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Feature Article

Global regulatory logic for specification of an embryonic cell lineage

Paola Oliveri, Qiang Tu, and Eric H. Davidson
PNAS April 22, 2008 105 (16) 5955-5962; first published April 14, 2008; https://doi.org/10.1073/pnas.0711220105
Paola Oliveri
Division of Biology, California Institute of Technology, Pasadena, CA 91125
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  • For correspondence: p.oliveri@ucl.ac.uk davidson@caltech.edu
Qiang Tu
Division of Biology, California Institute of Technology, Pasadena, CA 91125
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Eric H. Davidson
Division of Biology, California Institute of Technology, Pasadena, CA 91125
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  • For correspondence: p.oliveri@ucl.ac.uk davidson@caltech.edu
  1. Edited by Gertrud M. Schüpbach, Princeton University, Princeton, NJ, and approved January 31, 2008 (received for review December 14, 2007)

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Article Information

vol. 105 no. 16 5955-5962
DOI: 
https://doi.org/10.1073/pnas.0711220105
PubMed: 
18413610

Published By: 
National Academy of Sciences
Print ISSN: 
0027-8424
Online ISSN: 
1091-6490
History: 
  • Received December 14, 2007
  • Published in issue April 22, 2008.
  • Published first April 14, 2008.

Copyright & Usage: 
© 2008 by The National Academy of Sciences of the USA

Author Information

  1. Paola Oliveri*,†,
  2. Qiang Tu, and
  3. Eric H. Davidson†
  1. Division of Biology, California Institute of Technology, Pasadena, CA 91125
  1. Edited by Gertrud M. Schüpbach, Princeton University, Princeton, NJ, and approved January 31, 2008 (received for review December 14, 2007)

  • ↵*Present address: Department of Biology, University College London, Darwin Building, Gower Street, London WC1E 6BT, United Kingdom.

Footnotes

  • ↵†To whom correspondence may be addressed. E-mail: p.oliveri{at}ucl.ac.uk or davidson{at}caltech.edu
  • Author contributions: P.O. and Q.T. contributed equally to this work; P.O. and E.H.D. designed research; P.O. and Q.T. performed research; P.O., Q.T., and E.H.D. analyzed data; and P.O. and E.H.D. wrote the paper.

  • This Feature Article is part of a series identified by the Editorial Board as reporting findings of exceptional significance.

  • The authors declare no conflict of interest.

  • This article is a PNAS Direct Submission.

  • See Commentary on page 5951.

  • This article contains supporting information online at www.pnas.org/cgi/content/full/0711220105/DCSupplemental.

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  • Conserved early expression patterns of micromere specification genes in two echinoid species belonging to the orders clypeasteroida and echinoida
    Atsuko Yamazaki, Yousuke Furuzawa, Masaaki Yamaguchi
    Developmental Dynamics 2010 239 12
  • Is Runx a linchpin for developmental signaling in metazoans?
    James A. Coffman
    Journal of Cellular Biochemistry 2009 107 2
  • Strong associations between microbe phenotypes and their network architecture
    Soumen Roy, Vladimir Filkov
    Physical Review E 2009 80 4
  • Synthetic in vivo validation of gene network circuitry
    S. S. Damle, E. H. Davidson
    Proceedings of the National Academy of Sciences 2012 109 5
  • A minimal molecular toolkit for mineral deposition? Biochemistry and proteomics of the test matrix of adult specimens of the sea urchin Paracentrotus lividus
    Konstantinos Karakostis, Isabelle Zanella-Cléon, Françoise Immel, Nathalie Guichard, Philippe Dru, Thierry Lepage, Laurent Plasseraud, Valeria Matranga, Frédéric Marin
    Journal of Proteomics 2016 136
  • Annual reversible plasticity of feeding structures: cyclical changes of jaw allometry in a sea urchin
    Thomas A. Ebert, José Carlos Hernández, Sabrina Clemente
    Proceedings of the Royal Society B: Biological Sciences 2014 281 1779
  • Developmental gene regulatory networks in sea urchins and what we can learn from them
    Megan L. Martik, Deirdre C. Lyons, David R. McClay
    F1000Research 2016 5
  • Dynamical approaches to modeling developmental gene regulatory networks
    Nicholas Geard, Kai Willadsen
    Birth Defects Research Part C: Embryo Today: Reviews 2009 87 2
  • Extensive intraspecies cryptic variation in an ancient embryonic gene regulatory network
    Yamila N Torres Cleuren, Chee Kiang Ewe, Kyle C Chipman, Emily R Mears, Cricket G Wood, Coco Emma Alma Al-Alami, Melissa R Alcorn, Thomas L Turner, Pradeep M Joshi, Russell G Snell, Joel H Rothman
    eLife 2019 8
  • Modeling transcriptional networks regulating secondary growth and wood formation in forest trees
    Lijun Liu, Vladimir Filkov, Andrew Groover
    Physiologia Plantarum 2014 151 2
  • Conserved regulatory state expression controlled by divergent developmental gene regulatory networks in echinoids
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  • Expession patterns of mesenchyme specification genes in two distantly related echinoids, Glyptocidaris crenularis and Echinocardium cordatum
    Atsuko Yamazaki, Takuya Minokawa
    Gene Expression Patterns 2015 17 2
  • Gadolinium perturbs expression of skeletogenic genes, calcium uptake and larval development in phylogenetically distant sea urchin species
    Chiara Martino, Caterina Costa, Maria Carmela Roccheri, Demian Koop, Rosaria Scudiero, Maria Byrne
    Aquatic Toxicology 2018 194
  • Gene regulatory networks for ectoderm specification in sea urchin embryos
    Yi-Hsien Su
    Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms 2009 1789 4
  • KirrelL, a member of the Ig-domain superfamily of adhesion proteins, is essential for fusion of primary mesenchyme cells in the sea urchin embryo
    Charles A. Ettensohn, Debleena Dey
    Developmental Biology 2017 421 2
  • Specification to Biomineralization: Following a Single Cell Type as It Constructs a Skeleton
    D. C. Lyons, M. L. Martik, L. R. Saunders, D. R. McClay
    Integrative and Comparative Biology 2014 54 4
  • A new method, using cis-regulatory control, for blocking embryonic gene expression
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    Developmental Biology 2008 318 2
  • Beyond networks: mechanism and process in evo-devo
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    Biology & Philosophy 2019 34 6
  • Developmental transcriptomics of the brittle star Amphiura filiformis reveals gene regulatory network rewiring in echinoderm larval skeleton evolution
    David V. Dylus, Anna Czarkwiani, Liisa M. Blowes, Maurice R. Elphick, Paola Oliveri
    Genome Biology 2018 19 1
  • Global analysis of primary mesenchyme cell cis-regulatory modules by chromatin accessibility profiling
    Tanvi Shashikant, Jian Ming Khor, Charles A. Ettensohn
    BMC Genomics 2018 19 1
  • Possible cooption of a VEGF-driven tubulogenesis program for biomineralization in echinoderms
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    Proceedings of the National Academy of Sciences 2019 116 25
  • Ptk7 Marks the First Human Developmental EMT In Vitro
    David N. Chan, Soheila F. Azghadi, Jun Feng, William E. Lowry, Aditya Bhushan Pant
    PLoS ONE 2012 7 11
  • Regulatory states in the developmental control of gene expression
    Isabelle S. Peter
    Briefings in Functional Genomics 2017 16 5
  • Sequential Response to Multiple Developmental Network Circuits Encoded in an Intronic cis- Regulatory Module of Sea Urchin hox11/13b
    Miao Cui, Erika Vielmas, Eric H. Davidson, Isabelle S. Peter
    Cell Reports 2017 19 2
  • Structure–function correlation of micro1 for micromere specification in sea urchin embryos
    Atsuko Yamazaki, Sewon Ki, Tetsuro Kokubo, Masaaki Yamaguchi
    Mechanisms of Development 2009 126 8-9
  • The Maternal-to-Zygotic Transition
    S. Zachary Swartz, Gary M. Wessel
    2015 113
  • Transcriptional and temporal response of Populus stems to gravi-stimulation
    Matthew Zinkgraf, Suzanne Gerttula, Shutang Zhao, Vladimir Filkov, Andrew Groover
    Journal of Integrative Plant Biology 2018 60 7
  • Evolution and Development
    Rudolf A. Raff, Margaret Snoke Smith
    2009 86
  • The Tetraindole SK228 Reverses the Epithelial-to-Mesenchymal Transition of Breast Cancer Cells by Up-Regulating Members of the miR-200 Family
    Chie-Hong Wang, Chia-Ling Chen, Shivaji V. More, Pei-Wen Hsiao, Wen-Chun Hung, Wen-Shan Li, Masaru Katoh
    PLoS ONE 2014 9 6
  • An integrative method to decode regulatory logics in gene transcription
    Bin Yan, Daogang Guan, Chao Wang, Junwen Wang, Bing He, Jing Qin, Kenneth R. Boheler, Aiping Lu, Ge Zhang, Hailong Zhu
    Nature Communications 2017 8 1
  • Echinoderm systems for gene regulatory studies in evolution and development
    Maria Ina Arnone, Carmen Andrikou, Rossella Annunziata
    Current Opinion in Genetics & Development 2016 39
  • Eric Davidson: Steps to a gene regulatory network for development
    Ellen V. Rothenberg
    Developmental Biology 2016 412 2
  • Essays on Developmental Biology, Part B
    David R. McClay
    2016 117
  • Conserved and species-specific transcription factor co-binding patterns drive divergent gene regulation in human and mouse
    Adam G Diehl, Alan P Boyle
    Nucleic Acids Research 2018 46 4
  • Divergence of ectodermal and mesodermal gene regulatory network linkages in early development of sea urchins
    Eric M. Erkenbrack
    Proceedings of the National Academy of Sciences 2016 113 46
  • Echinoderms, Part B
    Elijah K. Lowe, Claudia Cuomo, Danila Voronov, Maria I. Arnone
    2019 151
  • Functional divergence of paralogous transcription factors supported the evolution of biomineralization in echinoderms
    Jian Ming Khor, Charles A Ettensohn
    eLife 2017 6
  • A Conserved Role for VEGF Signaling in Specification of Homologous Mesenchymal Cell Types Positioned at Spatially Distinct Developmental Addresses in Early Development of Sea Urchins
    Eric M. Erkenbrack, Elizabeth Petsios
    Journal of Experimental Zoology Part B: Molecular and Developmental Evolution 2017 328 5
  • Cell type phylogenetics informs the evolutionary origin of echinoderm larval skeletogenic cell identity
    Eric M. Erkenbrack, Jeffrey R. Thompson
    Communications Biology 2019 2 1
  • Ectomesoderm and epithelial-mesenchymal transition-related genes in spiralian development
    C. Cornelia Osborne, Kimberly J. Perry, Marty Shankland, Jonathan Q. Henry
    Developmental Dynamics 2018 247 10
  • Gene regulatory networks and embryonic specification
    L. Hood
    Proceedings of the National Academy of Sciences 2008 105 16
  • Genome-wide identification of binding sites and gene targets of Alx1, a pivotal regulator of echinoderm skeletogenesis
    Jian Ming Khor, Jennifer Guerrero-Santoro, Charles A. Ettensohn
    Development 2019 146 16
  • La transition épithéliomésenchymateuse au cours du développement dans la fibrose et dans la progression tumorale
    J-P. Thiery, K. Chua, Wen Jing Sim, R. Huang
    Bulletin du Cancer 2010 97 11
  • Notch signaling in the division of germ layers in bilaterian embryos
    María Belén Favarolo, Silvia L. López
    Mechanisms of Development 2018 154
  • Omics approaches to study gene regulatory networks for development in echinoderms
    Elijah K. Lowe, Claudia Cuomo, Maria I. Arnone
    Briefings in Functional Genomics 2017 16 5
  • Comparative studies on the skeletogenic mesenchyme of echinoids
    Takuya Minokawa
    Developmental Biology 2017 427 2
  • Establishment of knockout adult sea urchins by using a CRISPR‐Cas9 system
    Daming Liu, Akinori Awazu, Tetsushi Sakuma, Takashi Yamamoto, Naoaki Sakamoto
    Development, Growth & Differentiation 2019 61 6
  • Evolutionary Developmental Biology of Invertebrates 1
    Günter P. Wagner
    2015
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    C.J. Flynn, T. Sharma, S.W. Ruffins, S.L. Guerra, J.C. Crowley, C.A. Ettensohn
    Developmental Biology 2011 357 2
  • International Review Of Cell and Molecular Biology
    Joel Atallah, Ellen Larsen
    2009 278
  • On the role of topology in regulating transcriptional cascades
    Mahan Ghafari, Alireza Mashaghi
    Physical Chemistry Chemical Physics 2017 19 36
  • Roles ofhesCandgcmin echinoid larval mesenchyme cell development
    Atsuko Yamazaki, Takuya Minokawa
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  • Notch-mediated lateral inhibition is an evolutionarily conserved mechanism patterning the ectoderm in echinoids
    Eric M. Erkenbrack
    Development Genes and Evolution 2018 228 1
  • Perturbation analysis analyzed—mathematical modeling of intact and perturbed gene regulatory circuits for animal development
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  • Realizability and the varieties of explanation
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  • The evolution of a new cell type was associated with competition for a signaling ligand
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  • Are control of extracellular acid-base balance and regulation of skeleton genes linked to resistance to ocean acidification in adult sea urchins?
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    Science of The Total Environment 2020 720
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    Journal of Cell Science 2017 130 24
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    Proceedings of the National Academy of Sciences 2020 117 35
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    Ellen V. Rothenberg
    History and Philosophy of the Life Sciences 2017 39 4
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    2020 136
  • Gene Regulatory Networks
    Isabelle S. Peter
    2020 139
  • Handbook of Systems Biology
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    2013
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    A. B. Core, A. E. Reyna, E. A. Conaway, C. A. Bradham
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  • The gene regulatory control of sea urchin gastrulation
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  • pmar1/phb homeobox genes and the evolution of the double-negative gate for endomesoderm specification in echinoderms
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  • Cancer Systems Biology, Bioinformatics and Medicine
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    2011
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  • Echinoderms, Part B
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    2019 151
  • Encounters across networks: Windows into principles of genomic regulation
    Ellen V. Rothenberg
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  • Robustness and Accuracy in Sea Urchin Developmental Gene Regulatory Networks
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  • Scope of medical implications of the Master Development Program hypothesis
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  • Systems Biology of Tuberculosis
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  • Echinoderms, Part B
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Article usage

Article usage: April 2008 to January 2021

AbstractFullPdf
Apr 200821794021031
May 2008449308424
Jun 2008193154161
Jul 200838184197
Aug 200827740109
Sep 200826760110
Oct 200831091155
Nov 200823971107
Dec 20081456091
Total 2008444012702385
Jan 20091644384
Feb 20091805775
Mar 200915511899
Apr 200911191101
May 2009895651
Jun 2009755253
Jul 2009675188
Aug 2009854669
Sep 2009543754
Oct 2009563543
Nov 2009675545
Dec 2009672435
Total 20091170665797
Jan 2010553237
Feb 2010333334
Mar 2010866740
Apr 20101116771
May 2010774527
Jun 2010564330
Jul 2010502620
Aug 2010372730
Sep 201037169
Oct 2010394226
Nov 2010393534
Dec 2010502636
Total 2010670459394
Jan 2011303436
Feb 2011344328
Mar 2011433926
Apr 2011495934
May 2011313340
Jun 2011222523
Jul 2011252121
Aug 2011282014
Sep 2011402329
Oct 2011422925
Nov 2011582025
Dec 2011483420
Total 2011450380321
Jan 2012484339
Feb 2012362325
Mar 2012362429
Apr 2012361822
May 2012332739
Jun 201235929
Jul 2012272219
Aug 2012201811
Sep 2012282445
Oct 2012202814
Nov 201233249
Dec 2012352321
Total 2012387283302
Jan 2013242424
Feb 2013141614
Mar 2013252519
Apr 2013272225
May 2013262322
Jun 201318199
Jul 201317288
Aug 2013222217
Sep 2013374019
Oct 2013564424
Nov 2013233418
Dec 201330208
Total 2013319317207
Jan 201422256
Feb 2014183418
Mar 201423307
Apr 2014545238
May 201433198
Jun 2014321312
Jul 2014523317
Aug 201418276
Sep 2014382711
Oct 2014363814
Nov 201437207
Dec 2014472116
Total 2014410339160
Jan 2015331911
Feb 2015301410
Mar 2015372515
Apr 2015241915
May 2015353513
Jun 2015341010
Jul 201517158
Aug 2015312210
Sep 2015252718
Oct 201523178
Nov 2015301913
Dec 2015331514
Total 2015352237145
Jan 2016312425
Feb 2016201512
Mar 2016241825
Apr 2016342314
May 201617287
Jun 2016331310
Jul 201646916
Aug 2016301910
Sep 2016291911
Oct 2016251713
Nov 2016282117
Dec 20162455
Total 2016341211165
Jan 2017211012
Feb 201749105
Mar 2017351519
Apr 201724154
May 2017362816
Jun 2017343012
Jul 201721186
Aug 201731107
Sep 201740108
Oct 2017262010
Nov 201715197
Dec 201714136
Total 2017346198112
Jan 201815178
Feb 201827319
Mar 2018515113
Apr 2018524732
May 201837405
Jun 201821274
Jul 201820273
Aug 2018383916
Sep 2018374017
Oct 20186469
Nov 20181519
Dec 20181442
Total 2018306460127
Jan 20191244
Feb 20195346
Mar 201934514
Apr 201943315
May 20194197
Jun 20194285
Jul 201951915
Aug 201963817
Sep 20194666
Oct 201958621
Nov 20194288
Dec 201963712
Total 201951457130
Jan 20204259
Feb 202031458
Mar 202010399
Apr 202044128
May 202033218
Jun 202083117
Jul 20204186
Aug 202022211
Sep 202046115
Oct 20201416642
Nov 20201210624
Dec 2020105417
Total 202078740204
Jan 20214435
Total 20214435
Total932460595454
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Global regulatory logic for specification of an embryonic cell lineage
Paola Oliveri, Qiang Tu, Eric H. Davidson
Proceedings of the National Academy of Sciences Apr 2008, 105 (16) 5955-5962; DOI: 10.1073/pnas.0711220105

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Global regulatory logic for specification of an embryonic cell lineage
Paola Oliveri, Qiang Tu, Eric H. Davidson
Proceedings of the National Academy of Sciences Apr 2008, 105 (16) 5955-5962; DOI: 10.1073/pnas.0711220105
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Transplantation of sperm-producing stem cells
CRISPR-Cas9 gene editing can improve the effectiveness of spermatogonial stem cell transplantation in mice and livestock, a study finds.
Image credit: Jon M. Oatley.

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