ZFIN ID: ZDB-PERS-970203-1
Clarke, Jon
Email: ucgajoc@ucl.ac.uk
URL: http://www.anat.ucl.ac.uk/research/clarke-group/
Affiliation: Jon Clarke Lab
Address: Department of Anatomy and Developmental Biology University College London Gower Street London, WC1E 6BT United Kingdom
Country: United Kingdom
Phone: 44-20-7679-6579
Fax: 44-20-7679-6634

We are interested in the morphogenesis and regionalisation of the neural tube, the development of the neuroepithelium especially in terms of its apico-basal organisation and the way that neural progenitors generate the differentiated cell types of the brain. We use a variety of cell labeling techniques and live-imaging that allow us to follow the fate of either individual cells or populations of cells. In addition we are using calcium imaging and FRAP techniques to study cell-cell communication in the early neuroepithelium.

Symonds, A.C., Buckley, C.E., Williams, C.A., Clarke, J.D.W. (2020) Coordinated assembly and release of adhesions builds apical junctional belts during de novo polarisation of an epithelial tube. Development (Cambridge, England). 147(24):
Knüfer, A., Diana, G., Walsh, G.S., Clarke, J.D., Guthrie, S. (2020) Cadherins regulate nuclear topography and function of developing ocular motor circuitry. eLIFE. 9:
Moore, R.E., Clarke, J., Alexandre, P. (2020) Protrusion-Mediated Signaling Regulates Patterning of the Developing Nervous System. Frontiers in cell and developmental biology. 8:579073
Hadjivasiliou, Z., Moore, R.E., McIntosh, R., Galea, G.L., Clarke, J.D.W., Alexandre, P. (2019) Basal Protrusions Mediate Spatiotemporal Patterns of Spinal Neuron Differentiation. Developmental Cell. 49:907-919.e10
Araya, C., Häkkinen, H.M., Carcamo, L., Cerda, M., Savy, T., Rookyard, C., Peyriéras, N., Clarke, J.D.W. (2019) Publisher Correction: Cdh2 coordinates Myosin-II dependent internalisation of the zebrafish neural plate. Scientific Reports. 9:7699
Campo-Paysaa, F., Clarke, J.D., Wingate, R.J. (2019) Generation of the squamous epithelial roof of the 4th ventricle. eLIFE. 8:
Araya, C., Häkkinen, H.M., Carcamo, L., Cerda, M., Savy, T., Rookyard, C., Peyriéras, N., Clarke, J.D.W. (2019) Cdh2 coordinates Myosin-II dependent internalisation of the zebrafish neural plate. Scientific Reports. 9:1835
McIntosh, R., Norris, J., Clarke, J.D., Alexandre, P. (2017) Spatial distribution and characterization of non-apical progenitors in the zebrafish embryo central nervous system. Open Biology. 7(2)
Araya, C., Carmona-Fontaine, C., Clarke, J.D. (2016) ECM couples the convergence movements of mesoderm and neural plate during the early stages of neurulation. Developmental dynamics : an official publication of the American Association of Anatomists. 245(5):580-9
Buckley, C.E., Moore, R.E., Reade, A., Goldberg, A.R., Weiner, O.D., Clarke, J.D. (2016) Reversible Optogenetic Control of Subcellular Protein Localization in a Live Vertebrate Embryo. Developmental Cell. 36:117-126
Buckley, C., Clarke, J. (2014) Establishing the plane of symmetry for lumen formation and bilateral brain formation in the zebrafish neural rod. Seminars in cell & developmental biology. 31C:100-105
Araya, C., Tawk, M., Girdler, G.C., Costa, M., Carmona-Fontaine, C., and Clarke, J.D. (2014) Mesoderm is required for coordinated cell movements within zebrafish neural plate in vivo. Neural Development. 9(1):9
Girdler, G.C., Araya, C., Ren, X., and Clarke, J.D. (2013) Developmental time rather than local environment regulates the schedule of epithelial polarization in the zebrafish neural rod. Neural Development. 8(1):5
Buckley, C.E., Ren, X., Ward, L.C., Girdler, G.C., Araya, C., Green, M.J., Clark, B.S., Link, B.A., and Clarke, J.D. (2013) Mirror-symmetric microtubule assembly and cell interactions drive lumen formation in the zebrafish neural rod. The EMBO journal. 32(1):30-44
Folgueira, M., Bayley, P., Navratilova, P., Becker, T.S., Wilson, S.W., and Clarke, J.D. (2012) Morphogenesis underlying the development of the everted teleost telencephalon. Neural Development. 7(1):32
Alexandre, P., Reugels, A.M., Barker, D., Blanc, E., and Clarke, J.D. (2010) Neurons derive from the more apical daughter in asymmetric divisions in the zebrafish neural tube. Nature Neuroscience. 13(6):673-679
Clarke, J. (2009) Role of polarized cell divisions in zebrafish neural tube formation. Current opinion in neurobiology. 19(2):134-138
Tawk, M., Bianco, I.H., and Clarke, J.D. (2009) Focal electroporation in zebrafish embryos and larvae. Methods in molecular biology (Clifton, N.J.). 546:145-151
Kosodo, Y., Toida, K., Dubreuil, V., Alexandre, P., Schenk, J., Kiyokage, E., Attardo, A., Mora-Bermúdez, F., Arii, T., Clarke, J.D., and Huttner, W.B. (2008) Cytokinesis of neuroepithelial cells can divide their basal process before anaphase. The EMBO journal. 27(23):3151-3163
Bianco, I.H., Carl, M., Russell, C., Clarke, J.D., and Wilson, S.W. (2008) Brain asymmetry is encoded at the level of axon terminal morphology. Neural Development. 3:9
Clarke, J.D., and Jayasinghe, S.N. (2008) Bio-electrosprayed multicellular zebrafish embryos are viable and develop normally. Biomedical materials (Bristol, England). 3(1):11001
Tawk, M., Araya, C., Lyons, D.A., Reugels, A.M., Girdler, G.C., Bayley, P.R., Hyde, D.R., Tada, M., and Clarke, J.D. (2007) A mirror-symmetric cell division that orchestrates neuroepithelial morphogenesis. Nature. 446(7137):797-800
Mione, M., Lele, Z., Kwong, C.T., Concha, M.L., and Clarke, J.D. (2006) Expression of pcp4a in subpopulations of CNS neurons in zebrafish. The Journal of comparative neurology. 495(6):769-787
Lyons, D.A., Guy, A.T., and Clarke, J.D. (2003) Monitoring neural progenitor fate through multiple rounds of division in an intact vertebrate brain. Development (Cambridge, England). 130(15):427-436
Concha, M.L., Russell, C., Regan, J.C., Tawk, M., Sidi, S., Gilmour, D.T., Kapsimali, M., Sumoy, L., Goldstone, K., Amaya, E., Kimelman, D., Nicolson, T., Gründer, S., Gomperts, M., Clarke, J.D.W., and Wilson, S.W. (2003) Local tissue interactions across the dorsal midline of the forebrain establish CNS laterality. Neuron. 39(3):423-438
Take-uchi, M., Clarke, J.D.W., and Wilson, S.W. (2003) Hedgehog signalling maintains the optic stalk-retinal interface through the regulation of Vax gene activity. Development (Cambridge, England). 130(5):955-968
Klisa, C., Bayley, P., Lyons, D.A., Nüsslein-Volhard, C., Clarke, J.D.W., Brand, M., and Wilson, S.W. (2002) Identification and characterization of novel zebrafish brain development mutants by large-scale mutagenesis screening. Developmental Biology. 247(2):447
Picker, A., Brennan, C., Reifers, F., Clarke, J.D., Holder, N., and Brand, M. (1999) Requirement for the zebrafish mid-hindbrain boundary in midbrain polarisation, mapping and confinement of the retinotectal projection. Development (Cambridge, England). 126(13):2967-2978
Alexandre, D., Clarke, J.D.W., Oxtoby, E., Yan, Y.L., Jowett, T., and Holder, N. (1996) Ectopic expression of Hoxa-1 in the zebrafish alters the fate of the mandibular arch neural crest and phenocopies a retinoic acid-induced phenotype. Development (Cambridge, England). 122(3):735-746
Hill, J., Clarke, J.D.W., Vargesson, N., Jowett, T., and Holder, N. (1995) Exogenous retinoic acid causes specific alterations in the development of the midbrain and hindbrain of the zebrafish embryo including positional respecification of the Mauthner neuron. Mechanisms of Development. 50:3-16

Recent nonzebrafish publications:

Clarke, J.D.W. & Lumsden, A. (1993). Segmental repetition of neuronal phenotype sets in the chick embryo hindbrain. Development 118, 151-162.

Lumsden, A., Clarke, J.D.W., Keynes, R. & Fraser, S. E. (1994). Early phenotypic choices by neuronal precursors, revealed by clonal analysis of the chick embryo hindbrain. Development 120, 1581-1589.

Gale, E., Prince, V., Lumsden, A., Clarke, J., Holder, N. & Maden, M. (1996). Late effects of retinoic acid on neural crest and aspects of rhombomere identity. Development 122, 783-793.

Cohn, M.J., Patel, K., Krumlauf, R., Wilkinson, D.G., Clarke, J.D.W. and Tickle, C. (1997). Hox9 genes and vertebrate limb specification. Nature 387, 97-101.

Vargesson, N., Clarke, J.D.W., Vincent, K., Coles, C., Wolpert, L. and Tickle, C. (1997). Cell fate in the chick limb bud and its relationship to gene expression. Development 124, 1909-1918.

Nittenberg, R., Patel, K., Joshi, Y., Krumlauf, R., Wilkinson, D. G., Brickell, P.M., Tickle, C. and Clarke, J.D.W. (1997). Cell movements, neuronal organisation and gene expression in hindbrains lacking morphological boundaries. Development 124, 2297-2306.

Yang, Y., Drossopoulou, G., Chuang, P.-T., Duprez, D., Marti, E., Bumcrot, D., Vargesson, N., Clarke, J., Niswander, L., McMahon, A. and Tickle, C. (1997). Relationship between dose, distance and time in Sonic Hedgehog-mediated regulation of antero-posterior polarity in the chick limb. Development 124, 4393-4404.

Altabef, M., Clarke, J.D.W. and Tickle, C. (1997). Dorso-ventral ectodermal compartments and origin of apical ectodermal ridge in developing chick limb. Development 124, 4547- 4556.

Kostakopoulou, K., Vargesson, N., Clarke, J.D.W., Brickell, P.M. and Tickle, T. (1997). Local origin of cells in FGF-4-induced outgrowth of amputated chick wing bud stumps. Int. J. Dev. Biol. 41, 747-750.

Clarke, J.D.W., Erskine, L. and Lumsden, A. (1998). Differential progenitor dispersal and the spatial origin of early neurons can explain the predominance of single-phenotype clones in the chick hindbrain Developmental Dynamics 212, 14-26.

McGonnell, I.M., Clarke, J.D.W. and Tickle, C. (1998). Fate map of the developing chick face: Analysis of expansion of facial primardia and establishment of the primary palate. Developmental Dynamics 212, 102-118.

Hunt, P., Clarke, J.D.W., Buxton, P., Ferretti, P. and Thorogood, P. (1998). Stability and plasticity of neural crest patterning and branchial arch Hox code after extensive cephalic crest migration. Developmental Biology 198, 82-104.

Erskine, L., Patel, K. and Clarke, J.D.W. (1998). Progenitor dispersal and the origin of early neuronal phenotypes in the chick embryo spinal cord. Developmental Biology 199, 26-41.

Meyer, M., Clarke, J.D.W., Patel, K., Townsend-Nicholson, A. and Burnstock, G. (1999). Selective expression of a purinoreceptor, cP2Y1, suggests a role for nucleotide signalling in development of the chick embryo. Developmental Dynamics 214, 152-158.

Dale, K. Sattar, N., Heemskerk, J., Clarke, J.D.W., Placzek, M. and Dodd, J. (1999). Differential patterning of ventral midline cells by axial mesoderm is regulated by BMP7 and chordin. Development 126, 397-408.

Clarke, J.D.W. and Tickle, C. (1999). Fatemaps old and new. Nature Cell Biology 1, E103-E109.

Zhang, F., Clarke, J.D.W. and Ferretti, P. (2000) FGF-2 up-regulation and proliferation of neural progenitors in the regenerating amphibian spinal cord in vivo. Developmental Biology 225, 381-391