A5046617331- Marine Ecology and Invasive Species
- Developmental Biology and Gene Regulation
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Gene Regulatory Network Analysis
- Protist diversity and phylogeny
- Genomics and Phylogenetic Studies
- Genetic diversity and population structure
- Cancer-related gene regulation
- Genomics and Chromatin Dynamics
- Bioinformatics and Genomic Networks
- Echinoderm biology and ecology
- Identification and Quantification in Food
- Parasite Biology and Host Interactions
- Animal Genetics and Reproduction
- Radioactive contamination and transfer
- Marine Sponges and Natural Products
- Congenital heart defects research
- Receptor Mechanisms and Signaling
- Single-cell and spatial transcriptomics
- Wnt/β-catenin signaling in development and cancer
- Evolution and Genetic Dynamics
- CRISPR and Genetic Engineering
- Genetics and Neurodevelopmental Disorders
Kyoto University
2002-2023
National Cerebral and Cardiovascular Center
2023
Aix-Marseille Université
2022
Centre National de la Recherche Scientifique
2022
Institut de Biologie du Développement Marseille
2022
Tokyo Institute of Technology
2022
Japan Science and Technology Agency
2018
Osaka University
2007
Ehime University
2002
The first chordates appear in the fossil record at time of Cambrian explosion, nearly 550 million years ago. modern ascidian tadpole represents a plausible approximation to these ancestral chordates. To illuminate origins chordate and vertebrates, we generated draft protein-coding portion genome most studied ascidian, Ciona intestinalis . contains ∼16,000 genes, similar number other invertebrates, but only half that found vertebrates. Vertebrate gene families are typically simplified form ,...
Gene/transcript model sets predicted from decoded genome sequences are an important resource for a wide range of biological studies. Accuracy gene models is therefore critical deducing accurate conclusions. Computationally sometimes inconsistent with experimental data cDNA clones and RNA-sequencing. In ascidian, Ciona robusta (Ciona intestinalis type A), manually curated gene/transcript set, which was constructed using assembly in 68% were associated chromosomes, had been used during the...
Highlights•The linkage logic theory identifies key nodes in regulatory networks from structures•It identified five molecules the gene network (GRN) of an ascidian embryo•The dynamics was controlled by manipulating activities these moleculesSummaryNetwork structures describing regulation between biomolecules have been determined many biological systems. Dynamics molecular based on such are considered to be origin functions. Recently, it has proved mathematically that for controlling structure...
In many animal embryos, a specific gene expression pattern is established along the animal-vegetal axis soon after zygotic transcription begins. embryo of ascidian Ciona intestinalis, division that separates and vegetal hemispheres into distinct blastomeres, maternal Gata.a β-catenin activate genes in respectively. On basis these initial patterns, regulatory networks promote cells to become ectodermal tissues endomesodermal part nerve cord. hemisphere, directly activates Foxd, an essential...
The transcriptional repressor Snail is required for proper differentiation of the tail muscle ascidian tadpole larvae. Two lineages (B5.1 and B6.4) contribute to anterior cells, are consecutively separated from a transcriptionally quiescent germ cell lineage at 16- 32-cell stages. Concomitantly, cells these begin express Tbx6.b stages, respectively. Meanwhile, expression begins in two simultaneously stage. Here, we showed that regulated differently between lineages. In B5.1 lineage, was...
Four types of mesoderm cells (pigment cells, blastocoelar coelomic pouch and circumesophageal muscle cells) are derived from secondary mesenchyme (SMC) in sea urchin embryos. To gain information on the specification differentiation processes SMC-derived we studied exact number division cycles each type cell Hemicentrotus pulcherrimus. Numbers fibers were 18.0 +/- 2.0 (36 h post-fertilization (h.p.f.)), 23.0 2.5 h.p.f.) 9.5 1.3 (60 h.p.f.), respectively, whereas pigment ranged 40 to 60. From...
The regulatory system of gene expression in ascidian 32-cell embryos is represented as Boolean functions.
ABSTRACT In animal development, most cell types stop dividing before terminal differentiation; thus, cycle control is tightly linked to differentiation programmes. ascidian embryos, lineages do not vary among individuals, and rounds of the are determined according lineages. Notochord muscle cells after eight or nine division depending on their present study, we showed that a Cdk inhibitor, Cdkn1.b, responsible for stopping progression in these Cdkn1.b also necessary epidermal dividing....
Abstract Linkage logic theory provides a mathematical criterion to control network dynamics by manipulating activities of subset nodes, which are collectively called feedback vertex set (FVS). Because many biological functions emerge from networks, this promising tool for controlling functions. By the activity FVS molecules identified in gene regulatory (GRN) fate specification seven tissues ascidian embryos, we previously succeeded reproducing six cell types. Simultaneously, discovered that...
Summary Protein kinases (PKs) and protein phosphatases (PPs) regulate the phosphorylation of proteins that are involved in a variety biological processes. To study such processes systematically, it is important to know whole repertoire PKs PPs encoded genome. In present study, we surveyed genome an ascidian ( Ciona robusta or intestinalis type A) comprehensively identify genes PPs. Because ascidians belong sister group vertebrates, comparison with those vertebrates may help delineate...
How gene regulatory networks (GRNs) encode expression dynamics and how GRNs evolve are not well understood, although these problems have been studied extensively. We created a digital twin that accurately reproduces of 13 genes initiate in 32-cell ascidian embryos. first showed patterns can be manipulated according to predictions by this model. Next, simulate GRN rewiring, we changed functions represented their mechanisms the twin, found 55 100 cases, removal single regulator from...
Summary In animal development, most cell types stop dividing before terminal differentiation; thus, cycle control is tightly linked to differentiation programs. Although in development has been studied extensively, such links are not well understood. ascidian embryos, lineages do vary among individuals, and rounds of the determined according lineages. present study, we first showed that maternal factors promote approximately 10 division without zygotic gene expression. Notochord muscle cells...