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Effects Of Ciona Intestinalis Distal-less-B Nonexpression And Overexpression On Phenotype And Downstream Targets

Matthew D. Blanchette
Published 2013 · Biology

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Ciona intestinalis can serve as a useful model for developmental studies in the chordate lineage due to its basal position in the chordate phylogeny. It shows a simplified chordate body plan during its development, during which important genetic pathways are conserved with vertebrates, and its developmental gene regulation can be manipulated through the insertion of transgenic DNA by electroporation. The Distalless (Dll) genes are a family of homeobox genes in chordates that are homologous to the single Dll gene of other metazoan animal groups and code for developmental factors that play a role in determining multiple developmental cell fates. These include broadly conserved roles in appendage development and sensory functions of the central nervous system, as well as more novel roles such as differentiation of the epidermis in chordates. In C. intestinalis, Dll-B transcripts are expressed throughout the prospective epidermis during gastrulation. To study the role of Ci-Dll-B in development, I have produced a transgenic dominant negative form of Ci-Dll-B by making use of the Drosophila engrailed repressor domain (EnR). I then examined its effects on development. Embryos electroporated with this construct showed defects in adhesion of cells in the epidermis. Whole mount in situ hybridization analysis of known Ci-Dll-B downstream targets showed changes in gene expression only in certain targets, suggesting a degree of redundancy in the regulation of the epidermal development program. Phenotypic analysis and immunofluorescent staining of epidermal markers suggest that Ci-Dll-B has a role in the regulation of cell adhesion or differentiation, since Ci-Dll-B knock-down alters the expression pattern of collagen and laminin. I also attempted to identify Ci-Dll-B gene targets through suppression subtractive hybridization, but was unsuccessful. These results are consistent with earlier reports that Dll genes could have a role inducing final differentiation in the epidermis. This work characterizing a key gene in epidermal development may have implications for epidermal development in other chordates, such as mammals.
This paper references
10.1126/SCIENCE.23.583.340
The Organization and Cell-lineage of the Ascidian Egg
C. Child (1906)
Memoirs: The Morphology of the Tunicata, and its Bearings on the Phylogeny of the Chordata
W. Garstang (1928)
The morphology of the tunicata
W. Garstang (1928)
10.1093/NAR/5.9.3157
DNAse footprinting: a simple method for the detection of protein-DNA binding specificity.
D. Galas (1978)
10.1101/GAD.2.6.718
Functional dissection of VP16, the trans-activator of herpes simplex virus immediate early gene expression.
S. J. Triezenberg (1988)
10.1038/335563A0
GAL4-VP16 is an unusually potent transcriptional activator
I. Sadowski (1988)
10.1002/j.1460-2075.1989.tb03613.x
Proximal—distal pattern formation in Drosophila: cell autonomous requirement for Distal‐less gene activity in limb development
S. Cohen (1989)
10.1016/S0022-2836(05)80360-2
Basic local alignment search tool.
S. Altschul (1990)
10.1002/j.1460-2075.1991.tb07663.x
Active repression of transcription by the engrailed homeodomain protein.
J. Jaynes (1991)
Transcription factor AP-2 is tissue-specific in Xenopus and is closely related or identical to keratin transcription factor 1 (KTF-1).
A. Snape (1991)
10.1002/j.1460-2075.1993.tb05934.x
Functional domains of the Drosophila Engrailed protein.
K. Han (1993)
10.1523/JNEUROSCI.14-06-03475.1994
Combinatorial expression of three zebrafish genes related to distal- less: part of a homeobox gene code for the head
M. Akimenko (1994)
10.1016/0959-437X(94)90140-X
The epidermis: rising to the surface.
E. Fuchs (1994)
10.1126/SCIENCE.7912449
Pattern formation and eyespot determination in butterfly wings.
S. Carroll (1994)
10.1016/0925-4773(94)90038-8
Differential expression of a Distal-less homeobox gene Xdll-2 in ectodermal cell lineages
M. Dirksen (1994)
The epidermis: risin
E. Fuchs (1994)
A truncated BMP receptor affects dorsal-ventral patterning in the early Xenopus embryo
A Suzuki (1994)
10.1016/0378-1119(95)00035-5
Cloning of ascidian homeobox genes provides evidence for a primordial chordate cluster.
A. Di Gregorio (1995)
10.1073/PNAS.93.20.10858
The evolution of the vertebrate Dlx gene family.
D. Stock (1996)
10.1073/PNAS.93.12.6025
Suppression subtractive hybridization: a method for generating differentially regulated or tissue-specific cDNA probes and libraries.
L. Diatchenko (1996)
10.1074/JBC.271.9.4827
Transcriptional Activation Domain of the Herpesvirus Protein VP16 Becomes Conformationally Constrained upon Interaction with Basal Transcription Factors (*)
Fan Shen (1996)
Sequence and developmental expression of AmphiDll, an amphioxus Distal-less gene transcribed in the ectoderm, epidermis and nervous system: insights into evolution of craniate forebrain and neural crest.
N. Holland (1996)
10.1083/JCB.135.6.1879
Regulation of epidermal differentiation by a Distal-less homeodomain gene
M. Morasso (1996)
Sequence and developmental expression
L. Z. lland (1996)
Suppression subtractive hybridization: a met
E.D (1996)
10.1006/GENO.1997.4978
Relationship between the genomic organization and the overlapping embryonic expression patterns of the zebrafish dlx genes.
D. Ellies (1997)
10.1089/OLI.1.1997.7.187
Morpholino antisense oligomers: design, preparation, and properties.
J. Summerton (1997)
10.1073/PNAS.94.10.5162
The origin and evolution of animal appendages.
G. Panganiban (1997)
Characterization of a notochord-specific enhancer from the Brachyury promoter region of the ascidian, Ciona intestinalis.
J. Corbo (1997)
10.1098/rspb.1997.0244
Evolution of Emx genes and brain development in vertebrates
T. Patarnello (1997)
Characterization of a notochordspecific enhancer from the Brachyury promoter region of the ascidian
J C Corbo (1997)
10.2144/98252BM05
Sticky-end PCR: new method for subcloning.
G. Zeng (1998)
10.1093/HMG/7.3.563
Identification of a mutation in DLX3 associated with tricho-dento-osseous (TDO) syndrome.
J. A. Price (1998)
10.1126/SCIENCE.282.5394.1711
Zebrafish hox clusters and vertebrate genome evolution.
A. Amores (1998)
10.1007/S004380050973
Differential expression of
A. Bubert (1999)
10.1093/NAR/27.3.764
Transcriptional activation by the homeodomain protein distal-less 3.
J. A. Feledy (1999)
Suppression subtractive hybridization: a versatile method for identifying differentially expressed genes.
L. Diatchenko (1999)
10.1016/S0076-6879(99)03022-0
[20] Suppression subtractive hybridization: A versatile method for identifying differentially expressed genes
L. Diatchenko (1999)
10.1006/DBIO.1999.9403
Ascidian tail formation requires caudal function.
Y. Katsuyama (1999)
10.1006/DBIO.1999.9374
Inhibitory patterning of the anterior neural plate in Xenopus by homeodomain factors Dlx3 and Msx1.
J. A. Feledy (1999)
Anteroposterior patterning of the epidermis by inductive influences from the vegetal hemisphere cells in the ascidian embryo.
S. Wada (1999)
10.1126/SCIENCE.286.5441.950
A species of small antisense RNA in posttranscriptional gene silencing in plants.
A. Hamilton (1999)
10.1038/11926
Klf4 is a transcription factor required for establishing the barrier function of the skin
J. Segre (1999)
A specie
A. J. Hamilton (1999)
Suppression subtractive hybridization: a versatile method for i
P. D. t (1999)
10.1002/1097-010X(20001015)288:3<235::AID-JEZ4>3.0.CO;2-J
Differential expression of orthologous Dlx genes in zebrafish and mice: implications for the evolution of the Dlx homeobox gene family.
E. Quint (2000)
SOCS: physiological suppressors of cytokine signaling.
D. L. Krebs (2000)
10.1002/1097-0177(2000)9999:9999<::AID-DVDY1026>3.0.CO;2-B
Regulation and function of Dlx3 in vertebrate development
M. Beanan (2000)
10.1139/BCB-78-5-593
Distal-less-related homeobox genes of vertebrates: evolution, function, and regulation.
T. Zerucha (2000)
10.1016/S0378-1119(00)00081-0
Roles for Msx and Dlx homeoproteins in vertebrate development.
A. Bendall (2000)
10.1523/JNEUROSCI.20-02-00709.2000
A Highly Conserved Enhancer in the Dlx5/Dlx6Intergenic Region is the Site of Cross-Regulatory Interactions betweenDlx Genes in the Embryonic Forebrain
Ted Zerucha (2000)
10.1016/S0925-4773(00)00474-3
Identification and developmental expression of three Distal-less homeobox containing genes in the ascidian Ciona intestinalis
A. Caracciolo (2000)
10.1093/NAR/28.20.E90
Mirror orientation selection (MOS): a method for eliminating false positive clones from libraries generated by suppression subtractive hybridization.
D. Rebrikov (2000)
10.1074/jbc.R000029200
The Zinc Finger-containing Transcription Factors GATA-4, -5, and -6
J. Molkentin (2000)
Roles for M
A. J. Bendall (2000)
SOCS: physiolog
D. L. Krebs (2000)
Mirror orientation select
K. A. kyanov (2000)
The zinc finger-containing t
J. D. Molkentin (2000)
10.1073/PNAS.98.4.1665
Lamprey Dlx genes and early vertebrate evolution.
A. H. Neidert (2001)
10.1016/S0092-8674(01)00481-0
The Ascidian as a Model Organism in Developmental and Evolutionary Biology
J. Corbo (2001)
10.1007/s004270100150
Distal-less expression in embryos of Limulus polyphemus (Chelicerata, Xiphosura) and Lepisma saccharina (Insecta, Zygentoma) suggests a role in the development of mechanoreceptors, chemoreceptors, and the CNS
B. Mittmann (2001)
10.1006/DBIO.2000.9964
The regulation of forkhead/HNF-3beta expression in the Ciona embryo.
Anna Di Gregorio (2001)
10.1387/IJDB.11461005
Differential regulation of Dlx gene expression by a BMP morphogenetic gradient.
T. Luo (2001)
10.1038/35078107
Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells
S. Elbashir (2001)
Development Genes and Evolution
B. Mittmann (2001)
10.1002/GENE.10119
A cDNA resource from the basal chordate Ciona intestinalis
Y. Satou (2002)
10.1002/dvdy.10135
Ascidian otx gene Hroth activates transcription of the brain‐specific gene HrTRP
S. Wada (2002)
10.1186/1471-2164-3-12
Efficacy of SSH PCR in isolating differentially expressed genes
W. Ji (2002)
10.1073/pnas.012584999
Genomic structure and functional control of the Dlx3-7 bigene cluster
K. Sumiyama (2002)
10.1101/GAD.988402
The Dlx5 and Dlx6 homeobox genes are essential for craniofacial, axial, and appendicular skeletal development.
R. Robledo (2002)
Developmental functions of the Distal-less/Dlx homeobox genes.
G. Panganiban (2002)
10.1016/S1046-2023(02)00031-2
The use of inducible engrailed fusion proteins to study the cellular functions of eukaryotic transcription factors.
E. Vickers (2002)
Concerted action of two dlx paralogs in sensory placode formation.
K. S. Solomon (2002)
10.1126/SCIENCE.1080049
The Draft Genome of Ciona intestinalis: Insights into Chordate and Vertebrate Origins
Paramvir S. Dehal (2002)
10.1016/S0734-9750(02)00023-X
Developmental biology: an array of new possibilities.
A. Ali (2002)
10.1126/SCIENCE.1075703
Specification of Jaw Subdivisions by Dlx Genes
M. Depew (2002)
10.1016/S0378-1119(01)00830-7
Cititf1 and endoderm differentiation in Ciona intestinalis.
A. Spagnuolo (2002)
10.1093/NAR/30.9.E36
Relative expression software tool (REST) for group-wise comparison and statistical analysis of relative expression results in real-time PCR.
M. Pfaffl (2002)
10.1074/JBC.M208911200
The VP16 Activation Domain Interacts with Multiple Transcriptional Components as Determined by Protein-Protein Cross-linking in Vivo *
D. Hall (2002)
10.1038/415315a
Contribution of Distal-less to quantitative variation in butterfly eyespots
P. Beldade (2002)
A cDNA resource
K. Inaba (2002)
The VP16 activatio
D. B. Hall (2002)
Concerted actio
K. S. Solomon (2002)
Developmental bio
A. Ali (2002)
10.1101/GR.716103
Regulatory roles of conserved intergenic domains in vertebrate Dlx bigene clusters.
N. Ghanem (2003)
10.1046/j.1524-4725.2003.694.x
Microarray analysis of embryonic retinoic acid target genes in the ascidian Ciona intestinalis
T. Ishibashi (2003)
10.1017/S1464793102006097
Descent with modification: the unity underlying homology and homoplasy as seen through an analysis of development and evolution
BRIAN K. HALL (2003)
10.1016/S0012-1606(03)00058-7
Pax6 autoregulation mediated by direct interaction of Pax6 protein with the head surface ectoderm-specific enhancer of the mouse Pax6 gene.
S. Aota (2003)
10.1523/JNEUROSCI.23-02-00568.2003
DLX5 Regulates Development of Peripheral and Central Components of the Olfactory System
J. Long (2003)
10.1242/dev.00419
Zic1 represses Math1 expression via interactions with the Math1 enhancer and modulation of Math1 autoregulation
Philip J. Ebert (2003)
10.1073/pnas.0530119100
Regulation of Dlx3 gene expression in visceral arches by evolutionarily conserved enhancer elements
K. Sumiyama (2003)
10.1016/S0012-1606(03)00177-5
DLX5 positions the neural crest and preplacode region at the border of the neural plate.
K. W. McLarren (2003)
10.2108/zsj.20.1223
Construction of a cDNA Microarray Derived from the Ascidian Ciona intestinalis
K. Azumi (2003)
10.1002/cne.10674
Dlx1, Dlx2, Pax6, Brn3b, and Chx10 homeobox gene expression defines the retinal ganglion and inner nuclear layers of the developing and adult mouse retina
Jimmy de Melo (2003)
10.1242/dev.00212
Dlx proteins position the neural plate border and determine adjacent cell fates
J. Woda (2003)
Descent with modification: the un
B. K. Hall (2003)
Regulatory roles of cons
J.L (2003)
10.1016/j.mod.2004.01.001
Ectopic expression and knockdown of a zebrafish sox21 reveal its role as a transcriptional repressor in early development
F. Argenton (2004)
10.1242/dev.01270
Gene expression profiles of transcription factors and signaling molecules in the ascidian embryo: towards a comprehensive understanding of gene networks
K. Imai (2004)
10.1023/A:1022682505914
The role of gene duplication in the evolution and function of the vertebrate Dlx/distal-less bigene clusters
K. Sumiyama (2004)
10.1016/J.YDBIO.2004.05.019
Repression of nodal expression by maternal B1-type SOXs regulates germ layer formation in Xenopus and zebrafish.
C. Zhang (2004)
10.1016/j.cub.2004.06.046
Butterfly Wing Pattern Evolution Is Associated with Changes in a Notch/Distal-less Temporal Pattern Formation Process
R. D. Reed (2004)
10.1016/J.YDBIO.2003.09.023
Dlx genes integrate positive and negative signals during feather bud development.
I. Rouzankina (2004)
10.1016/J.YDBIO.2004.01.010
Intergenic enhancers with distinct activities regulate Dlx gene expression in the mesenchyme of the branchial arches.
B. Park (2004)
10.1016/j.mcn.2003.10.004
Defective neuronogenesis in the absence of Dlx5
M. Perera (2004)
10.1101/GR.2964504
Noncoding regulatory sequences of Ciona exhibit strong correspondence between evolutionary constraint and functional importance.
D. S. Johnson (2004)
Intergenic enhan
B. L. Thomas (2004)
Butterfly wing p
R.D (2004)
Defective neuronogenesis in the absence
G. Corte (2004)
Repression of noda
P. n (2004)
10.1002/GENE.20096
Germline transgenesis of the ascidian Ciona intestinalis by electroporation
T. Matsuoka (2005)
10.1016/J.MODGEP.2004.09.003
Macho-1 functions as transcriptional activator for muscle formation in embryos of the ascidian Halocynthia roretzi.
Kaichiro Sawada (2005)
10.1101/GR.3722605
Assembly of polymorphic genomes: algorithms and application to Ciona savignyi.
J. Vinson (2005)
10.2108/zsj.22.837
An Integrated Database of the Ascidian, Ciona intestinalis: Towards Functional Genomics
Y. Satou (2005)
10.1242/dev.02066
Maternal Xenopus Zic2 negatively regulates Nodal-related gene expression during anteroposterior patterning
D. Houston (2005)
10.1021/BI0482912
Structural properties of the promiscuous VP16 activation domain.
H. Jonker (2005)
10.1016/j.cell.2005.01.033
Germ-Layer Specification and Control of Cell Growth by Ectodermin, a Smad4 Ubiquitin Ligase
S. Dupont (2005)
10.1534/GENETICS.104.031831
The Dlx gene complement of the leopard shark, Triakis semifasciata, resembles that of mammals: implications for genomic and morphological evolution of jawed vertebrates.
D. Stock (2005)
10.1146/ANNUREV.GENET.37.110801.143752
Molecular genetics of axis formation in zebrafish.
A. Schier (2005)
Maternal Xenopus
D. W. Houston (2005)
Assembly of polymorphic gen
B. Birren (2005)
Molecular gene
A. F. Schier (2005)
Germ-layer specification and con
S. Piccolo (2005)
10.1371/JOURNAL.PBIO.0040225
Formation of the Ascidian Epidermal Sensory Neurons: Insights into the Origin of the Chordate Peripheral Nervous System
A. Pasini (2006)
10.1016/j.mod.2005.10.007
Msx1 and Dlx5 act independently in development of craniofacial skeleton, but converge on the regulation of Bmp signaling in palate formation
G. Levi (2006)
10.1073/pnas.0607543103
Vitamin K-dependent proteins in Ciona intestinalis, a basal chordate lacking a blood coagulation cascade
J. Kulman (2006)
10.1242/dev.02304
Patterning the early Xenopus embryo
J. Heasman (2006)
10.1126/science.1123404
Regulatory Blueprint for a Chordate Embryo
K. Imai (2006)
10.1002/dvdy.20644
Optimized green fluorescent protein variants provide improved single cell resolution of transgene expression in ascidian embryos
R. Zeller (2006)
10.1038/nature04336
Tunicates and not cephalochordates are the closest living relatives of vertebrates
F. Delsuc (2006)
10.1242/dev.02466
A signalling relay involving Nodal and Delta ligands acts during secondary notochord induction in Ciona embryos
C. Hudson (2006)
Patterning the early Xenopus em
J. Heasman (2006)
A signalling relay
C. Hudson (2006)
10.1002/JEZ.B.21169
Non-overlapping expression patterns of the clustered Dll-A/B genes in the ascidian Ciona intestinalis.
S. Q. Irvine (2007)
10.1242/dev.010850
A combinatorial code of maternal GATA, Ets and β-catenin-TCF transcription factors specifies and patterns the early ascidian ectoderm
U. Rothbächer (2007)
10.1007/s00427-007-0168-x
Nodal regulates neural tube formation in the Ciona intestinalis embryo
K. Mita (2007)
10.1038/nature05659
Scratching the surface of skin development
E. Fuchs (2007)
10.1007/S00227-007-0617-0
Genealogical relationships within and among shallow-water Ciona species (Ascidiacea)
Marie L. Nydam (2007)
10.1002/dvdy.21188
A web‐based interactive developmental table for the ascidian Ciona intestinalis, including 3D real‐image embryo reconstructions: I. From fertilized egg to hatching larva
Kohji Hotta (2007)
10.1242/dev.02703
Homeobox gene Dlx3 is regulated by p63 during ectoderm development: relevance in the pathogenesis of ectodermal dysplasias
N. Radoja (2007)
and Patrick Lemaire A combinatorial code of maternal GATA, Ets and β-catenin-TCF transcription factors specifies and patterns the early ascidian ectoderm Development
U Rothbächer (2007)
A web-based interactive developmental table
K. Oka (2007)
10.1007/s00018-008-8138-7
Having it both ways: Sox protein function between conservation and innovation
S. I. E. Guth (2008)
10.1242/dev.022202
Dlx3 is a crucial regulator of hair follicle differentiation and cycling
J. Hwang (2008)
10.1073/pnas.0711896105
Transcription factor Ap2δ associates with Ash2l and ALR, a trithorax family histone methyltransferase, to activate Hoxc8 transcription
C. Tan (2008)
10.1016/j.cub.2008.05.039
Ascidians and the Plasticity of the Chordate Developmental Program
P. Lemaire (2008)
10.1523/JNEUROSCI.0700-08.2008
A Dlx2- and Pax6-Dependent Transcriptional Code for Periglomerular Neuron Specification in the Adult Olfactory Bulb
Monika S. Brill (2008)
10.1016/j.ydbio.2008.01.036
Cis-regulatory organization of the Pax6 gene in the ascidian Ciona intestinalis.
S. Q. Irvine (2008)
10.1016/j.ydbio.2008.02.056
A new method, using cis-regulatory control, for blocking embryonic gene expression.
J. Smith (2008)
10.1002/dvdy.22100
Expression of the oscillating gene her1 is directly regulated by hairy/enhancer of split, T‐box, and suppressor of hairless proteins in the zebrafish segmentation clock
Tim Brend (2009)
10.1038/nmeth.1371
Computation for ChIP-seq and RNA-seq studies
Shirley Pepke (2009)
10.1038/nrg2523
The evolution of Fox genes and their role in development and disease
S. Hannenhalli (2009)
10.1538/EXPANIM.58.459
Ciona intestinalis and Oxycomanthus japonicus, representatives of marine invertebrates.
Y. Sasakura (2009)
10.1016/j.ymeth.2009.03.016
RNA-Seq-quantitative measurement of expression through massively parallel RNA-sequencing.
B. Wilhelm (2009)
10.1038/nrg2641
ChIP–seq: advantages and challenges of a maturing technology
P. Park (2009)
10.1038/nature07891
Deep homology and the origins of evolutionary novelty
N. Shubin (2009)
RNA-seq – qua
B. T. Wilhelm (2009)
10.1155/2010/853916
Uncovering the Complexity of Transcriptomes with RNA-Seq
V. Costa (2010)
10.1007/s00427-010-0346-0
Expression of Distal-less, dachshund, and optomotor blind in Neanthes arenaceodentata (Annelida, Nereididae) does not support homology of appendage-forming mechanisms across the Bilateria
Christopher J. Winchell (2010)
10.1073/pnas.1019658108
Epidermal ablation of Dlx3 is linked to IL-17–associated skin inflammation
J. Hwang (2011)
10.1007/s00427-011-0386-0
Optimized conditions for transgenesis of the ascidian Ciona using square wave electroporation
David A. Vierra (2011)
10.1038/nmeth.1613
Computational methods for transcriptome annotation and quantification using RNA-seq
M. Garber (2011)
10.1016/j.ydbio.2011.02.009
Expression of the Distalless-B gene in Ciona is regulated by a pan-ectodermal enhancer module.
S. Q. Irvine (2011)
10.1534/genetics.112.140590
Genetic and Genomic Toolbox of the Chordate Ciona intestinalis
Alberto Stolfi (2012)
10.1126/science.1222488
Cis-Acting Transcriptional Repression Establishes a Sharp Boundary in Chordate Embryos
K. Imai (2012)
10.1016/j.ydbio.2012.02.025
Lens development depends on a pair of highly conserved Sox21 regulatory elements
Stefan Pauls (2012)
10.1016/j.ydbio.2012.05.023
Regulation of Six1 expression by evolutionarily conserved enhancers in tetrapods.
Shigeru Sato (2012)
Genetic and ge
A. Stolfi (2012)
Sticky-End PCR : New Method for Subcloning
K. Pham
Kinship of ascidians and vertebrates
M Foster
Life Technologies, Carlsbad, CA) according to the supplier's recommendations using 100uM poly-T primer. The reaction was purified using
Iii Superscript
Germany) according to the supplier's recommendations. First strand cDNA synthesis was performed using
min at 68 o C. Reactions were purified by phenol/chloroform extraction. cDNA was digested with RsaI



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