Koichi Kawakami

Division of Molecular and Developmental Biology, SOKENDAI (The Graduate University for Advanced Studies)

Affiliated withSOKENDAI (The Graduate University for Advanced Studies)National Institute of Genetics Graduate University for Advanced Studies (SOKENDAI)

Research Area

Neuroscience

Biography

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JoVE Journal Publications

ArticleTotal : 2	Year
Publication title Cited by 17	2018
Publication title	2022

Other Publications

Article	Year
A novel perivascular cell population in the zebrafish brain. eLife\| PubMed ID: 28395729	2017
The complexity of alternative splicing of hagoromo mRNAs is increased in an explosively speciated lineage in East African cichlids. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 14569027	2003
Fugu ESTs: new resources for transcription analysis and genome annotation. Genome research\| PubMed ID: 14613980	2003
Transposition of the Tol2 element, an Ac-like element from the Japanese medaka fish Oryzias latipes, in mouse embryonic stem cells. Genetics\| PubMed ID: 15020474	2004
A transposon-mediated gene trap approach identifies developmentally regulated genes in zebrafish. Developmental cell\| PubMed ID: 15239961	2004
Excision of the Tol2 transposable element of the medaka fish Oryzias latipes in Xenopus laevis and Xenopus tropicalis. Gene\| PubMed ID: 15302410	2004
Transgenesis and gene trap methods in zebrafish by using the Tol2 transposable element. Methods in cell biology\| PubMed ID: 15602913	2004
The zebrafish pob gene encodes a novel protein required for survival of red cone photoreceptor cells. Genetics\| PubMed ID: 15716502	2005
Transposon tools and methods in zebrafish. Developmental dynamics : an official publication of the American Association of Anatomists\| PubMed ID: 16110506	2005
Transposon-mediated gene trapping in zebrafish. Methods (San Diego, Calif.)\| PubMed ID: 16814563	2006
Functional dissection of the Tol2 transposable element identified the minimal cis-sequence and a highly repetitive sequence in the subterminal region essential for transposition. Genetics\| PubMed ID: 16959904	2006
The Fugu tyrp1 promoter directs specific GFP expression in zebrafish: tools to study the RPE and the neural crest-derived melanophores. Pigment cell research / sponsored by the European Society for Pigment Cell Research and the International Pigment Cell Society\| PubMed ID: 17083488	2006
Nodal signals mediate interactions between the extra-embryonic and embryonic tissues in zebrafish. Developmental biology\| PubMed ID: 17850782	2007
A cardiac myosin light chain kinase regulates sarcomere assembly in the vertebrate heart. The Journal of clinical investigation\| PubMed ID: 17885681	2007
Tol2: a versatile gene transfer vector in vertebrates. Genome biology\| PubMed ID: 18047699	2007
Insertional mutagenesis by the Tol2 transposon-mediated enhancer trap approach generated mutations in two developmental genes: tcf7 and synembryn-like. Development (Cambridge, England)\| PubMed ID: 18065431	2008
Genetic dissection of neural circuits by Tol2 transposon-mediated Gal4 gene and enhancer trapping in zebrafish. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 18202183	2008
Misty somites, a maternal effect gene identified by transposon-mediated insertional mutagenesis in zebrafish that is essential for the somite boundary maintenance. Developmental biology\| PubMed ID: 18342848	2008
Targeted gene expression by the Gal4-UAS system in zebrafish. Development, growth & differentiation\| PubMed ID: 18482403	2008
G2R Cre reporter transgenic zebrafish. Developmental dynamics : an official publication of the American Association of Anatomists\| PubMed ID: 18729206	2008
Transposition of the vertebrate Tol2 transposable element in Drosophila melanogaster. Gene\| PubMed ID: 18775483	2008
Efficient transposition of the Tol2 transposable element from a single-copy donor in zebrafish. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 19060204	2008
Afferent neurons of the zebrafish lateral line are strict selectors of hair-cell orientation. PloS one\| PubMed ID: 19223970	2009
Mechanism of development of ionocytes rich in vacuolar-type H(+)-ATPase in the skin of zebrafish larvae. Developmental biology\| PubMed ID: 19268451	2009
Transient and stable transgenesis using tol2 transposon vectors. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 19378098	2009
Analysis of genes and genome by the tol2-mediated gene and enhancer trap methods. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 19378099	2009
Olfactory neural circuitry for attraction to amino acids revealed by transposon-mediated gene trap approach in zebrafish. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 19497864	2009
Transgenesis in zebrafish with the tol2 transposon system. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 19504063	2009
Developmental toxicity and brain aromatase induction by high genistein concentrations in zebrafish embryos. Toxicology mechanisms and methods\| PubMed ID: 19750021	2009
A combination of transposable elements and magnetic cell sorting provides a very efficient transgenesis system for chicken primary erythroid progenitors. BMC biotechnology\| PubMed ID: 19765302	2009
Dynamic coupling of pattern formation and morphogenesis in the developing vertebrate retina. PLoS biology\| PubMed ID: 19823566	2009
Transposon-mediated BAC transgenesis in zebrafish and mice. BMC genomics\| PubMed ID: 19832998	2009
The Tol2-mediated Gal4-UAS method for gene and enhancer trapping in zebrafish. Methods (San Diego, Calif.)\| PubMed ID: 19835787	2009
Estrogen-responsive transient expression assay using a brain aromatase-based reporter gene in zebrafish (Danio rerio). Comparative medicine\| PubMed ID: 19887024	2009
Illuminating cell-cycle progression in the developing zebrafish embryo. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 19923430	2009
Sleep-wake regulation and hypocretin-melatonin interaction in zebrafish. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 19966231	2009
Mys protein regulates protein kinase A activity by interacting with regulatory type Ialpha subunit during vertebrate development. The Journal of biological chemistry\| PubMed ID: 20018846	2010
Interaction with surrounding normal epithelial cells influences signalling pathways and behaviour of Src-transformed cells. Journal of cell science\| PubMed ID: 20026643	2010
Real-time monitoring of circadian clock oscillations in primary cultures of mammalian cells using Tol2 transposon-mediated gene transfer strategy. BMC biotechnology\| PubMed ID: 20092656	2010
Development of the circadian oscillator during differentiation of mouse embryonic stem cells in vitro. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 20133594	2010
A simple and highly efficient transgenesis method in mice with the Tol2 transposon system and cytoplasmic microinjection. Genomics\| PubMed ID: 20219670	2010
Comparative analysis of transposable element vector systems in human cells. Molecular therapy : the journal of the American Society of Gene Therapy\| PubMed ID: 20372108	2010
Identification and characterization of alternative promoters of zebrafish Rtn-4/Nogo genes in cultured cells and zebrafish embryos. Nucleic acids research\| PubMed ID: 20378713	2010
Simultaneous expression of different transgenes in neurons and glia by combining in utero electroporation with the Tol2 transposon-mediated gene transfer system. Genes to cells : devoted to molecular & cellular mechanisms\| PubMed ID: 20384787	2010
Mib-Jag1-Notch signalling regulates patterning and structural roles of the notochord by controlling cell-fate decisions. Development (Cambridge, England)\| PubMed ID: 20573700	2010
Sex reversal in zebrafish fancl mutants is caused by Tp53-mediated germ cell apoptosis. PLoS genetics\| PubMed ID: 20661450	2010
A transgenic zebrafish for monitoring in vivo microtubule structures. Developmental dynamics : an official publication of the American Association of Anatomists\| PubMed ID: 20737511	2010
Transient inflammatory response mediated by interleukin-1β is required for proper regeneration in zebrafish fin fold. eLife\| PubMed ID: 28229859	2017
zTrap: zebrafish gene trap and enhancer trap database. BMC developmental biology\| PubMed ID: 20950494	2010
Nitro-fatty acids and cyclopentenone prostaglandins share strategies to activate the Keap1-Nrf2 system: a study using green fluorescent protein transgenic zebrafish. Genes to cells : devoted to molecular & cellular mechanisms\| PubMed ID: 21143560	2011
Genetic visualization with an improved GCaMP calcium indicator reveals spatiotemporal activation of the spinal motor neurons in zebrafish. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 21383146	2011
Formation of the spinal network in zebrafish determined by domain-specific pax genes. The Journal of comparative neurology\| PubMed ID: 21452218	2011
Generating libraries of iTol2-end insertions at BAC ends using loxP and lox511 Tn10 transposons. BMC genomics\| PubMed ID: 21736732	2011
Tol2-mediated transgenesis, gene trapping, enhancer trapping, and the Gal4-UAS system. Methods in cell biology\| PubMed ID: 21924155	2011
Neuron and sensory epithelial cell fate is sequentially determined by Notch signaling in zebrafish lateral line development. The Journal of neuroscience : the official journal of the Society for Neuroscience\| PubMed ID: 22031898	2011
Connexin 39.9 protein is necessary for coordinated activation of slow-twitch muscle and normal behavior in zebrafish. The Journal of biological chemistry\| PubMed ID: 22075003	2012
An mnr2b/hlxb9lb enhancer trap line that labels spinal and abducens motor neurons in zebrafish. Developmental dynamics : an official publication of the American Association of Anatomists\| PubMed ID: 22128106	2012
Transposon-mediated BAC transgenesis in zebrafish. Nature protocols\| PubMed ID: 22134125	2011
Transgenic line with gal4 insertion useful to study morphogenesis of craniofacial perichondrium, vascular endothelium-associated cells, floor plate, and dorsal midline radial glia during zeb... Development, growth & differentiation\| PubMed ID: 22348745	2012
Neuronal birth order identifies a dimorphic sensorineural map. The Journal of neuroscience : the official journal of the Society for Neuroscience\| PubMed ID: 22378871	2012
Mixture of differentially tagged Tol2 transposons accelerates conditional disruption of a broad spectrum of genes in mouse embryonic stem cells. Nucleic acids research\| PubMed ID: 22447447	2012
Efficient genetic modification and germ-line transmission of primordial germ cells using piggyBac and Tol2 transposons. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 22586100	2012
Functional assessment of human coding mutations affecting skin pigmentation using zebrafish. PloS one\| PubMed ID: 23071798	2012
Real-time visualization of neuronal activity during perception. Current biology : CB\| PubMed ID: 23375894	2013
Innervation is required for sense organ development in the lateral line system of adult zebrafish. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 23509277	2013
Transcription factors interfering with dedifferentiation induce cell type-specific transcriptional profiles. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 23550161	2013
Differential role for transcription factor Oct4 nucleocytoplasmic dynamics in somatic cell reprogramming and self-renewal of embryonic stem cells. The Journal of biological chemistry\| PubMed ID: 23580657	2013
Haemodynamically dependent valvulogenesis of zebrafish heart is mediated by flow-dependent expression of miR-21. Nature communications\| PubMed ID: 23748970	2013
Cellular dissection of the spinal cord motor column by BAC transgenesis and gene trapping in zebrafish. Frontiers in neural circuits\| PubMed ID: 23754985	2013
Prey capture in zebrafish larvae serves as a model to study cognitive functions. Frontiers in neural circuits\| PubMed ID: 23781176	2013
Development of cerebellar neurons and glias revealed by in utero electroporation: Golgi-like labeling of cerebellar neurons and glias. PloS one\| PubMed ID: 23894597	2013
The PCP protein Vangl2 regulates migration of hindbrain motor neurons by acting in floor plate cells, and independently of cilia function. Developmental biology\| PubMed ID: 23988578	2013
The parallel growth of motoneuron axons with the dorsal aorta depends on Vegfc/Vegfr3 signaling in zebrafish. Development (Cambridge, England)\| PubMed ID: 24046321	2013
Different combinations of Notch ligands and receptors regulate V2 interneuron progenitor proliferation and V2a/V2b cell fate determination. Developmental biology\| PubMed ID: 24768892	2014
Involvement of androgen receptor in sex determination in an amphibian species. PloS one\| PubMed ID: 24826887	2014
Development of the lateral line canal system through a bone remodeling process in zebrafish. Developmental biology\| PubMed ID: 24836859	2014
Co-option of Sox3 as the male-determining factor on the Y chromosome in the fish Oryzias dancena. Nature communications\| PubMed ID: 24948391	2014
The development and growth of tissues derived from cranial neural crest and primitive mesoderm is dependent on the ligation status of retinoic acid receptor γ: evidence that retinoic acid re... Stem cells and development\| PubMed ID: 25233141	2015
Establishment of Gal4 transgenic zebrafish lines for analysis of development of cerebellar neural circuitry. Developmental biology\| PubMed ID: 25300581	2015
RING finger protein 121 facilitates the degradation and membrane localization of voltage-gated sodium channels. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 25691753	2015
Size control during organogenesis: Development of the lateral line organs in zebrafish. Development, growth & differentiation\| PubMed ID: 25703577	2015
Deubiquitinating enzymes regulate Hes1 stability and neuronal differentiation. The FEBS journal\| PubMed ID: 25846153	2015
Neuregulin 1 Type II-ErbB Signaling Promotes Cell Divisions Generating Neurons from Neural Progenitor Cells in the Developing Zebrafish Brain. PloS one\| PubMed ID: 26001123	2015
High-resolution live imaging reveals axon-glia interactions during peripheral nerve injury and repair in zebrafish. Disease models & mechanisms\| PubMed ID: 26035865	2015
Deletion of a kinesin I motor unmasks a mechanism of homeostatic branching control by neurotrophin-3. eLife\| PubMed ID: 26076409	2015
BAC transgenic zebrafish reveal hypothalamic enhancer activity around obesity associated SNP rs9939609 within the human FTO gene. Genesis (New York, N.Y. : 2000)\| PubMed ID: 26271004	2015
Diversification of non-visual photopigment parapinopsin in spectral sensitivity for diverse pineal functions. BMC biology\| PubMed ID: 26370232	2015
Stable and bicistronic expression of two genes in somite- and lateral plate-derived tissues to study chick limb development. BMC developmental biology\| PubMed ID: 26518454	2015
Neuromuscular regulation in zebrafish by a large AAA+ ATPase/ubiquitin ligase, mysterin/RNF213. Scientific reports\| PubMed ID: 26530008	2015
Endothelial Ca 2+ oscillations reflect VEGFR signaling-regulated angiogenic capacity in vivo. eLife\| PubMed ID: 26588168	2015
Chromatin-prebound Crm1 recruits Nup98-HoxA9 fusion to induce aberrant expression of Hox cluster genes. eLife\| PubMed ID: 26740045	2016
CSF-contacting neurons regulate locomotion by relaying mechanical stimuli to spinal circuits. Nature communications\| PubMed ID: 26946992	2016
Cellular dynamics of regeneration reveals role of two distinct Pax7 stem cell populations in larval zebrafish muscle repair. Disease models & mechanisms\| PubMed ID: 27149989	2016
Zebrafish lines expressing UAS-driven red probes for monitoring cytoskeletal dynamics. Genesis (New York, N.Y. : 2000)\| PubMed ID: 27342687	2016
Visualization of Neuregulin 1 ectodomain shedding reveals its local processing in vitro and in vivo. Scientific reports\| PubMed ID: 27364328	2016
Fgf signalling controls diverse aspects of fin regeneration. Development (Cambridge, England)\| PubMed ID: 27402707	2016
Fluorescence-Activated Cell Sorting and Gene Expression Profiling of GFP-Positive Cells from Transgenic Zebrafish Lines. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 27464803	2016
Calcium Imaging of Neuronal Activity in Free-Swimming Larval Zebrafish. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 27464819	2016
Optimization of a Neurotoxin to Investigate the Contribution of Excitatory Interneurons to Speed Modulation In Vivo. Current biology : CB\| PubMed ID: 27524486	2016
Stereotyped initiation of retinal waves by bipolar cells via presynaptic NMDA autoreceptors. Nature communications\| PubMed ID: 27586999	2016
Erratum. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 27714676	2016
Calcium dysregulation contributes to neurodegeneration in FTLD patient iPSC-derived neurons. Scientific reports\| PubMed ID: 27721502	2016
Motile-Cilia-Mediated Flow Improves Sensitivity and Temporal Resolution of Olfactory Computations. Current biology : CB\| PubMed ID: 28041793	2017
Glycine-alanine dipeptide repeat protein contributes to toxicity in a zebrafish model of C9orf72 associated neurodegeneration. Molecular neurodegeneration\| PubMed ID: 28088213	2017
Left Habenula Mediates Light-Preference Behavior in Zebrafish via an Asymmetrical Visual Pathway. Neuron\| PubMed ID: 28190643	2017
Proteolysis regulates cardiomyocyte maturation and tissue integration. Nature communications\| PubMed ID: 28211472	2017
Activation of the hypothalamic feeding centre upon visual prey detection. Nature communications\| PubMed ID: 28425439	2017
Analysis of transcription factors expressed at the anterior mouse limb bud. PloS one\| PubMed ID: 28467430	2017
Preface to Vertebrate Brains: evolution, structures and functions. Development, growth & differentiation\| PubMed ID: 28643337	2017
Activin-A enhances mTOR signaling to promote aberrant chondrogenesis in fibrodysplasia ossificans progressiva. The Journal of clinical investigation\| PubMed ID: 28758906	2017
Transposons As Tools for Functional Genomics in Vertebrate Models. Trends in genetics : TIG\| PubMed ID: 28888423	2017
Granule cells control recovery from classical conditioned fear responses in the zebrafish cerebellum. Scientific reports\| PubMed ID: 28928404	2017
defines a wound-specific sheath cell subpopulation associated with notochord repair. eLife\| PubMed ID: 29405914	2018
Structure/Function Studies of the α4 Subunit Reveal Evolutionary Loss of a GlyR Subtype Involved in Startle and Escape Responses. Frontiers in molecular neuroscience\| PubMed ID: 29445326	2018
Epidermal regulation of bone morphogenesis through the development and regeneration of osteoblasts in the zebrafish scale. Developmental biology\| PubMed ID: 29524434	2018
A novel zebrafish intestinal tumor model reveals a role for -dependent tumor-liver crosstalk in causing adverse effects on the host. Disease models & mechanisms\| PubMed ID: 29592890	2018
Identification of a neuronal population in the telencephalon essential for fear conditioning in zebrafish. BMC biology\| PubMed ID: 29690872	2018
A new mode of pancreatic islet innervation revealed by live imaging in zebrafish. eLife\| PubMed ID: 29916364	2018
Protocadherin-Mediated Cell Repulsion Controls the Central Topography and Efferent Projections of the Abducens Nucleus. Cell reports\| PubMed ID: 30089266	2018
A tRNA-based multiplex sgRNA expression system in zebrafish and its application to generation of transgenic albino fish. Scientific reports\| PubMed ID: 30190522	2018
Mutant KCNJ3 and KCNJ5 Potassium Channels as Novel Molecular Targets in Bradyarrhythmias and Atrial Fibrillation. Circulation\| PubMed ID: 30764634	2019
Six6 and Six7 coordinately regulate expression of middle-wavelength opsins in zebrafish. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 30765521	2019
De novo assembly of the goldfish () genome and the evolution of genes after whole-genome duplication. Science advances\| PubMed ID: 31249862	2019
Neural signatures of sleep in zebrafish. Nature\| PubMed ID: 31292557	2019
Shootins mediate collective cell migration and organogenesis of the zebrafish posterior lateral line system. Scientific reports\| PubMed ID: 31434971	2019
Glia-neuron interactions underlie state transitions to generalized seizures. Nature communications\| PubMed ID: 31444362	2019
The First International Zebrafish Conference/Workshop in Qatar. Zebrafish\| PubMed ID: 31453757	2019
Pattern of fin rays along the antero-posterior axis based on their connection to distal radials. Zoological letters\| PubMed ID: 31548912	2019
A bidirectional network for appetite control in larval zebrafish. eLife\| PubMed ID: 31625906	2019
Reactivation of Notch signaling is required for cardiac valve regeneration. Scientific reports\| PubMed ID: 31690782	2019
Optogenetic modulation of TDP-43 oligomerization accelerates ALS-related pathologies in the spinal motor neurons. Nature communications\| PubMed ID: 32081878	2020
A virtual reality system to analyze neural activity and behavior in adult zebrafish. Nature methods\| PubMed ID: 32123394	2020
Gastrointestinal Neurons Expressing HCN4 Regulate Retrograde Peristalsis. Cell reports\| PubMed ID: 32130893	2020
Chondroitin sulfate proteoglycan 4 regulates zebrafish body axis organization via Wnt/planar cell polarity pathway. PloS one\| PubMed ID: 32240230	2020
The Genetic Basis of Morphological Diversity in Domesticated Goldfish. Current biology : CB\| PubMed ID: 32392470	2020
Transient and lineage-restricted requirement of Ebf3 for sternum ossification. Development (Cambridge, England)\| PubMed ID: 32398354	2020
Zebrafish can regenerate endoskeleton in larval pectoral fin but the regenerative ability declines. Developmental biology\| PubMed ID: 32422142	2020
Proteasome subunit PSMC3 variants cause neurosensory syndrome combining deafness and cataract due to proteotoxic stress. EMBO molecular medicine\| PubMed ID: 32500975	2020
Development of the anterior lateral line system through local tissue-tissue interactions in the zebrafish head. Developmental dynamics : an official publication of the American Association of Anatomists\| PubMed ID: 32658373	2020
Neuronal Circuits That Control Rhythmic Pectoral Fin Movements in Zebrafish. The Journal of neuroscience : the official journal of the Society for Neuroscience\| PubMed ID: 32703904	2020
Non-thalamic origin of zebrafish sensory nuclei implies convergent evolution of visual pathways in amniotes and teleosts. eLife\| PubMed ID: 32896272	2020
Gsx2 is required for specification of neurons in the inferior olivary nuclei from Ptf1a-expressing neural progenitors in zebrafish. Development (Cambridge, England)\| PubMed ID: 32928905	2020
Muscle defects due to perturbed somite segmentation contribute to late adult scoliosis. Aging\| PubMed ID: 32979261	2020
Do not curse the darkness of the spinal cord, light TDP-43. Neural regeneration research\| PubMed ID: 33229745	2021
Neural circuitry for stimulus selection in the zebrafish visual system. Neuron\| PubMed ID: 33357384	2021
The enteric nervous system in zebrafish larvae can regenerate via migration into the ablated area and proliferation of neural crest-derived cells. Development (Cambridge, England)\| PubMed ID: 33376126	2021
Pyramidal Neurons of the Zebrafish Tectum Receive Highly Convergent Input From Torus Longitudinalis. Frontiers in neuroanatomy\| PubMed ID: 33613200	2021
Multi-phaseted problems of TDP-43 in selective neuronal vulnerability in ALS. Cellular and molecular life sciences : CMLS\| PubMed ID: 33709256	2021
Illuminating ALS Motor Neurons With Optogenetics in Zebrafish. Frontiers in cell and developmental biology\| PubMed ID: 33816488	2021
Haploinsufficiency of PRR12 causes a spectrum of neurodevelopmental, eye, and multisystem abnormalities. Genetics in medicine : official journal of the American College of Medical Genetics\| PubMed ID: 33824499	2021
Involvement of Cerebellar Neural Circuits in Active Avoidance Conditioning in Zebrafish. eNeuro\| PubMed ID: 33952613	2021
Electrophysiological and pharmacological characterization of spreading depolarization in the adult zebrafish tectum. Journal of neurophysiology\| PubMed ID: 34731067	2021
A novel gene trap line for visualization and manipulation of erbb3b neural crest and glial cells in zebrafish. Developmental biology\| PubMed ID: 34932993	2022