animal-vegetal axis in the ascidian embryo is maintained by a dual functional protein Foxd

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PLOS Genetics

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Tfap2 and Sox1/2/3 cooperatively specify ectodermal fates in ascidian embryos

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Development

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A Maternal System Initiating the Zygotic Developmental Program through Combinatorial Repression in the Ascidian Embryo

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PLoS Genet

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Antagonism between β-catenin and Gata.a sequentially segregates the germ layers of ascidian embryos

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Development

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Dysregulation of a potassium channel, THIK-1, targeted by caspase-8 accelerates cell shrinkage

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Biochimica et Biophysica Acta (BBA) - Molecular Cell Research

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Tfap2 and Sox1/2/3 cooperatively specify ectodermal fates in ascidian embryos

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Development

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Differential temporal control of Foxa.a and Zic-r.b specifies brain versus notochord fate in the ascidian embryo

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Development

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A Maternal System Initiating the Zygotic Developmental Program through Combinatorial Repression in the Ascidian Embryo

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PLOS Genetics

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Guidelines for the nomenclature of genetic elements in tunicate genomes.

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Genesis

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Sustained heterozygosity across a self-incompatibility locus in an inbred ascidian.

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Molecular biology and evolution

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Sustained heterozygosity across a self-incompatibility locus in an inbred ascidian.

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Guidelines for the nomenclature of genetic elements in tunicate genomes.

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A Boolean Function for Neural Induction Reveals a Critical Role of Direct Intercellular Interactions in Patterning the Ectoderm of the Ascidian Embryo

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PLoS Comput Biol

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A pipeline for the systematic identification of non-redundant full-ORF cDNAs for polymorphic and evolutionary divergent genomes: Application to the ascidian Ciona intestinalis

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Developmental Biology

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Gene regulatory systems that control gene expression in the Ciona embryo

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Proceedings of the Japan Academy Series B-Physical and Biological Sciences

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Genetic pathways for differentiation of the peripheral nervous system in ascidians

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Nature Communications

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The Apoptotic Initiator Caspase-8: Its Functional Ubiquity and Genetic Diversity during Animal Evolution

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Molecular Biology and Evolution

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A time delay gene circuit is required for palp formation in the ascidian embryo

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Development

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Differential Gene Expression in Notochord and Nerve Cord Fate Segregation in the Ciona intestinalis Embryo

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Genesis

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Multiple Signaling Pathways Coordinate to Induce a Threshold Response in a Chordate Embryo

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Plos Genetics

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Transcriptome dynamics in early embryos of the ascidian, Ciona intestinalis

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Developmental Biology

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A genomic overview of short genetic variations in a basal chordate, Ciona intestinalis

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Bmc Genomics

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Blood System Formation in the Urochordate Ciona intestinalis Requires the Variable Receptor vCRL1

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Molecular Biology and Evolution

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Cis-Acting Transcriptional Repression Establishes a Sharp Boundary in Chordate Embryos

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Science

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High-throughput protein expression screening and purification in Escherichia coli

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Methods

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Blastema induction in aneurogenic state and Prrx-1 regulation by MMPs and FGFs in Ambystoma mexicanum limb regeneration

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Developmental Biology

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CIPRO 2.5: Ciona intestinalis protein database, a unique integrated repository of large-scale omics data, bioinformatic analyses and curated annotation, with user rating and reviewing functionality

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Nucleic Acids Research

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Expression of neuropeptide- and hormone-encoding genes in the Ciona intestinalis larval brain

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Developmental Biology

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Genomic cis-regulatory networks in the early Ciona intestinalis embryo

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Development

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High-throughput sequence analysis of Ciona intestinalis SL trans-spliced mRNAs: Alternative expression modes and gene function correlates

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Genome Research

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The ANISEED database: Digital representation, formalization, and elucidation of a chordate developmental program

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Genome Research

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Caspases: evolutionary aspects of their functions in vertebrates

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Journal of Fish Biology

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Gene regulatory networks in the early ascidian embryo

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Biochimica Et Biophysica Acta-Gene Regulatory Mechanisms

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Gene regulatory networks underlying the compartmentalization of the Ciona central nervous system

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Development

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M-Ras evolved independently of R-Ras and its neural function is conserved between mammalian and ascidian, which lacks classical Ras

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Gene

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A cDNA resource for the cephalochordate amphioxus Branchiostoma floridae

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Development Genes and Evolution

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Improved genome assembly and evidence-based global gene model set for the chordate Ciona intestinalis: new insight into intron and operon populations

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Genome Biology

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Regulatory genes in the ancestral chordate genomes

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Development Genes and Evolution

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The amphioxus genome and the evolution of the chordate karyotype

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Nature

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The amphioxus genome illuminates vertebrate origins and cephalochordate biology

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Genome Research

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The amphioxus genome illuminates vertebrate origins and cephalochordate biology (vol 18, pg 1100, 2008)

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Genome Research

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Analysis of large scale expression sequenced tags (ESTs) from the anural ascidian, Molgula tectiformis

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Developmental Biology

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Axial patterning in cephalochordates and the evolution of the organizer

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Nature

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Conserved function of caspase-8 in apoptosis during bony fish evolution

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Gene

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Further EST analysis of endocrine genes that are preferentially expressed in the neural complex of Ciona intestinalis: Receptor and enzyme genes associated with endocrine system in the neural complex

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General and Comparative Endocrinology

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Gene expression profile during the life cycle of the urochordate Ciona intestinalis

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Developmental Biology

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The evolutionary conservation of the core components necessary for the extrinsic apoptotic signaling pathway, in Medaka fish

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Bmc Genomics

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Regulatory blueprint for a chordate embryo

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Science

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Chromosomal mapping of 170 BAC clones in the ascidian Gona intestinalis

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Genome Research

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Cloning and characterization of an ascidian homolog of the human 8-oxoguanine DNA glycosylase (Ogg1) that is involved in the repair of 8-oxo-7,8-dihydroguanine in DNA in Ciona intestinalis

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International Journal of Radiation Biology

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Gene regulatory networks for the development and evolution of the chordate heart

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Genes & Development

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Genomic overview of mRNA 5 '-leader trans-splicing in the ascidian Ciona intestinalis

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Nucleic Acids Research

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Systematic analysis of embryonic expression profiles of zinc finger genes in Ciona intestinalis

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Developmental Biology

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Urochordate genomes

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Vertebrate Genomes

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A Genome-Wide Survey of Genes for Enzymes Involved in Pigment Synthesis in an Ascidian, Ciona intestinalis

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Zoological Science

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A bHLH transcription factor gene, Twist-like1, is essential for the formation of mesodermal tissues of Ciona juveniles

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Developmental Biology

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A saturation screen for cis-acting regulatory DNA in the Hox genes of Ciona intestinalis

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

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An integrated database of the ascidian, Ciona intestinalis: Towards functional genomics

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Zoological Science

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Assembly of polymorphic genomes: Algorithms and application to Ciona savignyi

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Genome Research

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Cataloging transcription factor and major signaling molecule genes for functional genomic studies in Ciona intestinalis

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Development Genes and Evolution

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Ci-Tbx6b and Ci-Tbx6c are key mediators of the maternal effect gene Ci-macho1 in muscle cell differentiation in Ciona intestinalis embryos

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Developmental Biology

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Comprehensive analysis of the ascidian genome reveals novel insights into the molecular evolution of ion channel genes

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Physiological Genomics

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Dynamic changes in developmental gene expression in the basal chordate Ciona intestinalis

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Development Growth & Differentiation

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Microarray analysis of localization of maternal transcripts in eggs and early embryos of the ascidian, Ciona intestinalis

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Developmental Biology

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The cell death machinery controlled by Bax and Bcl-XL is evolutionarily conserved in Ciona intestinalis

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Apoptosis

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A zinc finger transcription factor, ZicL, is a direct activator of Brachyury in the notochord specification of Ciona intestinalis

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Development

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Fluorescent in situ hybridization to ascidian chromosomes

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Zoological Science

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Gene expression profiles of transcription factors and signaling molecules in the ascidian embryo: towards a comprehensive understanding of gene networks

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Development

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Identification of downstream genes of the ascidian muscle determinant gene Ci-macho1

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Developmental Biology

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Identification of transcripts expressed preferentially in Hemocytes of Ciona intestinalis that can be used as molecular markers

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DNA Research

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T-box genes in the ascidian Ciona intestinalis: Characterization of cDNAs and spatial expression

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Developmental Dynamics

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Tachykinin and tachykinin receptor of an ascidian, Ciona intestinalis - Evolutionary origin of the vertebrate tachykinin family

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Journal of Biological Chemistry

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The ascidian Mesp gene specifies heart precursor cells

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Development

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The evolutionary origin of animal cellulose synthase

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Development Genes and Evolution

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Three distinct lineages of mesenchymal cells in Ciona intestinalis embryos demonstrated by specific gene expression

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Developmental Biology

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A Twist-like bHLH gene is a downstream factor of an endogenous FGF and determines mesenchymal fate in the ascidian embryos

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Development

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A genomewide survey of developmentally relevant genes in Ciona intestinalis - I. Genes for bHLH transcription factors

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Development Genes and Evolution

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A genomewide survey of developmentally relevant genes in Ciona intestinalis - II. Genes for homeobox transcription factors

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Development Genes and Evolution

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A genomewide survey of developmentally relevant genes in Ciona intestinalis - III. Genes for Fox, ETS, nuclear receptors and NF kappa B

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Development Genes and Evolution

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A genomewide survey of developmentally relevant genes in Ciona intestinalis - IV. Genes for HMG transcriptional regulators, bZip and GATA/Gli/Zic/Snail

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Development Genes and Evolution

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A genomewide survey of developmentally relevant genes in Ciona intestinalis - IX. Genes for muscle structural proteins

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Development Genes and Evolution

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Genomewide surveys of developmentally relevant genes in Ciona intestinalis

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Development Genes and Evolution

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A genomewide survey of developmentally relevant genes in Ciona intestinalis - V. Genes for receptor tyrosine kinase pathway and Notch signaling pathway

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Development Genes and Evolution

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A genomewide survey of developmentally relevant genes in Ciona intestinalis - VI. Genes for Wnt, TGF beta, Hedgehog and JAK/STAT signaling pathways

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Development Genes and Evolution

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A genomewide survey of developmentally relevant genes in Ciona intestinalis - VII. Molecules involved in the regulation of cell polarity and actin dynamics

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Development Genes and Evolution

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A genomewide survey of developmentally relevant genes in Ciona intestinalis - VIII. Genes for PI3K signaling and cell cycle

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Development Genes and Evolution

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A genomewide survey of developmentally relevant genes in Ciona intestinalis - X. Genes for cell junctions and extracellular matrix

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Development Genes and Evolution

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Ascidian larva reveals ancient origin of vertebrate-skeletal-muscle troponin I characteristics in chordate locomotory muscle

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Molecular Biology and Evolution

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Ciona intestinalis: an emerging model for whole-genome analyses

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Trends in Genetics

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journal-article

Construction of a cDNA microarray derived from the ascidian Ciona intestinalis

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Zoological Science

Summary

journal-article

Expression of FoxE and FoxQ genes in the endostyle of Ciona intestinalis

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Development Genes and Evolution

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Hemocytes of Ciona intestinalis express multiple genes involved in innate immune host defense

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Biochemical and Biophysical Research Communications

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Large scale EST analyses in Ciona intestinalis - Its application as Northern blot analyses

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Development Genes and Evolution

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Large-scale characterization of genes specific to the larval nervous system in the ascidian Ciona intestinalis

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Genesis

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Morpholino-based gene knockdown screen of novel genes with developmental function in Ciona intestinalis

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Development

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Novel endostyle-specific genes in the ascidian Ciona intestinalis

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Zoological Science

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Retinoic acid affects gene expression and morphogenesis without upregulating the retinoic acid receptor in the ascidian Ciona intestinalis

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Mechanisms of Development

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The invertebrate ancestry of endocannabinoid signalling: an orthologue of vertebrate cannabinoid receptors in the urochordate Ciona intestinalis

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Gene

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A cDNA resource from the basal chordate Ciona intestinalis

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Genesis

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An essential role of a FoxD gene in notochord induction in Ciona embryos

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Development

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Ciona intestinalis cDNA projects: expressed sequence tag analyses and gene expression profiles during embryogenesis

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Gene

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Construction of BAC libraries derived from the ascidian Ciona intestinalis

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Genes & Genetic Systems

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EST analysis of gene expression in testis of the ascidian Ciona intestinalis

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Molecular Reproduction and Development

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Early embryonic expression of FGF4/6/9 gene and its role in the induction of mesenchyme and notochord in Ciona savignyi embryos

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Development

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Expression of hedgehog genes in Ciona intestinalis embryos

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Mechanisms of Development

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Fgf genes in the basal chordate Ciona intestinalis

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Development Genes and Evolution

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Further characterization of genes expressed during Ciona intestinalis metamorphosis

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Differentiation

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Gene expression profiles in Ciona intestinalis cleavage-stage embryos

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Mechanisms of Development

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Gene expression profiles in tadpole larvae of Ciona intestinalis

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Developmental Biology

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Gene expression profiles in young adult Ciona intestinalis

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Development Genes and Evolution

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Multiple functions of a Zic-like gene in the differentiation of notochord, central nervous system and muscle in Ciona savignyi embryos

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Development

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Region specific gene expressions in the central nervous system of the ascidian embryo

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Mechanisms of Development

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The draft genome of Ciona intestinalis: Insights into chordate and vertebrate origins

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Science

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journal-article

macho-1-related genes in Ciona embryos

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Development Genes and Evolution

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Action of morpholinos in Ciona embryos

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Genesis

Summary

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Brachyury (T) gene expression and notochord development in Oikopleura longicauda (Appendicularia, Urochordata)

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Development Genes and Evolution

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Ci-opsin1, a vertebrate-type opsin gene, expressed in the larval ocellus of the ascidian Ciona intestinalis

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Febs Letters

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Early embryonic expression of a LIM-homeobox gene Cs-lhx3 is downstream of beta-catenin and responsible for the endoderm differentiation in Ciona savignyi embryos

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Development

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Gene expression profiles in Ciona intestinalis tailbud embryos

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Development

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Isolation and characterization of genes that are expressed during Ciona intestinalis metamorphosis

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Development Genes and Evolution

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Profiles of maternally expressed genes in fertilized eggs of Ciona intestinalis

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Developmental Biology

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Characterization of Brachyury-downstream notochord genes in the Ciona intestinalis embryo

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Developmental Biology

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Muscle actin genes and muscle cells in the appendicularian, Oikopleura longicauda: Phylogenetic relationships among muscle tissues in the Urochordates

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Journal of Experimental Zoology

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beta-catenin mediates the specification of endoderm cells in ascidian embryos

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Development

Summary

journal-article

Developmental gene activities in ascidian embryos

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Current Opinion in Genetics & Development

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journal-article

Expression cloning of an ascidian syndecan suggests its role in embryonic cell adhesion and morphogenesis

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Developmental Biology

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journal-article

Identification and characterization of maternally expressed genes with mRNAs that are segregated with the endoplasm of early ascidian embryos

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International Journal of Developmental Biology

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posterior end mark 3 (pem-3), an ascidian maternally expressed gene with localized mRNA encodes a protein with Caenorhabditis elegans MEX-3-like KH domains

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Developmental Biology

Summary

journal-article

Isolation and characterization of cDNA clones for epidermis-specific and muscle-specific genes in Ciona savignyi embryos

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Zoological Science

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Maternal genes with localized mRNA and pattern formation of the ascidian embryo

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Cold Spring Harbor Symposia on Quantitative Biology

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posterior end mark 2 (pem-2), pem-4, pem-5, and pem-6: Maternal genes with localized mRNA in the ascidian embryo

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Developmental Biology

Summary

journal-article

An intrinsic genetic program for autonomous differentiation of muscle cells in the ascidian embryo

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

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journal-article

Two cis-regulatory elements are essential for the muscle-specific expression of an actin gene in the ascidian embryo

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Development Growth & Differentiation

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journal-article

TIMING OF INITIATION OF MUSCLE-SPECIFIC GENE-EXPRESSION IN THE ASCIDIAN EMBRYO PRECEDES THAT OF DEVELOPMENTAL FATE RESTRICTION IN LINEAGE CELLS

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Development Growth & Differentiation

Summary

journal-article