Publications of David R McClay :chronological combined listing:
%% Papers Published
@article{fds139601,
Author = {E Röttinger and A Saudemont and V Duboc and L Besnardeau and D McClay and T Lepage},
Title = {FGF signals guide migration of mesenchymal cells, control
skeletal morphogenesis of the skeleton and regulate
gastrulation during sea urchin development.},
Journal = {Development},
Volume = {135},
Pages = {353-365},
Year = {2008},
Month = {December},
Abstract = {The sea urchin embryo is emerging as an attractive model to
study morphogenetic processes such as directed migration of
mesenchyme cells and cell sheet invagination, but
surprisingly, few of the genes regulating these processes
have yet been characterized. We present evidence that FGFA,
the first FGF family member characterized in the sea urchin,
regulates directed migration of mesenchyme cells,
morphogenesis of the skeleton and gastrulation during early
development. We found that at blastula stages, FGFA and a
novel putative FGF receptor are expressed in a pattern that
prefigures morphogenesis of the skeletogenic mesoderm and
that suggests that FGFA is one of the elusive signals that
guide migration of primary mesenchyme cells (PMCs). We first
show that fgfA expression is correlated with abnormal
migration and patterning of the PMCs following treatments
that perturb specification of the ectoderm along the
oral-aboral and animal-vegetal axes. Specification of the
ectoderm initiated by Nodal is required to restrict fgfA to
the lateral ectoderm, and in the absence of Nodal, fgfA is
expressed ectopically throughout most of the ectoderm.
Inhibition of either FGFA, FGFR1 or FGFR2 function severely
affects morphogenesis of the skeleton. Furthermore,
inhibition of FGFA and FGFR1 signaling dramatically delays
invagination of the archenteron, prevents regionalization of
the gut and abrogates formation of the stomodeum. We
identified several genes acting downstream of fgfA in these
processes, including the transcription factors pea3 and
pax2/5/8 and the signaling molecule sprouty in the lateral
ectoderm and SM30 and SM50 in the primary mesenchyme cells.
This study identifies the FGF signaling pathway as an
essential regulator of gastrulation and directed cell
migration in the sea urchin embryo and as a key player in
the gene regulatory network directing morphogenesis of the
skeleton.},
Key = {fds139601}
}
@article{fds152095,
Author = {Range, R. and T. Glenn and D.R. McClay},
Title = {Lv-Numb promotes Notch-mediated specification of secondary
mesenchyme cells in the sea urchin embryo},
Journal = {Development},
Volume = {135},
Pages = {2445-2454},
Year = {2008},
Month = {December},
Key = {fds152095}
}
@article{fds152093,
Author = {Wu, S-Y and Y-P Yang and D R McClay},
Title = {Twist is an essential regulator of the skeletogenic gene
regulatory network in the sea urchin embryo},
Journal = {Dev Biol},
Volume = {319},
Pages = {406-415},
Year = {2008},
Key = {fds152093}
}
@article{fds152094,
Author = {Voronina. E. and Lopez, M. and Juliano, C. and Gustafson, E. and Song, J. and Extavour, C. and George. S. and Oliveri, P. and McClay, D.R. and Wessel, G.M.},
Title = {Vasa protein expression is restricted to the small
micromeres of the sea urchin, but is inducible in other
lineages early in development.},
Journal = {Dev Biol},
Volume = {314},
Pages = {276-286},
Year = {2008},
Key = {fds152094}
}
@article{fds152503,
Author = {Croce, J.C. and D.R. McClay},
Title = {Evolution of Wnt pathways.},
Journal = {Methods in Molecular Biology},
Volume = {2},
Pages = {3-18},
Publisher = {Humana Press},
Year = {2008},
Key = {fds152503}
}
@article{fds139602,
Author = {SY Wu and DR McClay},
Title = {The Snail repressor is required for PMC ingression in the
sea urchin embryo.},
Journal = {Development (Cambridge, England), England},
Volume = {134},
Number = {6},
Pages = {1061-70},
Year = {2007},
Month = {March},
Keywords = {Amino Acid Sequence • Animals • Cadherins •
Down-Regulation • Embryo, Nonmammalian • Embryonic
Development • Endocytosis • Gastrula • Gene
Expression Regulation, Developmental* • Lytechinus
• Mesoderm • Molecular Sequence Data •
Phylogeny • RNA, Messenger • Repressor Proteins
• Transcription Factors • analysis •
chemistry • classification • cytology •
embryology* • genetics • genetics* •
metabolism • physiology*},
Abstract = {In metazoans, the epithelial-mesenchymal transition (EMT) is
a crucial process for placing the mesoderm beneath the
ectoderm. Primary mesenchyme cells (PMCs) at the vegetal
pole of the sea urchin embryo ingress into the floor of the
blastocoele from the blastula epithelium and later become
the skeletogenic mesenchyme. This ingression movement is a
classic EMT during which the PMCs penetrate the basal
lamina, lose adherens junctions and migrate into the
blastocoele. Later, secondary mesenchyme cells (SMCs) also
enter the blastocoele via an EMT, but they accompany the
invagination of the archenteron initially, in much the same
way vertebrate mesenchyme enters the embryo along with
endoderm. Here we identify a sea urchin ortholog of the
Snail transcription factor, and focus on its roles
regulating EMT during PMC ingression. Functional knockdown
analyses of Snail in whole embryos and chimeras demonstrate
that Snail is required in micromeres for PMC ingression.
Snail represses the transcription of cadherin, a repression
that appears evolutionarily conserved throughout the animal
kingdom. Furthermore, Snail expression is required for
endocytosis of cadherin, a cellular activity that
accompanies PMC ingression. Perturbation studies position
Snail in the sea urchin micromere-PMC gene regulatory
network (GRN), downstream of Pmar1 and Alx1, and upstream of
several PMC-expressed proteins. Taken together, our findings
indicate that Snail plays an essential role in PMCs to
control the EMT process, in part through its repression of
cadherin expression during PMC ingression, and in part
through its role in the endocytosis that helps convert an
epithelial cell to a mesenchyme cell.},
Key = {fds139602}
}
@article{fds152091,
Author = {Wu, S.-Y. and Ferkowicz, M. and D.R. McClay},
Title = {Ingression of primary mesenchyme cells of the sea urchin
embryo: a precisely timed epithelial mesenchymal
transition},
Journal = {Embryology Today, Reviews},
Volume = {81},
Pages = {241-252},
Year = {2007},
Key = {fds152091}
}
@article{fds152092,
Author = {Bradham, C. and D.R. McClay},
Title = {Secondary axis specification in the sea urchin.},
Journal = {Signal Transduction},
Volume = {7},
Pages = {181-190},
Year = {2007},
Key = {fds152092}
}
@article{fds52315,
Author = {CA Byrum and KD Walton and AJ Robertson and S Carbonneau and RT
Thomason, JA Coffman and DR McClay},
Title = {Protein tyrosine and serine-threonine phosphatases in the
sea urchin, Strongylocentrotus purpuratus: identification
and potential functions.},
Journal = {Developmental biology, United States},
Volume = {300},
Number = {1},
Pages = {194-218},
Year = {2006},
Month = {December},
Keywords = {Animals • Humans • Phosphoprotein Phosphatases
• Phylogeny • Protein-Serine-Threonine Kinases
• Protein-Tyrosine Kinases • Sea Urchins •
classification • enzymology* • metabolism •
metabolism*},
Abstract = {Protein phosphatases, in coordination with protein kinases,
play crucial roles in regulation of signaling pathways. To
identify protein tyrosine phosphatases (PTPs) and
serine-threonine (ser-thr) phosphatases in the
Strongylocentrotus purpuratus genome, 179 annotated
sequences were studied (122 PTPs, 57 ser-thr phosphatases).
Sequence analysis identified 91 phosphatases (33
conventional PTPs, 31 dual specificity phosphatases, 1 Class
III Cysteine-based PTP, 1 Asp-based PTP, and 25 ser-thr
phosphatases). Using catalytic sites, levels of conservation
and constraint in amino acid sequence were examined. Nine of
25 receptor PTPs (RPTPs) corresponded to human, nematode, or
fly homologues. Domain structure revealed that sea
urchin-specific RPTPs including two, PTPRLec and PTPRscav,
may act in immune defense. Embryonic transcription of each
phosphatase was recorded from a high-density oligonucleotide
tiling microarray experiment. Most RPTPs are expressed at
very low levels, whereas nonreceptor PTPs (NRPTPs) are
generally expressed at moderate levels. High expression was
detected in MAP kinase phosphatases (MKPs) and numerous
ser-thr phosphatases. For several expressed NRPTPs, MKPs,
and ser-thr phosphatases, morpholino antisense-mediated
knockdowns were performed and phenotypes obtained. Finally,
to assess roles of annotated phosphatases in endomesoderm
formation, a literature review of phosphatase functions in
model organisms was superimposed on sea urchin developmental
pathways to predict areas of functional activity.},
Key = {fds52315}
}
@article{fds52316,
Author = {F Lapraz and E Röttinger and V Duboc and R Range and L Duloquin and K
Walton, SY Wu and C Bradham and MA Loza and T Hibino and K Wilson and A
Poustka, D McClay and L Angerer and C Gache and T
Lepage},
Title = {RTK and TGF-beta signaling pathways genes in the sea urchin
genome.},
Journal = {Developmental biology, United States},
Volume = {300},
Number = {1},
Pages = {132-52},
Year = {2006},
Month = {December},
Keywords = {Amino Acid Sequence • Animals • Genome* •
Humans • Phylogeny • Protein-Tyrosine Kinases
• Sea Urchins • Sequence Alignment • Sequence
Homology, Amino Acid • Signal Transduction •
Transforming Growth Factor beta • Vertebrates •
genetics • genetics*},
Abstract = {The Receptor Tyrosine kinase (RTK) and TGF-beta signaling
pathways play essential roles during development in many
organisms and regulate a plethora of cellular responses.
From the genome sequence of Strongylocentrotus purpuratus,
we have made an inventory of the genes encoding receptor
tyrosine kinases and their ligands, and of the genes
encoding cytokines of the TGF-beta superfamily and their
downstream components. The sea urchin genome contains at
least 20 genes coding for canonical receptor tyrosine
kinases. Seventeen of the nineteen vertebrate RTK families
are represented in the sea urchin. Fourteen of these RTK
among which ALK, CCK4/PTK7, DDR, EGFR, EPH, LMR, MET/RON,
MUSK, RET, ROR, ROS, RYK, TIE and TRK are present as single
copy genes while pairs of related genes are present for
VEGFR, FGFR and INSR. Similarly, nearly all the subfamilies
of TGF-beta ligands identified in vertebrates are present in
the sea urchin genome including the BMP, ADMP, GDF, Activin,
Myostatin, Nodal and Lefty, as well as the TGF-beta sensu
stricto that had not been characterized in invertebrates so
far. Expression analysis indicates that the early expression
of nodal, BMP2/4 and lefty is restricted to the oral
ectoderm reflecting their role in providing positional
information along the oral-aboral axis of the embryo. The
coincidence between the emergence of TGF-beta-related
factors such as Nodal and Lefty and the emergence of the
deuterostome lineage strongly suggests that the ancestral
function of Nodal could have been related to the secondary
opening of the mouth which characterizes this clade, a
hypothesis supported by functional data in the extant
species. The sea urchin genome contains 6 genes encoding
TGF-beta receptors and 4 genes encoding prototypical Smad
proteins. Furthermore, most of the transcriptional
activators and repressors shown to interact with Smads in
vertebrates have orthologues in echinoderms. Finally, the
sea urchin genome contains an almost complete repertoire of
genes encoding extracellular modulators of BMP signaling
including Chordin, Noggin, Sclerotin, SFRP, Gremlin, DAN and
Twisted gastrulation. Taken together, these findings
indicate that the sea urchin complement of genes of the RTK
and TGF-beta signaling pathways is qualitatively very
similar to the repertoire present in vertebrates, and that
these genes are part of the common genetool kit for
intercellular signaling of deuterostomes.},
Key = {fds52316}
}
@article{fds52317,
Author = {JC Croce and SY Wu and C Byrum and R Xu and L Duloquin and AH
Wikramanayake, C Gache and DR McClay},
Title = {A genome-wide survey of the evolutionarily conserved Wnt
pathways in the sea urchin Strongylocentrotus
purpuratus.},
Journal = {Developmental biology, United States},
Volume = {300},
Number = {1},
Pages = {121-31},
Year = {2006},
Month = {December},
Keywords = {Amino Acid Sequence • Animals • Conserved Sequence
• Embryo, Nonmammalian • Gene Expression
Regulation, Developmental • Genome* • Molecular
Sequence Data • Phylogeny • Reverse Transcriptase
Polymerase Chain Reaction • Sea Urchins • Sequence
Homology, Amino Acid • Wnt Proteins •
classification • embryology • genetics* •
physiology},
Abstract = {The Wnt pathways are evolutionarily well-conserved signal
transduction pathways that are known to play important roles
in all Metazoans investigated to date. Here, we examine the
Wnt pathway genes and target genes present in the genome of
the echinoderm Strongylocentrotus purpuratus. Analysis of
the Wnt genes revealed that eleven of the thirteen reported
Wnt subfamilies are represented in sea urchin, with the
intriguing identification of a Wnt-A ortholog thought to be
absent in deuterostomes. A phylogenetic study of the
Frizzled proteins, the Wnt receptors, performed throughout
the animal kingdom showed that not all Frizzled subfamilies
were present in the metazoan common ancestor, e.g. Fz3/6
emerged later during evolution. Using sequence analysis,
orthologs of the vast majority of the cellular machinery
involved in transducing the three types of Wnt pathways were
found in the sea urchin genome. Furthermore, of about one
hundred target genes identified in other organisms, more
than half have clear echinoderm orthologs. Thus, these
analyses produce new inputs in the evolutionary history of
the Wnt genes in an animal occupying a position that offers
great insights into the basal properties of
deuterostomes.},
Key = {fds52317}
}
@article{fds52318,
Author = {KD Walton and JC Croce and TD Glenn and SY Wu and DR
McClay},
Title = {Genomics and expression profiles of the Hedgehog and Notch
signaling pathways in sea urchin development.},
Journal = {Developmental biology, United States},
Volume = {300},
Number = {1},
Pages = {153-64},
Year = {2006},
Month = {December},
Keywords = {Amino Acid Sequence • Animals • Base Sequence
• Cloning, Molecular • DNA Primers • Embryo,
Nonmammalian • Evolution, Molecular • Gene
Expression Profiling* • Gene Expression Regulation,
Developmental • Genomics* • Hedgehog Proteins
• Molecular Sequence Data • Polymerase Chain
Reaction • Receptors, Notch • Sea Urchins •
Sequence Alignment • Sequence Homology, Amino Acid
• Signal Transduction • embryology • genetics
• genetics* • growth & development •
physiology • physiology*},
Abstract = {The Hedgehog (Hh) and Notch signal transduction pathways
control a variety of developmental processes including cell
fate choice, differentiation, proliferation, patterning and
boundary formation. Because many components of these
pathways are conserved, it was predicted and confirmed that
pathway components are largely intact in the sea urchin
genome. Spatial and temporal location of these pathways in
the embryo, and their function in development offer added
insight into their mechanistic contributions. Accordingly,
all major components of both pathways were identified and
annotated in the sea urchin Strongylocentrotus purpuratus
genome and the embryonic expression of key components was
explored. Relationships of the pathway components, and
modifiers predicted from the annotation of S. purpuratus,
were compared against cnidarians, arthropods, urochordates,
and vertebrates. These analyses support the prediction that
the pathways are highly conserved through metazoan
evolution. Further, the location of these two pathways
appears to be conserved among deuterostomes, and in the case
of Notch at least, display similar capacities in
endomesoderm gene regulatory networks. RNA expression
profiles by quantitative PCR and RNA in situ hybridization
reveal that Hedgehog is produced by the endoderm beginning
just prior to invagination, and signals to the secondary
mesenchyme-derived tissues at least until the pluteus larva
stage. RNA in situ hybridization of Notch pathway members
confirms that Notch functions sequentially in the
vegetal-most secondary mesenchyme cells and later in the
endoderm. Functional analyses in future studies will embed
these pathways into the growing knowledge of gene regulatory
networks that govern early specification and
morphogenesis.},
Key = {fds52318}
}
@article{fds52320,
Author = {CA Bradham and KR Foltz and WS Beane and MI Arnone and F Rizzo and JA
Coffman, A Mushegian and M Goel and J Morales and AM Geneviere and F
Lapraz, AJ Robertson and H Kelkar and M Loza-Coll and IK Townley and M
Raisch, MM Roux and T Lepage and C Gache and DR McClay and G
Manning},
Title = {The sea urchin kinome: a first look.},
Journal = {Developmental biology, United States},
Volume = {300},
Number = {1},
Pages = {180-93},
Year = {2006},
Month = {December},
Keywords = {Animals • Embryo, Nonmammalian • Gene Expression
Regulation, Developmental • Phosphorylation •
Phylogeny • Protein Kinases • Sea Urchins •
Signal Transduction • classification • embryology
• genetics* • growth & development*},
Abstract = {This paper reports a preliminary in silico analysis of the
sea urchin kinome. The predicted protein kinases in the sea
urchin genome were identified, annotated and classified,
according to both function and kinase domain taxonomy. The
results show that the sea urchin kinome, consisting of 353
protein kinases, is closer to the Drosophila kinome (239)
than the human kinome (518) with respect to total kinase
number. However, the diversity of sea urchin kinases is
surprisingly similar to humans, since the urchin kinome is
missing only 4 of 186 human subfamilies, while Drosophila
lacks 24. Thus, the sea urchin kinome combines the
simplicity of a non-duplicated genome with the diversity of
function and signaling previously considered to be
vertebrate-specific. More than half of the sea urchin
kinases are involved with signal transduction, and
approximately 88% of the signaling kinases are expressed in
the developing embryo. These results support the strength of
this nonchordate deuterostome as a pivotal developmental and
evolutionary model organism.},
Key = {fds52320}
}
@article{fds52321,
Author = {WS Beane and E Voronina and GM Wessel and DR McClay},
Title = {Lineage-specific expansions provide genomic complexity among
sea urchin GTPases.},
Journal = {Developmental biology, United States},
Volume = {300},
Number = {1},
Pages = {165-79},
Year = {2006},
Month = {December},
Keywords = {Animals • GTP Phosphohydrolases • Genome* •
Humans • Isoenzymes • Multigene Family •
Phylogeny • Protein Biosynthesis • Sea Urchins
• classification • enzymology* • genetics
• genetics* • metabolism},
Abstract = {In every organism, GTP-binding proteins control many aspects
of cell signaling. Here, we examine in silico several GTPase
families from the Strongylocentrotus purpuratus genome: the
monomeric Ras superfamily, the heterotrimeric G proteins,
the dynamin superfamily, the SRP/SR family, and the "protein
biosynthesis" translational GTPases. Identified were 174
GTPases, of which over 90% are expressed in the embryo as
shown by tiling array and expressed sequence tag data.
Phylogenomic comparisons restricted to Drosophila, Ciona,
and humans (protostomes, urochordates, and vertebrates,
respectively) revealed both common and unique elements in
the expected composition of these families. Galpha and
dynamin families contain vertebrate expansions, consistent
with whole genome duplications, whereas SRP/SR and
translational GTPases are highly conserved. Unexpectedly,
Ras superfamily analyses revealed several large (5+)
lineage-specific expansions in the sea urchin. For Rho, Rab,
Arf, and Ras subfamilies, comparing total human gene numbers
to the number of sea urchin genes with vertebrate orthologs
suggests reduced genomic complexity in the sea urchin.
However, gene duplications in the sea urchin increase
overall numbers such that total sea urchin gene numbers
approximate vertebrate gene numbers for each monomeric
GTPase family. These findings suggest that lineage-specific
expansions may be an important component of genomic
evolution in signal transduction.},
Key = {fds52321}
}
@article{fds52322,
Author = {AJ Robertson and J Croce and S Carbonneau and E Voronina and E Miranda and DR McClay and JA Coffman},
Title = {The genomic underpinnings of apoptosis in Strongylocentrotus
purpuratus.},
Journal = {Developmental biology, United States},
Volume = {300},
Number = {1},
Pages = {321-34},
Year = {2006},
Month = {December},
Keywords = {Amino Acid Sequence • Animals • Apoptosis •
Caspases • Cell Death • Consensus Sequence •
Genome* • Models, Biological • Molecular Sequence
Data • Phylogeny • Sea Urchins • Sequence
Alignment • Sequence Homology, Amino Acid •
classification • cytology • genetics •
genetics* • physiology},
Abstract = {Programmed cell death through apoptosis is a pan-metazoan
character involving intermolecular signaling networks that
have undergone substantial lineage-specific evolution. A
survey of apoptosis-related proteins encoded in the sea
urchin genome provides insight into this evolution while
revealing some interesting novelties, which we highlight
here. First, in addition to a typical CARD-carrying Apaf-1
homologue, sea urchins have at least two novel Apaf-1-like
proteins that are each linked to a death domain, suggesting
that echinoderms have evolved unique apoptotic signaling
pathways. Second, sea urchins have an unusually large number
of caspases. While the set of effector caspases
(caspases-3/7 and caspase-6) in sea urchins is similar to
that found in other basal deuterostomes, signal-responsive
initiator caspase subfamilies (caspases-8/10 and 9, which
are respectively linked to DED and CARD adaptor domains)
have undergone echinoderm-specific expansions. In addition,
there are two groups of divergent caspases, one distantly
related to the vertebrate interleukin converting enzyme
(ICE)-like subfamily, and a large clan that does not cluster
with any of the vertebrate caspases. Third, the complexity
of proteins containing an anti-apoptotic BIR domain and of
Bcl-2 family members approaches that of vertebrates, and is
greater than that found in protostome model systems such as
Drosophila or Caenorhabditis elegans. Finally, the presence
of Death receptor homologues, previously known only in
vertebrates, in both Strongylocentrotus purpuratus and
Nematostella vectensis suggests that this family of
apoptotic signaling proteins evolved early in animals and
was subsequently lost in the nematode and arthropod
lineage(s). Our results suggest that cell survival is
contingent upon a diverse array of signals in sea urchins,
more comparable in complexity to vertebrates than to
arthropods or nematodes, but also with unique features that
may relate to specific requirements imposed by the biphasic
life cycle and/or immunological idiosyncrasies of this
organism.},
Key = {fds52322}
}
@article{fds52314,
Author = {Sea Urchin Genome Sequencing Consortium and E Sodergren and GM
Weinstock, EH Davidson and RA Cameron and RA Gibbs and RC Angerer and LM
Angerer, MI Arnone and DR Burgess and RD Burke and JA Coffman and M
Dean, MR Elphick and CA Ettensohn and KR Foltz and A Hamdoun and RO
Hynes, WH Klein and W Marzluff and DR McClay and RL Morris and A
Mushegian, JP Rast and LC Smith and MC Thorndyke and VD Vacquier and GM
Wessel, G Wray and L Zhang and CG Elsik and O Ermolaeva and W Hlavina and G
Hofmann, P Kitts and MJ Landrum and AJ Mackey and D Maglott and G
Panopoulou, AJ Poustka and K Pruitt and V Sapojnikov and X Song and A
Souvorov, V Solovyev and Z Wei and CA Whittaker and K Worley and KJ
Durbin, Y Shen and O Fedrigo and D Garfield and R Haygood and A Primus and R Satija and T Severson and ML Gonzalez-Garay and AR Jackson and A
Milosavljevic, M Tong and CE Killian and BT Livingston and FH Wilt and N
Adams, R Bellé and S Carbonneau and R Cheung and P Cormier and B
Cosson, J Croce and A Fernandez-Guerra and AM Genevière and M Goel and H Kelkar and J Morales and O Mulner-Lorillon and AJ Robertson and JV
Goldstone, B Cole and D Epel and B Gold and ME Hahn and M Howard-Ashby and M Scally and JJ Stegeman and EL Allgood and J Cool and KM Judkins and SS
McCafferty, AM Musante and RA Obar and AP Rawson and BJ Rossetti and IR
Gibbons, MP Hoffman and A Leone and S Istrail and SC Materna and MP
Samanta, V Stolc and W Tongprasit and Q Tu and KF Bergeron and BP
Brandhorst, J Whittle and K Berney and DJ Bottjer and C Calestani and K
Peterson, E Chow and QA Yuan and E Elhaik and D Graur and JT Reese and I
Bosdet, S Heesun and MA Marra and J Schein and MK Anderson and V
Brockton, KM Buckley and AH Cohen and SD Fugmann and T Hibino and M
Loza-Coll, AJ Majeske and C Messier and SV Nair and Z Pancer and DP
Terwilliger, C Agca and E Arboleda and N Chen and AM Churcher and F
Hallböök, GW Humphrey and MM Idris and T Kiyama and S Liang and D
Mellott, X Mu and G Murray and RP Olinski and F Raible and M Rowe and JS
Taylor, K Tessmar-Raible and D Wang and KH Wilson and S Yaguchi and T
Gaasterland, BE Galindo and HJ Gunaratne and C Juliano and M
Kinukawa, GW Moy and AT Neill and M Nomura and M Raisch and A Reade and MM
Roux, JL Song and YH Su and IK Townley and E Voronina and JL Wong and G
Amore, M Branno and ER Brown and V Cavalieri and V Duboc and L Duloquin and C Flytzanis and C Gache and F Lapraz and T Lepage and A Locascio and P
Martinez, G Matassi and V Matranga and R Range and F Rizzo and E
Röttinger, W Beane and C Bradham and C Byrum and T Glenn and S Hussain and G Manning and E Miranda and R Thomason and K Walton and A Wikramanayke and SY Wu and R Xu and CT Brown and L Chen and RF Gray and PY Lee and J Nam and P
Oliveri, J Smith and D Muzny and S Bell and J Chacko and A Cree and S
Curry, C Davis and H Dinh and S Dugan-Rocha and J Fowler and R Gill and C
Hamilton, J Hernandez and S Hines and J Hume and L Jackson and A
Jolivet, C Kovar and S Lee and L Lewis and G Miner and M Morgan and LV
Nazareth, G Okwuonu and D Parker and LL Pu and R Thorn and R
Wright},
Title = {The genome of the sea urchin Strongylocentrotus
purpuratus.},
Journal = {Science (New York, N.Y.), United States},
Volume = {314},
Number = {5801},
Pages = {941-52},
Year = {2006},
Month = {November},
Keywords = {Animals • Calcification, Physiologic • Cell
Adhesion Molecules • Complement Activation •
Computational Biology • Embryonic Development •
Evolution, Molecular • Gene Expression Regulation,
Developmental • Genes • Genome* • Immunity,
Natural • Immunologic Factors • Male •
Nervous System Physiology • Proteins • Sequence
Analysis, DNA* • Signal Transduction •
Strongylocentrotus purpuratus • Transcription Factors
• embryology • genetics • genetics* •
immunology • physiology},
Abstract = {We report the sequence and analysis of the 814-megabase
genome of the sea urchin Strongylocentrotus purpuratus, a
model for developmental and systems biology. The sequencing
strategy combined whole-genome shotgun and bacterial
artificial chromosome (BAC) sequences. This use of BAC
clones, aided by a pooling strategy, overcame difficulties
associated with high heterozygosity of the genome. The
genome encodes about 23,300 genes, including many previously
thought to be vertebrate innovations or known only outside
the deuterostomes. This echinoderm genome provides an
evolutionary outgroup for the chordates and yields insights
into the evolution of deuterostomes.},
Key = {fds52314}
}
@article{fds52319,
Author = {P Oliveri and KD Walton and EH Davidson and DR McClay},
Title = {Repression of mesodermal fate by foxa, a key endoderm
regulator of the sea urchin embryo.},
Journal = {Development (Cambridge, England), England},
Volume = {133},
Number = {21},
Pages = {4173-81},
Year = {2006},
Month = {November},
Keywords = {Animals • Body Patterning • Cell Lineage •
Embryonic Structures • Endoderm • Forkhead
Transcription Factors • Gene Expression Regulation,
Developmental* • In Situ Hybridization • Mesoderm
• Mouth • Oligonucleotides, Antisense •
Recombinant Proteins • Signal Transduction •
Strongylocentrotus purpuratus • anatomy & histology
• embryology • embryology* • genetics •
genetics* • metabolism • metabolism* •
physiology • physiology*},
Abstract = {The foxa gene is an integral component of the endoderm
specification subcircuit of the endomesoderm gene regulatory
network in the Strongylocentrotus purpuratus embryo. Its
transcripts become confined to veg2, then veg1 endodermal
territories, and, following gastrulation, throughout the
gut. It is also expressed in the stomodeal ectoderm. gatae
and otx genes provide input into the pregastrular regulatory
system of foxa, and Foxa represses its own transcription,
resulting in an oscillatory temporal expression profile.
Here, we report three separate essential functions of the
foxa gene: it represses mesodermal fate in the veg2
endomesoderm; it is required in postgastrular development
for the expression of gut-specific genes; and it is
necessary for stomodaeum formation. If its expression is
reduced by a morpholino, more endomesoderm cells become
pigment and other mesenchymal cell types, less gut is
specified, and the larva has no mouth. Experiments in which
blastomere transplantation is combined with foxa MASO
treatment demonstrate that, in the normal endoderm, a
crucial role of Foxa is to repress gcm expression in
response to a Notch signal, and hence to repress mesodermal
fate. Chimeric recombination experiments in which veg2, veg1
or ectoderm cells contained foxa MASO show which region of
foxa expression controls each of the three functions. These
experiments show that the foxa gene is a component of three
distinct embryonic gene regulatory networks.},
Key = {fds52319}
}
@article{fds52323,
Author = {JC Croce and DR McClay},
Title = {The canonical Wnt pathway in embryonic axis
polarity.},
Journal = {Seminars in cell & developmental biology,
England},
Volume = {17},
Number = {2},
Pages = {168-74},
Year = {2006},
Month = {April},
Keywords = {Animals • Body Patterning* • Sea Urchins •
Signal Transduction* • Wnt Proteins • Xenopus
• embryology* • metabolism •
physiology*},
Abstract = {The canonical Wnt pathway plays crucial roles in multiple
developmental processes, including in axis specification.
Throughout the animal kingdom, this pathway has been
reported to drive patterning of axes as different as the
animal-vegetal axis in echinoderms to the dorsal-ventral
axis in vertebrates. Intriguingly enough, this pathway
appears structurally and functionally well conserved during
evolution. However, differences between these phyla are
observed that explain how a same pathway can mediate
establishment of two such apparently distinct axes. This
review compares the axis specification processes used in two
evolutionarily distant embryos, the sea urchin and
Xenopus.},
Key = {fds52323}
}
@article{fds52324,
Author = {C Bradham and DR McClay},
Title = {p38 MAPK in development and cancer.},
Journal = {Cell cycle (Georgetown, Tex.), United States},
Volume = {5},
Number = {8},
Pages = {824-8},
Year = {2006},
Month = {April},
Keywords = {Animals • Apoptosis* • Cell Cycle •
Colorectal Neoplasms • Cytokines • Disease
Progression • Gene Expression Regulation,
Developmental* • Gene Expression Regulation,
Neoplastic* • Humans • Models, Biological •
Neoplasm Metastasis • Neoplasms • genetics •
metabolism • p38 Mitogen-Activated Protein Kinases
• pathology • pathology* •
physiology*},
Abstract = {p38 is a MAPK that has been shown to induce a wide variety
of biological effects in cell culture in response to a wide
range of stimuli. These effects are dependent not only on
the stimuli, but also on the cellular context, resulting in
a bewildering array of possibilities. For example, p38 was
shown to induce apoptosis in some cells, but prevent
apoptosis in others. Similarly opposed effects had been
observed with respect to cell cycle regulation. The role of
p38 in inflammatory disease has been appreciated from the
beginning, since it was initially identified as an cytokine
inducer. More recently, p38 function has been evaluated in
vivo, and through these studies p38 has emerged as an
important regulator of both embryonic development and cancer
progression. This review will focus on these in vivo studies
in an effort to provide perspective on p38 biologically and
as a pharmacological target.},
Key = {fds52324}
}
@article{fds52325,
Author = {WS Beane and JM Gross and DR McClay},
Title = {RhoA regulates initiation of invagination, but not
convergent extension, during sea urchin gastrulation.},
Journal = {Developmental biology, United States},
Volume = {292},
Number = {1},
Pages = {213-25},
Year = {2006},
Month = {April},
Keywords = {Animals • Cloning, Molecular • Cytoskeleton •
Extracellular Matrix • Fetal Proteins • Gastrula
• Lytechinus • Molecular Sequence Data •
Sequence Analysis, Protein • T-Box Domain Proteins
• antagonists & inhibitors • embryology* •
genetics • metabolism • physiology •
physiology* • rhoA GTP-Binding Protein},
Abstract = {During gastrulation, the archenteron is formed using cell
shape changes, cell rearrangements, filopodial extensions,
and convergent extension movements to elongate and shape the
nascent gut tube. How these events are coordinated remains
unknown, although much has been learned from careful
morphological examinations and molecular perturbations. This
study reports that RhoA is necessary to trigger archenteron
invagination in the sea urchin embryo. Inhibition of RhoA
results in a failure to initiate invagination movements,
while constitutively active RhoA induces precocious
invagination of the archenteron, complete with the actin
rearrangements and extracellular matrix secretions that
normally accompany the onset of invagination. Although RhoA
activity has been reported to control convergent extension
movements in vertebrate embryos, experiments herein show
that RhoA activity does not regulate convergent extension
movements during sea urchin gastrulation. Instead, the
results support the hypothesis that RhoA serves as a trigger
to initiate invagination, and once initiation occurs, RhoA
activity is no longer involved in subsequent gastrulation
movements.},
Key = {fds52325}
}
@article{fds52326,
Author = {J Croce and L Duloquin and G Lhomond and DR McClay and C
Gache},
Title = {Frizzled5/8 is required in secondary mesenchyme cells to
initiate archenteron invagination during sea urchin
development.},
Journal = {Development (Cambridge, England), England},
Volume = {133},
Number = {3},
Pages = {547-57},
Year = {2006},
Month = {February},
Keywords = {Animals • Body Patterning* • Cell Polarity •
Embryonic Development • Frizzled Receptors •
Gastrula • Gene Expression Regulation, Developmental
• Humans • Mesoderm • Phylogeny •
Receptors, Notch • Sea Urchins* • Signal
Transduction • Wnt Proteins • anatomy & histology
• classification • cytology • embryology
• genetics • growth & development •
metabolism • metabolism* • physiology •
physiology*},
Abstract = {Wnt signaling pathways play key roles in numerous
developmental processes both in vertebrates and
invertebrates. Their signals are transduced by Frizzled
proteins, the cognate receptors of the Wnt ligands. This
study focuses on the role of a member of the Frizzled
family, Fz5/8, during sea urchin embryogenesis. During
development, Fz5/8 displays restricted expression, beginning
at the 60-cell stage in the animal domain and then from
mesenchyme blastula stage, in both the animal domain and a
subset of secondary mesenchyme cells (SMCs).
Loss-of-function analyses in whole embryos and chimeras
reveal that Fz5/8 is not involved in the specification of
the main embryonic territories. Rather, it appears to be
required in SMCs for primary invagination of the
archenteron, maintenance of endodermal marker expression and
apical localization of Notch receptors in endodermal cells.
Furthermore, among the three known Wnt pathways, Fz5/8
appears to signal via the planar cell polarity pathway.
Taken together, the results suggest that Fz5/8 plays a
crucial role specifically in SMCs to control primary
invagination during sea urchin gastrulation.},
Key = {fds52326}
}
@article{fds52327,
Author = {CA Bradham and DR McClay},
Title = {p38 MAPK is essential for secondary axis specification and
patterning in sea urchin embryos.},
Journal = {Development (Cambridge, England), England},
Volume = {133},
Number = {1},
Pages = {21-32},
Year = {2006},
Month = {January},
Keywords = {Amino Acid Sequence • Animals • Blotting, Western
• Body Patterning • Computational Biology •
Gene Expression Regulation, Developmental* • Gene
Library • In Situ Hybridization • Models,
Biological • Molecular Sequence Data • Mouth
• Oligonucleotides • Reverse Transcriptase
Polymerase Chain Reaction • Sea Urchins* •
Transforming Growth Factor beta • embryology* •
enzymology • metabolism* • p38 Mitogen-Activated
Protein Kinases • physiology*},
Abstract = {Most eggs in the animal kingdom establish a primary,
animal-vegetal axis maternally, and specify the remaining
two axes during development. In sea urchin embryos, the
expression of Nodal on the oral (ventral) side of the embryo
is the first known molecular determinant of the oral-aboral
axis (the embryonic dorsoventral axis), and is crucial for
specification of the oral territory. We show that p38 MAPK
acts upstream of Nodal and is required for Nodal expression
in the oral territory. p38 is uniformly activated early in
development, but, for a short interval at late blastula
stage, is asymmetrically inactivated in future aboral
nuclei. Experiments show that this transient asymmetry of
p38 activation corresponds temporally to both oral
specification and the onset of oral Nodal expression.
Uniform inhibition of p38 prevents Nodal expression and axis
specification, resulting in aboralized embryos. Nodal and
its target Gsc each rescue oral-aboral specification and
patterning when expressed asymmetrically in p38-inhibited
embryos. Thus, our results indicate that p38 is required for
oral specification through its promotion of Nodal expression
in the oral territory.},
Key = {fds52327}
}
@article{fds139604,
Author = {KL Deak and AL Boyles and HC Etchevers and EC Melvin and DG Siegel and FL
Graham, SH Slifer and DS Enterline and TM George and M Vekemans and D
McClay, AG Bassuk and JA Kessler and E Linney, JR Gilbert and MC
Speer},
Title = {SNPs in the neural cell adhesion molecule 1 gene (NCAM1) may
be associated with human neural tube defects.},
Journal = {Human genetics, Germany},
Volume = {117},
Number = {2-3},
Pages = {133-42},
Year = {2005},
Month = {July},
Keywords = {Gene Expression Regulation, Developmental • Haplotypes
• Humans • Introns • Linkage Disequilibrium
• Meningocele • Neural Cell Adhesion Molecules
• Pedigree • Polymorphism, Single Nucleotide*
• Spinal Cord • biosynthesis • embryology
• genetics • genetics* • metabolism •
pathology},
Abstract = {Neural tube defects (NTDs) are common birth defects,
occurring in approximately 1/1,000 births; both genetic and
environmental factors are implicated. To date, no major
genetic risk factors have been identified. Throughout
development, cell adhesion molecules are strongly implicated
in cell-cell interactions, and may play a role in the
formation and closure of the neural tube. To evaluate the
role of neural cell adhesion molecule 1 (NCAM1) in risk of
human NTDs, we screened for novel single-nucleotide
polymorphisms (SNPs) within the gene. Eleven SNPs across
NCAM1 were genotyped using TaqMan. We utilized a
family-based approach to evaluate evidence for association
and/or linkage disequilibrium. We evaluated American
Caucasian simplex lumbosacral myelomeningocele families
(n=132 families) using the family based association test
(FBAT) and the pedigree disequilibrium test (PDT).
Association analysis revealed a significant association
between risk for NTDs and intronic SNP rs2298526 using both
the FBAT test (P=0.0018) and the PDT (P=0.0025). Using the
HBAT version of the FBAT to look for haplotype association,
all pairwise comparisons with SNP rs2298526 were also
significant. A replication study set, consisting of 72
additional families showed no significant association;
however, the overall trend for overtransmission of the less
common allele of SNP rs2298526 remained significant in the
combined sample set. In addition, we analyzed the expression
pattern of the NCAM1 protein in human embryos, and while
NCAM1 is not expressed within the neural tube at the time of
closure, it is expressed in the surrounding and later in
differentiated neurons of the CNS. These results suggest
variations in NCAM1 may influence risk for human
NTDs.},
Key = {fds139604}
}
@article{fds139603,
Author = {RE Peterson and DR McClay},
Title = {A Fringe-modified Notch signal affects specification of
mesoderm and endoderm in the sea urchin embryo.},
Journal = {Developmental biology, United States},
Volume = {282},
Number = {1},
Pages = {126-37},
Year = {2005},
Month = {June},
Keywords = {Animals • Blotting, Northern • Blotting, Western
• Cell Differentiation • Cloning, Molecular •
Computational Biology • Endoderm • Gene Expression
Regulation, Developmental • Membrane Proteins •
Mesoderm • N-Acetylglucosaminyltransferases •
Oligonucleotides, Antisense • Phylogeny •
Receptors, Notch • Sea Urchins • Sequence
Analysis, DNA • Signal Transduction • embryology*
• genetics • metabolism • metabolism* •
physiology • physiology*},
Abstract = {Fringe proteins are O-fucose-specific beta-1,3
N-acetylglucosaminyltransferases that glycosylate the
extracellular EGF repeats of Notch and enable Notch to be
activated by the ligand Delta. In the sea urchin, signaling
between Delta and Notch is known to be necessary for
specification of secondary mesenchyme cells (SMCs). The
Lytechinus variegatus Fringe homologue is expressed in both
the signaling and receiving cells during this first
Delta-Notch signal. Perturbation of Fringe expression
through morpholino antisense oligonucleotide (MO) injection
results in fewer SMCs but also causes decreased and delayed
archenteron invagination. Partial endoderm specification
occurs but expression of some endoderm genes is compromised.
The data are consistent with a Fringe-requiring Notch signal
as one upstream component of archenteron morphogenesis.
Finally, Fringe perturbations result in more severe
phenotypes than those previously reported for Notch
dominant-negative (LvN(neg)) injections or reported here for
Notch MO (NMO) injections. Injecting a combination of
LvN(neg) and NMO results in a more severe phenotype than
either treatment alone, and this combination phenocopies the
fringe MO embryos. Taken together, the results show that
Fringe is necessary both for maternal and zygotic Notch
signals, and these Notch signals affect specification of
mesoderm and endoderm.},
Key = {fds139603}
}
@article{fds139605,
Author = {RC Range and JM Venuti and DR McClay},
Title = {LvGroucho and nuclear beta-catenin functionally compete for
Tcf binding to influence activation of the endomesoderm gene
regulatory network in the sea urchin embryo.},
Journal = {Developmental biology, United States},
Volume = {279},
Number = {1},
Pages = {252-67},
Year = {2005},
Month = {March},
Keywords = {Amino Acid Sequence • Animals • Basic
Helix-Loop-Helix Transcription Factors • Conserved
Sequence • Cytoskeletal Proteins • DNA-Binding
Proteins • Drosophila • Drosophila Proteins •
Embryo, Nonmammalian • Endoderm • Gene Expression
Regulation, Developmental • Histone Deacetylases •
Humans • Mesoderm • Molecular Sequence Data •
Phylogeny • Polymerase Chain Reaction • RNA,
Messenger • Repressor Proteins • Sea Urchins
• Sequence Alignment • Sequence Homology, Amino
Acid • Trans-Activators • Transcription Factors
• beta Catenin • classification • embryology*
• genetics • metabolism •
physiology*},
Abstract = {In the sea urchin embryo, specification of the endomesoderm
is accomplished by the activity of a network of regulatory
genes in the vegetal hemisphere, called the endomesoderm
gene regulatory network (GRN). The activation of this
network is mediated primarily through the activity of the
Wnt pathway, though details of pathway activation remain
unclear. To gain further insight into control of
endomesoderm GRN activation, we have identified a sea urchin
homologue of the co-repressor Groucho (LvGroucho) that has
been shown to antagonize beta-catenin/Tcf activation
complexes during Wnt signaling in other systems. Groucho
functions by recruiting the histone deacetylase Rpd3 to the
DNA template via interaction with site-specific
transcription factors, resulting in localized chromatin
condensation and transcriptional silencing. Our results show
that the LvGroucho protein localizes to all nuclei
throughout embryonic development. Interaction assays
demonstrate that LvGroucho interacts with Tcf via both the Q
and the WD domains of the protein. LvGroucho interacts with
Tcf to antagonize the expression of key endomesoderm
regulatory genes. Assays demonstrate that LvGroucho and n
beta-catenin functionally compete for binding to Tcf as a
major mechanism by which the Tcf-control switch is
regulated. Functional analysis of the N-terminal AES197
domain of LvGroucho shows that it is sufficient to
recapitulate the function of full-length LvGroucho. This
finding strongly supports the conclusion that the effects of
LvGro overexpression are due primarily to its interactions
with Tcf and not other Groucho interacting partners, since
Tcf is the only protein present in the sea urchin known to
interact with AES197. Because the Q domain is unable to bind
Rpd3, it was expected to behave as a dominant negative
LvGroucho. Unexpectedly, overexpression of the Q domain gave
functional results similar to LvGroucho and the AES197
domain. This is the first evidence for an inherent
repressive function for the Q domain alone. Together, our
results indicate that LvGroucho functionally competes with
beta-catenin for Tcf binding, and this competitive mechanism
regulates one of the earliest steps in the initiation of the
sea urchin endomesoderm GRN.},
Key = {fds139605}
}
@article{fds29409,
Author = {McClay, D.R. and Gross, J. and Peterson, R. and C.
Bradham},
Title = {Mechanism of gastrulation in the Sea urchin.},
Pages = {123-138.},
Booktitle = {“Gastrulation"},
Publisher = {Cold Spring Harbor Laboratory Press, Cold Spring Harbor,
NY.},
Editor = {Claudio Stern},
Year = {2004},
Key = {fds29409}
}
@article{fds29410,
Author = {McClay, D.R and Range, R. and Sherwood, D.R},
Title = {The Notch pathway in gastrulation.},
Pages = {. 539-548},
Booktitle = {“Gastrulation”},
Publisher = {Cold Spring Harbor Laboratory Press, Cold Spring Harbor,
NY},
Editor = {Claudio Stern},
Year = {2004},
Key = {fds29410}
}
@article{fds29411,
Author = {Bradham, C.A. and E. Miranda and D. R. McClay},
Title = {PI3K Activity is Required for Skeletogenesis in Sea Urchin
Embryos.},
Journal = {Dev Dyn},
Volume = {229},
Pages = {713-721},
Year = {2004},
Key = {fds29411}
}
@article{fds29412,
Author = {D.R. McClay},
Title = {Methods for embryo dissociation and for studying cell
associations using sea urchin material},
Journal = {Methods of Cell Biology},
Volume = {74},
Pages = {311-329},
Year = {2004},
Key = {fds29412}
}
@article{fds29413,
Author = {Wikramanayake, A.H. and R. Peterson and J. Chen and L. Huang and D.R.
McClay, W.H. Klein},
Title = {Selective expression of Wnt8 in vegetal cells of the early
sea urchin embryo mediates endomesoderm specification in a
nuclear beta-catenin-dependent manner},
Journal = {Genesis},
Volume = {39},
Pages = {194-205},
Year = {2004},
Key = {fds29413}
}
@article{fds29414,
Author = {Otim O and Amore G and Minokawa T and McClay DR and Davidson
EH.},
Title = {SpHnf6, a transcription factor that executes multiple
functions in sea urchin embryogenesis.},
Journal = {Dev. Biol.},
Volume = {273},
Pages = {226-243},
Year = {2004},
Key = {fds29414}
}
@article{fds29416,
Author = {KL Bastress and HC Etchevers and AL Boyles and EC Melvin and DG Siegel and FL Graham and S Slifer and DS Enterline and TM George and M Vekemans and D
McClay, AG Bassuk and JA Kessler and E Linney, JR Gilbert and M C
Speer},
Title = {SNPs in NCAM1 may be associated with human neural tube
defects},
Journal = {Submitted},
Year = {2004},
Key = {fds29416}
}
@article{fds139606,
Author = {DR McClay},
Title = {Methods for embryo dissociation and analysis of cell
adhesion.},
Journal = {Methods in cell biology, United States},
Volume = {74},
Pages = {311-29},
Year = {2004},
Keywords = {Animals • Biological Assay • Cell Adhesion •
Cell Separation • Embryo, Nonmammalian • Female
• Microdissection • Models, Animal • Ovum
• Sea Urchins • cytology • embryology* •
growth & development • instrumentation • methods
• methods* • physiology},
Key = {fds139606}
}
@article{fds14858,
Author = {Gross, J.M and R.E. Peterson and D.R. McClay},
Title = {LvTbx2/3, a T-box Family Transcription Factor Involved in
Formation of the Oral/Aboral Axis of the Sea Urchin
Embryo},
Journal = {Development},
Volume = {130},
Pages = {1989-1999},
Year = {2003},
Key = {fds14858}
}
@article{fds14857,
Author = {R.E. Peterson and D.R. McClay},
Title = {Primary mesenchyme cell patterning during the early stages
following ingression},
Journal = {Dev. Biol.},
Volume = {254},
Pages = {68-78},
Year = {2003},
Key = {fds14857}
}
@article{fds14856,
Author = {E. H. Davidson and D. R. McClay and L. Hood},
Title = {Regulatory gene networks and the properties of the
developmental process},
Journal = {PNAS},
Volume = {100},
Pages = {1475-1480},
Year = {2003},
Key = {fds14856}
}
@article{fds14853,
Author = {Oliveri, P. E.H. Davidson and D.R. McClay},
Title = {Activation of pmar1 controls specification of micromeres in
the sea urchin embryo},
Journal = {Dev. Biol},
Volume = {258},
Pages = {25-38},
Year = {2003},
Key = {fds14853}
}
@article{fds14854,
Author = {Amore, G. and R.G. Yavrouian and K.J. Peterson and A. Ransick and D.R.
McClay and E.H. Davidson},
Title = {Spdeadringer, a sea urchin embryo gene required separately
in skeletogenic and oral ectoderm regulatory gene
networks},
Journal = {Dev. Biol.},
Volume = {261},
Pages = {55-81},
Year = {2003},
Key = {fds14854}
}
@article{fds3494,
Author = {E.H. Davidson and J.P. Rast and P.Oliveri, R.A. Cameron and A.
Ransick, C.Calestani and Ch.-H.Yuh, T. Minokawa and G. Amore and V.
Hinman, C. Arenas-Mena and O.Otim, C.T. Brown and C. Livi and P.-y.
Lee, R. Revilla and A.G. Rust and Z J. Pan and M. Schilstra and P.J.
Clark},
Title = {A genomic network for Development.},
Journal = {Science},
Volume = {295},
Pages = {1669-1678},
Year = {2002},
Month = {December},
Key = {fds3494}
}
@article{fds3492,
Author = {EH Davidson and JP Rast and P Oliveri and RA Cameron and A Ransick and Ch-H
Yuh, C Calestani and G Amore and V Hinman and T Minokawa and C
Arenas-Mena, O Otim and CT Brown and C Livi and P-y Lee and R. Revilla and PJC Clarke and DR McClay and MI Arnone and L Rowan and LE Hood and H
Bolouri},
Title = {A Provisional Regulatory Gene Network for Specification of
Endomesoderm in the Sea Urchin Embryo},
Journal = {Dev. Biol.},
Volume = {246},
Pages = {162-190},
Year = {2002},
Key = {fds3492}
}
@article{fds33457,
Author = {Gross, JM and McClay DR},
Title = {The Role of Brachyruy (T) During Gastrulations Movement in
the Sea Urchin, Lytechinus variegatus},
Journal = {Developmental Biology},
Volume = {239},
Pages = {232-247},
Year = {2001},
Key = {fds33457}
}
@article{fds33461,
Author = {D.R. McClay and Peterson, R. and Range, R. and Winter-Vann, A. and Ferkowicz, M.},
Title = {micromere induction signal is activated by B-catenin and
acts through Notch to initiate specification of secondary
mesenchyme cells in the sea urchin embryo},
Journal = {Development},
Volume = {127},
Pages = {5113-5122},
Year = {2000},
Key = {fds33461}
}
@article{fds33459,
Author = {Angerer, LM and D Oleksyn and CY Logan DR McClay and L Dale and RC
Angerer},
Title = {A BMP pathway regulates cell fate allocation along the sea
urchin animal-vegetal embryonic axis},
Journal = {Development},
Volume = {127},
Pages = {1105-1114},
Year = {2000},
Key = {fds33459}
}
@article{fds3747,
Author = {Wessel, G.M. and L. Berg and D. Adelson and G. Cannon and D.R.
McClay},
Title = {A molecularanalysis of hyalin, the major component of the
cortical granules that is secreted at fertilization of the
sea urchin egg.},
Journal = {Dev. Biol},
Volume = {193},
Pages = {115-126},
Year = {1983},
Month = {December},
Key = {fds3747}
}
%% Papers Submitted
@article{fds139810,
Author = {Byrum, C.A. and J. M. Bince and R.H. Xu and M.H. Illies and D.R. McClay and C. Ettensohn and A.H. Wikramanayake},
Title = {Roles of Dsh in the regulation of sea urchin
gastrulation.},
Journal = {Dev Dyn},
Year = {2008},
Month = {December},
Key = {fds139810}
}
@article{fds139811,
Author = {J Croce and R Range and S-Y Wu and E Miranda and A Wikramanayake and T
Lepage and DR. McClay},
Title = {Maternal determinants in the vegetal cortex are required to
activate the sea urchin endomesoderm gene regulatory
network},
Journal = {Development},
Year = {2008},
Key = {fds139811}
}
@article{fds139812,
Author = {Bradham, CA. and C Oikonomou and W. Modell and D R. McClay and A
J.Poustka},
Title = {Chordin is required for neural but not axial specification
in sea urchin embryos},
Journal = {Dev Biol},
Year = {2008},
Key = {fds139812}
}
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