Single-cell RNA sequencing of the Strongylocentrotus purpuratus larva reveals the blueprint of major cell types and nervous system of a non-chordate deuterostome

Elementary nervous systems

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Developmental single-cell transcriptomics in the Lytechinus variegatus sea urchin embryo

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The gene regulatory control of sea urchin gastrulation

(2020) Charles A. Ettensohn   MECHANISMS OF DEVELOPMENT

Single cell RNA sequencing of 13 human tissues identify cell types and receptors of human coronaviruses

(2020) Furong Qi et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

MorphoSeq: Full Single-Cell Transcriptome Dynamics Up to Gastrulation in a Chordate

(2020) Hanna L. Sladitschek et al.   CELL

Glucose transporters in pancreatic islets

(2020) Constantin Berger et al.   PFLUGERS ARCHIV-EUROPEAN JOURNAL OF PHYSIOLOGY

Single-cell RNA sequencing reveals the heterogeneity of liver-resident immune cells in human

(2020) Juanjuan Zhao et al.   Cell Discovery

Single-cell RNA-seq analysis of human CSF microglia and myeloid cells in neuroinflammation

(2020) Ekaterina Esaulova et al.   Neurology-Neuroimmunology & Neuroinflammation

Single-cell transcriptomic analysis identifies the conversion of zebrafish Etv2-deficient vascular progenitors into skeletal muscle

(2020) Brendan Chestnut et al.   Nature Communications

A single cell RNA sequencing resource for early sea urchin development

(2020) Stephany Foster et al.   DEVELOPMENT

Single-cell transcriptome maps of myeloid blood cell lineages in Drosophila

(2020) Bumsik Cho et al.   Nature Communications

Regulation of dynamic pigment cell states at single-cell resolution

(2020) Margherita Perillo et al.   eLife

Systematic comparison of sea urchin and sea star developmental gene regulatory networks explains how novelty is incorporated in early development

(2020) Gregory A. Cary et al.   Nature Communications

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Genome-wide identification of binding sites and gene targets of Alx1, a pivotal regulator of echinoderm skeletogenesis

(2019) Jian Ming Khor et al.   DEVELOPMENT

Comprehensive single-cell transcriptome lineages of a proto-vertebrate

(2019) Chen Cao et al.   NATURE

Possible cooption of a VEGF-driven tubulogenesis program for biomineralization in echinoderms

(2019) Miri Morgulis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Stem cell differentiation trajectories in Hydra resolved at single-cell resolution

(2019) Stefan Siebert et al.   SCIENCE

Unified single-cell analysis of testis gene regulation and pathology in five mouse strains

(2019) Min Jung et al.   eLife

Development and evolution of gut structures: from molecules to function

(2019) Rossella Annunziata et al.   CELL AND TISSUE RESEARCH

Single-Cell Transcriptomic Map of the Human and Mouse Bladders

(2019) Zhenyuan Yu et al.   JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY

Single-cell transcriptomic profiling of the aging mouse brain

(2019) Methodios Ximerakis et al.   NATURE NEUROSCIENCE

Developmental origin of peripheral ciliary band neurons in the sea urchin embryo

(2019) Leslie A. Slota et al.   DEVELOPMENTAL BIOLOGY

Prospectively Isolated Tetraspanin + Neoblasts Are Adult Pluripotent Stem Cells Underlying Planaria Regeneration

(2018) An Zeng et al.   CELL

A Single-Cell Transcriptome Atlas of the Aging Drosophila Brain

(2018) Kristofer Davie et al.   CELL

Cnidarian Cell Type Diversity and Regulation Revealed by Whole-Organism Single-Cell RNA-Seq

(2018) Arnau Sebé-Pedrós et al.   CELL

Identification of neural transcription factors required for the differentiation of three neuronal subtypes in the sea urchin embryo

(2018) Leslie A. Slota et al.   DEVELOPMENTAL BIOLOGY

Functional characteristics of novel pancreatic Pax6 regulatory elements

(2018) Adam Buckle et al.   HUMAN MOLECULAR GENETICS

Integrating single-cell transcriptomic data across different conditions, technologies, and species

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Single-cell mapping of gene expression landscapes and lineage in the zebrafish embryo

(2018) Daniel E. Wagner et al.   SCIENCE

SoxB2 in sea urchin development: implications in neurogenesis, ciliogenesis and skeletal patterning

(2018) Evgeniya Anishchenko et al.   EvoDevo

Unbiased classification of mosquito blood cells by single-cell genomics and high-content imaging

(2018) Maiara S. Severo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A morphological novelty evolved by co-option of a reduced gene regulatory network and gene recruitment in a beetle

(2018) Yonggang Hu et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Neurogenesis in the sea urchin embryo is initiated uniquely in three domains

(2018) David R. McClay et al.   DEVELOPMENT

Single-cell transcriptome profiling of the Ciona larval brain

(2018) Sarthak Sharma et al.   DEVELOPMENTAL BIOLOGY

Neuropeptidergic Systems in Pluteus Larvae of the Sea Urchin Strongylocentrotus purpuratus: Neurochemical Complexity in a “Simple” Nervous System

(2018) Natalie J. Wood et al.   Frontiers in Endocrinology

New Neuronal Subtypes With a “Pre-Pancreatic” Signature in the Sea Urchin Stongylocentrotus purpuratus

(2018) Margherita Perillo et al.   Frontiers in Endocrinology

Perturbation of gut bacteria induces a coordinated cellular immune response in the purple sea urchin larva

(2017) Eric Ch Ho et al.   IMMUNOLOGY AND CELL BIOLOGY

The transcription factorPax6is required for pancreatic β cell identity, glucose-regulated ATP synthesis, and Ca2+dynamics in adult mice

(2017) Ryan K. Mitchell et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Echinobase: an expanding resource for echinoderm genomic information

(2017) Parul Kudtarkar et al.   Database-The Journal of Biological Databases and Curation

Systematic single-cell analysis provides new insights into heterogeneity and plasticity of the pancreas

(2017) Sophie Tritschler et al.   Molecular Metabolism

Gut-like ectodermal tissue in a sea anemone challenges germ layer homology

(2017) Patrick R. H. Steinmetz et al.   Nature Ecology & Evolution

Troponin-I is present as an essential component of muscles in echinoderm larvae

(2017) Shunsuke Yaguchi et al.   Scientific Reports

A single-cell resolution map of mouse hematopoietic stem and progenitor cell differentiation

(2016) S. Nestorowa et al.   BLOOD

A pancreatic exocrine-like cell regulatory circuit operating in the upper stomach of the sea urchin Strongylocentrotus purpuratus larva

(2016) Margherita Perillo et al.   BMC EVOLUTIONARY BIOLOGY

Echinoderm systems for gene regulatory studies in evolution and development

(2016) Maria Ina Arnone et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Cooperative Wnt-Nodal Signals Regulate the Patterning of Anterior Neuroectoderm

(2016) Junko Yaguchi et al.   PLoS Genetics

Droplet Barcoding for Single-Cell Transcriptomics Applied to Embryonic Stem Cells

(2015) Allon M. Klein et al.   CELL

Neurogenesis in sea urchin embryos and the diversity of deuterostome neurogenic mechanisms

(2015) Sarah Garner et al.   DEVELOPMENT

Neurogenic gene regulatory pathways in the sea urchin embryo

(2015) Zheng Wei et al.   DEVELOPMENT

Evolving Genital Structures: A Deep Look at Network Co-option

(2015) Ella Preger-Ben Noon et al.   DEVELOPMENTAL CELL

An atlas of G-protein coupled receptor expression and function in human subcutaneous adipose tissue

(2015) Stefan Amisten et al.   PHARMACOLOGY & THERAPEUTICS

Gastric pouches and the mucociliary sole: setting the stage for nervous system evolution

(2015) D. Arendt et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Logics and properties of a genetic regulatory program that drives embryonic muscle development in an echinoderm

(2015) Carmen Andrikou et al.   eLife

Deployment of a retinal determination gene network drives directed cell migration in the sea urchin embryo

(2015) Megan L Martik et al.   eLife

A dynamic regulatory network explains ParaHox gene control of gut patterning in the sea urchin

(2014) R. Annunziata et al.   DEVELOPMENT

Thyroid hormones promote endocrine differentiation at expenses of exocrine tissue

(2014) Virginie Aïello et al.   EXPERIMENTAL CELL RESEARCH

Signal-dependent regulation of the sea urchin skeletogenic gene regulatory network

(2014) Zhongling Sun et al.   GENE EXPRESSION PATTERNS

Characterization of insulin-like peptides (ILPs) in the sea urchin Strongylocentrotus purpuratus: Insights on the evolution of the insulin family

(2014) Margherita Perillo et al.   GENERAL AND COMPARATIVE ENDOCRINOLOGY

Sea urchin neural development and the metazoan paradigm of neurogenesis

(2014) Robert D. Burke et al.   GENESIS

Growth factors and early mesoderm morphogenesis: Insights from the sea urchin embryo

(2014) Ashrifia Adomako-Ankomah et al.   GENESIS

Quantitative developmental transcriptomes of the sea urchin Strongylocentrotus purpuratus

(2013) Qiang Tu et al.   DEVELOPMENTAL BIOLOGY

CRTC2 Is Required for β-Cell Function and Proliferation

(2013) Chandra E. Eberhard et al.   ENDOCRINOLOGY

Pattern and process during sea urchin gut morphogenesis: The regulatory landscape

(2013) Rossella Annunziata et al.   GENESIS

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

The Developmental Regulator Pax6 Is Essential for Maintenance of Islet Cell Function in the Adult Mouse Pancreas

(2013) Alan W. Hart et al.   PLoS One

Myogenesis in the sea urchin embryo: the molecular fingerprint of the myoblast precursors

(2013) Carmen Andrikou et al.   EvoDevo

Gene regulatory networks reused to build novel traits

(2012) Antónia Monteiro   BIOESSAYS

Axial patterning interactions in the sea urchin embryo: suppression of nodal by Wnt1 signaling

(2012) Z. Wei et al.   DEVELOPMENT

Characterization and regulation of the hb9/mnx1 beta-cell progenitor specific enhancer in zebrafish

(2012) Valeriya Arkhipova et al.   DEVELOPMENTAL BIOLOGY

Gene regulatory control in the sea urchin aboral ectoderm: Spatial initiation, signaling inputs, and cell fate lockdown

(2012) Smadar Ben-Tabou de-Leon et al.   DEVELOPMENTAL BIOLOGY

Diversification of oral and aboral mesodermal regulatory states in pregastrular sea urchin embryos

(2012) Stefan C. Materna et al.   DEVELOPMENTAL BIOLOGY

Opposing Nodal and BMP Signals Regulate Left–Right Asymmetry in the Sea Urchin Larva

(2012) Yi-Jyun Luo et al.   PLOS BIOLOGY

β-Cell evolution: How the pancreas borrowed from the brain

(2011) Margot E. Arntfield et al.   BIOESSAYS

The genomic regulatory control of skeletal morphogenesis in the sea urchin

(2011) K. Rafiq et al.   DEVELOPMENT

Evolutionary crossroads in developmental biology: sea urchins

(2011) D. R. McClay   DEVELOPMENT

Alpha cells secrete acetylcholine as a non-neuronal paracrine signal priming beta cell function in humans

(2011) Rayner Rodriguez-Diaz et al.   NATURE MEDICINE

Direct development of neurons within foregut endoderm of sea urchin embryos

(2011) Z. Wei et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Morphogenesis in sea urchin embryos: linking cellular events to gene regulatory network states

(2011) Deirdre C. Lyons et al.   Wiley Interdisciplinary Reviews-Developmental Biology

Picante: R tools for integrating phylogenies and ecology

(2010) S. W. Kembel et al.   BIOINFORMATICS

Cis-regulatory analysis of the sea urchin pigment cell gene polyketide synthase

(2010) Cristina Calestani et al.   DEVELOPMENTAL BIOLOGY

Development of a dopaminergic system in sea urchin embryos and larvae

(2010) H. Katow et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Two ParaHox genes, SpLox and SpCdx, interact to partition the posterior endoderm in the formation of a functional gut

(2009) A. G. Cole et al.   DEVELOPMENT

The sea urchin animal pole domain is a Six3-dependent neurogenic patterning center

(2009) Z. Wei et al.   DEVELOPMENT

Nanos functions to maintain the fate of the small micromere lineage in the sea urchin embryo

(2009) Celina E. Juliano et al.   DEVELOPMENTAL BIOLOGY

Fluorescent in situ hybridization reveals multiple expression domains for SpBrn1/2/4 and identifies a unique ectodermal cell type that co-expresses the ParaHox gene SpLox

(2009) A.G. Cole et al.   GENE EXPRESSION PATTERNS

mRNA-Seq whole-transcriptome analysis of a single cell

(2009) Fuchou Tang et al.   NATURE METHODS

PDX-1 and MafA Play a Crucial Role in Pancreatic β-Cell Differentiation and Maintenance of Mature β-Cell Function

(2008) Hideaki KANETO et al.   ENDOCRINE JOURNAL

The larval stages of the sea urchin,Strongylocentrotus purpuratus

(2008) M. Meighan Smith et al.   JOURNAL OF MORPHOLOGY

The evolution of cell types in animals: emerging principles from molecular studies

(2008) Detlev Arendt   NATURE REVIEWS GENETICS

Global regulatory logic for specification of an embryonic cell lineage

(2008) P. Oliveri et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Generation and Regeneration of Cells of the Liver and Pancreas

(2008) K. S. Zaret et al.   SCIENCE