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Lionel Christiaen

Associate Professor of Biology

20022019
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Research Output 2002 2019

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Article
2019

A complete statistical model for calibration of RNA-seq counts using external spike-ins and maximum likelihood theory

Athanasiadou, R., Neymotin, B., Brandt, N., Wang, W., Christiaen, L., Gresham, D. & Tranchina, D., Mar 1 2019, In : PLoS computational biology. 15, 3, p. e1006794

Research output: Contribution to journalArticle

Open Access
Statistical Models
statistical models
RNA
Spike
Calibration

A conserved regulatory program initiates lateral plate mesoderm emergence across chordates

Prummel, K. D., Hess, C., Nieuwenhuize, S., Parker, H. J., Rogers, K. W., Kozmikova, I., Racioppi, C., Brombacher, E. C., Czarkwiani, A., Knapp, D., Burger, S., Chiavacci, E., Shah, G., Burger, A., Huisken, J., Yun, M. H., Christiaen, L., Kozmik, Z., Müller, P., Bronner, M. & 2 others, Krumlauf, R. & Mosimann, C., Dec 1 2019, In : Nature Communications. 10, 1, 3857.

Research output: Contribution to journalArticle

Open Access
Chordata
Mesoderm
Prednisolone
Muscle
Zebrafish

A single-cell transcriptional roadmap for cardiopharyngeal fate diversification

Wang, W., Niu, X., Stuart, T., Jullian, E., Mauck, W. M., Kelly, R. G., Satija, R. & Christiaen, L., Jun 1 2019, In : Nature Cell Biology. 21, 6, p. 674-686 13 p.

Research output: Contribution to journalArticle

Pharyngeal Muscles
Chordata
Head
Muscles
Mesoderm

Discoidin-domain receptor coordinates cell-matrix adhesion and collective polarity in migratory cardiopharyngeal progenitors

Bernadskaya, Y. Y., Brahmbhatt, S., Gline, S. E., Wang, W. & Christiaen, L., Dec 1 2019, In : Nature Communications. 10, 1, 57.

Research output: Contribution to journalArticle

Cell-Matrix Junctions
polarity
adhesion
Adhesion
Light trailers

Initial characterization of Wnt-Tcf functions during Ciona heart development

Kaplan, N. A., Wang, W. & Christiaen, L., Jan 1 2019, (Accepted/In press) In : Developmental Biology.

Research output: Contribution to journalArticle

Wnt Signaling Pathway
Pharyngeal Muscles
Muscle Development
Cardiac Myocytes
Vertebrates
2018

An FGF-driven feed-forward circuit patterns the cardiopharyngeal mesoderm in space and time

Razy-Krajka, F., Gravez, B., Kaplan, N., Racioppi, C., Wang, W. & Christiaen, L., Feb 6 2018, In : eLife. 7, e29656.

Research output: Contribution to journalArticle

Mesoderm
Muscle
Siphons
Muscles
Networks (circuits)

ANISEED 2017: Extending the integrated ascidian database to the exploration and evolutionary comparison of genome-scale datasets

Brozovic, M., Dantec, C., Dardaillon, J., Dauga, D., Faure, E., Gineste, M., Louis, A., Naville, M., Nitta, K. R., Piette, J., Reeves, W., Scornavacca, C., Simion, P., Vincentelli, R., Bellec, M., Aicha, S. B., Fagotto, M., Guéroult-Bellone, M., Haeussler, M., Jacox, E. & 19 others, Lowe, E. K., Mendez, M., Roberge, A., Stolfi, A., Yokomori, R., Brown, C. T., Cambillau, C., Christiaen, L., Delsuc, F., Douzery, E., Dumollard, R., Kusakabe, T., Nakai, K., Nishida, H., Satou, Y., Swalla, B., Veeman, M., Volff, J. N. & Lemaire, P., Jan 1 2018, In : Nucleic Acids Research. 46, D1, p. D718-D725

Research output: Contribution to journalArticle

Urochordata
Genome
Databases
Gene Expression
Vertebrates

Transcriptional regulation of Rab32/38, a specific marker of pigment cell formation in Ciona robusta

Racioppi, C., Coppola, U., Christiaen, L. & Ristoratore, F., Jan 1 2018, (Accepted/In press) In : Developmental Biology.

Research output: Contribution to journalArticle

Monophenol Monooxygenase
Nucleic Acid Regulatory Sequences
Pigmentation
Vertebrates
Binding Sites
2017

Evolutionary loss of melanogenesis in the tunicate Molgula occulta

Racioppi, C., Valoroso, M. C., Coppola, U., Lowe, E. K., Brown, C. T., Swalla, B. J., Christiaen, L., Stolfi, A. & Ristoratore, F., Jul 18 2017, In : EvoDevo. 8, 1, 11.

Research output: Contribution to journalArticle

Molgula
Molgula oculata
melanogenesis
Urochordata
Monophenol Monooxygenase

Evolutionary recruitment of flexible Esrp-dependent splicing programs into diverse embryonic morphogenetic processes

Burguera, D., Marquez, Y., Racioppi, C., Permanyer, J., Torres-Méndez, A., Esposito, R., Albuixech-Crespo, B., Fanlo, L., D'Agostino, Y., Gohr, A., Navas-Perez, E., Riesgo, A., Cuomo, C., Benvenuto, G., Christiaen, L., Martí, E., D'Aniello, S., Spagnuolo, A., Ristoratore, F., Arnone, M. I. & 2 others, Garcia-Fernàndez, J. & Irimia, M., Dec 1 2017, In : Nature Communications. 8, 1, 1799.

Research output: Contribution to journalArticle

splicing
Vertebrates
vertebrates
Animals
Genes
2016

Evaluation and rational design of guide RNAs for efficient CRISPR/Cas9-mediated mutagenesis in Ciona

Gandhi, S., Haeussler, M., Razy-Krajka, F., Christiaen, L. & Stolfi, A., Oct 6 2016, (Accepted/In press) In : Developmental Biology.

Research output: Contribution to journalArticle

Clustered Regularly Interspaced Short Palindromic Repeats
Guide RNA
Mutagenesis
Embryonic Structures
Urochordata

Fused Regression for Multi-source Gene Regulatory Network Inference

Lam, K. Y., Westrick, Z. M., Müller, C. L., Christiaen, L. & Bonneau, R., Dec 1 2016, In : PLoS Computational Biology. 12, 12, e1005157.

Research output: Contribution to journalArticle

Gene Regulatory Networks
Gene Regulatory Network
Genes
Regression
gene

Rewiring of an ancestral Tbx1/10-Ebf-Mrf network for pharyngeal muscle specification in distinct embryonic lineages

Tolkin, T. & Christiaen, L., Oct 15 2016, In : Development (Cambridge). 143, 20, p. 3852-3862 11 p.

Research output: Contribution to journalArticle

Pharyngeal Muscles
Muscles
Muscle Development
Chordata
Genes
2015

A new heart for a new head in vertebrate cardiopharyngeal evolution

Diogo, R., Kelly, R. G., Christiaen, L., Levine, M., Ziermann, J. M., Molnar, J. L., Noden, D. M. & Tzahor, E., Apr 23 2015, In : Nature. 520, 7548, p. 466-473 8 p.

Research output: Contribution to journalArticle

Vertebrates
Head
Neural Crest
Chordata
Mesoderm

Guidelines for the nomenclature of genetic elements in tunicate genomes

Stolfi, A., Sasakura, Y., Chalopin, D., Satou, Y., Christiaen, L., Dantec, C., Endo, T., Naville, M., Nishida, H., Swalla, B. J., Volff, J. N., Voskoboynik, A., Dauga, D. & Lemaire, P., Jan 1 2015, In : Genesis. 53, 1, p. 1-14 14 p.

Research output: Contribution to journalArticle

Urochordata
Terminology
Genome
Guidelines
Vertebrates

Migratory neuronal progenitors arise from the neural plate borders in tunicates

Stolfi, A., Ryan, K., Meinertzhagen, I. A. & Christiaen, L., Nov 19 2015, In : Nature. 527, 7578, p. 371-374 4 p.

Research output: Contribution to journalArticle

Neural Plate
Urochordata
Neural Crest
Vertebrates
Neurons

Regulation and evolution of cardiopharyngeal cell identity and behavior: Insights from simple chordates

Kaplan, N., Razy-Krajka, F. & Christiaen, L., Jun 1 2015, In : Current Opinion in Genetics and Development. 32, p. 119-128 10 p.

Research output: Contribution to journalArticle

Chordata
Pharyngeal Muscles
Urochordata
Vertebrates
Myogenic Regulatory Factors

Surrounding tissues canalize motile cardiopharyngeal progenitors towards collective polarity and directed migration

Gline, S., Kaplan, N., Bernadskaya, Y., Abdu, Y. & Christiaen, L., Feb 1 2015, In : Development. 142, 3, p. 544-554 11 p.

Research output: Contribution to journalArticle

Ciona intestinalis
Chordata
Stereotyped Behavior
Notochord
Urochordata
2014

Collier/OLF/EBF-Dependent Transcriptional Dynamics Control Pharyngeal Muscle Specification from Primed Cardiopharyngeal Progenitors

Razy-Krajka, F., Lam, K., Wang, W., Stolfi, A., Joly, M., Bonneau, R. & Christiaen, L., May 12 2014, In : Developmental Cell. 29, 3

Research output: Contribution to journalArticle

Pharyngeal Muscles
Chordata
Muscle
Mesoderm
Specifications

Divergent mechanisms regulate conserved cardiopharyngeal development and gene expression in distantly related ascidians

Stolfi, A., Lowe, E. K., Racioppi, C., Ristoratore, F., Brown, C. T., Swalla, B. J. & Christiaen, L., 2014, In : eLife. 3, p. e03728

Research output: Contribution to journalArticle

Urochordata
Gene expression
Assays
Gene Expression
Pharyngeal Muscles

Fibroblast growth factor signalling controls nervous system patterning and pigment cell formation in Ciona intestinalis

Racioppi, C., Kamal, A. K., Razy-Krajka, F., Gambardella, G., Zanetti, L., Di Bernardo, D., Sanges, R., Christiaen, L. & Ristoratore, F., 2014, In : Nature Communications. 5, 5830.

Research output: Contribution to journalArticle

Ciona intestinalis
nervous system
Fibroblast Growth Factors
fibroblasts
Neurology

Tissue-specific genome editing in ciona embryos by CRISPR/Cas9

Stolfi, A., Gandhi, S., Salek, F. & Christiaen, L., Nov 1 2014, In : Development. 141, 21, p. 4115-4120 6 p.

Research output: Contribution to journalArticle

Clustered Regularly Interspaced Short Palindromic Repeats
Embryonic Structures
Ciona intestinalis
Genes
Electroporation
2013

Cis-Regulatory Timers for Developmental Gene Expression

Christiaen, L., 2013, In : PLoS Biology. 11, 10, e1001698.

Research output: Contribution to journalArticle

Developmental Genes
timers
Gene expression
Genes
Gene Expression

NK4 Antagonizes Tbx1/10 to Promote Cardiac versus Pharyngeal Muscle Fate in the Ascidian Second Heart Field

Wang, W., Razy-Krajka, F., Siu, E., Ketcham, A. & Christiaen, L., Dec 2013, In : PLoS Biology. 11, 12, e1001725.

Research output: Contribution to journalArticle

Pharyngeal Muscles
Urochordata
Ascidiacea
Muscle
heart

p120RasGAP mediates ephrin/Eph-dependent attenuation of FGF/ERK signals during cell fate specification in ascidian embryos

Haupaix, N., Stolfi, A., Sirour, C., Picco, V., Levine, M., Christiaen, L. & Yasuo, H., Nov 1 2013, In : Development. 140, 21, p. 4347-4352 6 p.

Research output: Contribution to journalArticle

p120 GTPase Activating Protein
ras GTPase-Activating Proteins
Ephrins
Urochordata
Fibroblast Growth Factors
2012

Developmental cell behavior

Christiaen, L., May 2012, In : Seminars in Cell and Developmental Biology. 23, 3, p. 289 1 p.

Research output: Contribution to journalArticle

Development and Evolution of the Ascidian Cardiogenic Mesoderm

Tolkin, T. & Christiaen, L., 2012, In : Current Topics in Developmental Biology. 100, p. 107-142 36 p.

Research output: Contribution to journalArticle

Urochordata
Mesoderm
Chordata
Vertebrates
Ciona intestinalis

Genetic and genomic toolbox of the Chordate Ciona intestinalis

Stolfi, A. & Christiaen, L., Sep 1 2012, In : Genetics. 192, 1, p. 55-66 12 p.

Research output: Contribution to journalArticle

Ciona intestinalis
Chordata
Morpholinos
Gene Transfer Techniques
Electroporation

Transcriptional Enhancers in Ascidian Development

Wang, W. & Christiaen, L., 2012, In : Current Topics in Developmental Biology. 98, p. 147-172 26 p.

Research output: Contribution to journalArticle

Urochordata
Chordata
DNA
Transfection
Embryonic Structures
2010

A cis-regulatory signature for chordate anterior neuroectodermal genes

Haeussler, M., Jaszczyszyn, Y., Christiaen, L. & Joly, J. S., Apr 2010, In : PLoS Genetics. 6, 4

Research output: Contribution to journalArticle

Chordata
gene
Genes
Neural Plate
regulatory sequences

BMP signaling coordinates gene expression and cell migration during precardiac mesoderm development

Christiaen, L., Stolfi, A. & Levine, M., Apr 2010, In : Developmental Biology. 340, 2, p. 179-187 9 p.

Research output: Contribution to journalArticle

Mesoderm
Cell Movement
Gene Expression
Gene Regulatory Networks
Cell Migration Inhibition

Early chordate origins of the vertebrate second heart field

Stolfi, A., Gainous, T. B., Young, J. J., Mori, A., Levine, M. & Christiaen, L., Jul 30 2010, In : Science. 329, 5991, p. 565-568 4 p.

Research output: Contribution to journalArticle

Chordata
Vertebrates
Muscles
Ciona intestinalis
Urochordata

The ANISEED database: Digital representation, formalization, and elucidation of a chordate developmental program

Tassy, O., Dauga, D., Daian, F., Sobral, D., Robin, F., Khoueiry, P., Salgado, D., Fox, V., Caillol, D., Schiappa, R., Laporte, B., Rios, A., Luxardi, G., Kusakabe, T., Joly, J. S., Darras, S., Christiaen, L., Contensin, M., Auger, H., Lamy, C. & 9 others, Hudson, C., Rothbächer, U., Gilchrist, M. J., Makabe, K. W., Hotta, K., Fujiwara, S., Satoh, N., Satou, Y. & Lemaire, P., Oct 2010, In : Genome Research. 20, 10, p. 1459-1468 10 p.

Research output: Contribution to journalArticle

Chordata
Urochordata
Developmental Biology
Embryonic Structures
Databases
2009

Electroporation of transgenic DNAs in the sea squirt Ciona

Christiaen, L., Wagner, E., Shi, W. & Levine, M., 2009, In : Cold Spring Harbor Protocols. 4, 12

Research output: Contribution to journalArticle

Electroporation
Oceans and Seas
Plasmids
Genes
Tissue
Cell Separation
Sorting
Oceans and Seas
Flow Cytometry
Embryonic Structures

Isolation of sea squirt (Ciona) gametes, fertilization, dechorionation, and development

Christiaen, L., Wagner, E., Shi, W. & Levine, M., 2009, In : Cold Spring Harbor Protocols. 4, 12

Research output: Contribution to journalArticle

Morpholinos
Soaps (detergents)
Fertilization
Germ Cells
Oceans and Seas

Microinjection of morpholino oligos and RNAs in sea squirt (Ciona) embryos

Christiaen, L., Wagner, E., Shi, W. & Levine, M., 2009, In : Cold Spring Harbor Protocols. 4, 12

Research output: Contribution to journalArticle

Morpholinos
Microinjections
Oceans and Seas
RNA Splice Sites
Embryonic Structures

Spatio-temporal intersection of Lhx3 and Tbx6 defines the cardiac field through synergistic activation of Mesp

Christiaen, L., Stolfi, A., Davidson, B. & Levine, M., Apr 15 2009, In : Developmental Biology. 328, 2, p. 552-560 9 p.

Research output: Contribution to journalArticle

Blastomeres
Protein Isoforms
Catenins
Basic Helix-Loop-Helix Transcription Factors
Morpholinos

The sea squirt Ciona intestinalis

Christiaen, L., Wagner, E., Shi, W. & Levine, M., 2009, In : Cold Spring Harbor Protocols. 4, 12

Research output: Contribution to journalArticle

Ciona intestinalis
Oceans and Seas
Vertebrates
Genes
Urochordata

Whole-mount in situ hybridization on sea squirt (Ciona intestinalis) embryos

Christiaen, L., Wagner, E., Shi, W. & Levine, M., 2009, In : Cold Spring Harbor Protocols. 4, 12

Research output: Contribution to journalArticle

Ciona intestinalis
Gene expression
Oceans and Seas
In Situ Hybridization
Embryonic Structures

X-gal staining of electroporated sea squirt (Ciona) embryos

Christiaen, L., Wagner, E., Shi, W. & Levine, M., 2009, In : Cold Spring Harbor Protocols. 4, 12

Research output: Contribution to journalArticle

Reporter Genes
Oceans and Seas
Larva
Embryonic Structures
Genes
2008

The transcription/migration interface in heart precursors of Ciona intestinalis

Christiaen, L., Davidson, B., Kawashima, T., Powell, W., Nolla, H., Vranizan, K. & Levine, M., Jun 6 2008, In : Science. 320, 5881, p. 1349-1352 4 p.

Research output: Contribution to journalArticle

Ciona intestinalis
Gene Regulatory Networks
Cell Surface Extensions
Forkhead Transcription Factors
Urochordata
2007

Evolutionary modification of mouth position in deuterostomes

Christiaen, L., Jaszczyszyn, Y., Kerfant, M., Kano, S., Thermes, V. & Joly, J. S., Aug 2007, In : Seminars in Cell and Developmental Biology. 18, 4, p. 502-511 10 p.

Research output: Contribution to journalArticle

Ectoderm
Chordata
Mouth
Urochordata
Embryonic Structures

FoxF is essential for FGF-induced migration of heart progenitor cells in the ascidian Ciona intestinalis

Beh, J., Shi, W., Levine, M., Davidson, B. & Christiaen, L., Sep 2007, In : Development. 134, 18, p. 3297-3305 9 p.

Research output: Contribution to journalArticle

Ciona intestinalis
Urochordata
Stem Cells
Cell Movement
Genetic Complementation Test
2006

FGF signaling delineates the cardiac progenitor field in the simple chordate, Ciona intestinalis

Davidson, B., Shi, W., Beh, J., Christiaen, L. & Levine, M., Oct 1 2006, In : Genes & development. 20, 19, p. 2728-2738 11 p.

Research output: Contribution to journalArticle

Ciona intestinalis
Chordata
Receptor Protein-Tyrosine Kinases
Gastrulation
Fibroblast Growth Factor Receptors

Linking chordate gene networks to cellular behavior in ascidians

Davidson, B. & Christiaen, L., Jan 27 2006, In : Cell. 124, 2, p. 247-250 4 p.

Research output: Contribution to journalArticle

Chordata
Urochordata
Gene Regulatory Networks
Nucleic Acid Regulatory Sequences
Redundancy
2005

A modular cis-regulatory system controls isoform-specific pitx expression in ascidian stomodæum

Christiaen, L., Bourrat, F. & Joly, J. S., Jan 15 2005, In : Developmental Biology. 277, 2, p. 557-566 10 p.

Research output: Contribution to journalArticle

Urochordata
Homeobox Genes
Protein Isoforms
Chordata
Ciona intestinalis

Embryonic versus blastogenetic development in the compound ascidian Botryllus schlosseri: Insights from Pitx expression patterns

Tiozzo, S., Christiaen, L., Deyts, C., Manni, L., Joly, J. S. & Burighel, P., Feb 2005, In : Developmental Dynamics. 232, 2, p. 468-478 11 p.

Research output: Contribution to journalArticle

Developmental Genes
Urochordata
Embryonic Development
Larva
Chordata

Regulatory gene expressions in the ascidian ventral sensory vesicle: Evolutionary relationships with the vertebrate hypothalamus

Moret, F., Christiaen, L., Deyts, C., Blin, M., Vernier, P. & Joly, J. S., Jan 15 2005, In : Developmental Biology. 277, 2, p. 567-579 13 p.

Research output: Contribution to journalArticle

Urochordata
Regulator Genes
Hypothalamus
Vertebrates
Prosencephalon

The dopamine-synthesizing cells in the swimming larva of the tunicate Ciona intestinalis are located only in the hypothalamus-related domain of the sensory vesicle

Moret, F., Christiaen, L., Deyts, C., Blin, M., Joly, J. S. & Vernier, P., Jun 2005, In : European Journal of Neuroscience. 21, 11, p. 3043-3055 13 p.

Research output: Contribution to journalArticle

Ciona intestinalis
Urochordata
Hypothalamus
Larva
Dopamine