ZFIN ID: ZDB-PERS-060802-4
Kizil, Caghan
Email: ck2893@columbia.edu
URL: https://www.neurology.columbia.edu/profile/caghan-kizil-phd
Affiliation: Kizil Lab
Address: Department of Neurology and the Taub Institute for Research on Alzheimer's Disease and the Aging Brain Vagelos College of Physicians and Surgeons, Columbia University Irving Medical Center, Columbia University, 650 W 168th St, New York, NY, 10032
Country: United States
ORCID ID: 0000-0002-8164-9762

By using zebrafish as a model organism, we are interested in uncovering the molecular basis of neural regeneration and enhanced functional integration of neurons in Alzheimer's disease (AD). Our research group aims to understand the molecular mechanisms that zebrafish brain uses to induce regenerative stem cell plasticity and neurogenesis, use zebrafish as a mechanistic tool to investigate the molecular and cellular functions of the clinically identified genes related to AD pathology in humans, translate the protective modalities of the zebrafish brain to in vivo and in vitro mammalian AD models, and perform chemical screens in pre-clinical zebrafish AD models we generated. With the help of our toolkit for multi-omics approaches, gene editing, in vitro bio-instructive cell culture models, histological approaches, behavioral measurement, electrophysiological modalities, and clinical data-driven model development, our long-term perspective is to determine novel cellular mechanisms of AD pathogenesis for identifying new biological targets for disease-modifying interventions and drug development.

Turgutalp, B., Bhattarai, P., Ercetin, T., Luise, C., Reis, R., Gurdal, E.E., Isaak, A., Biriken, D., Dinter, E., Sipahi, H., Schepmann, D., Junker, A., Wünsch, B., Sippl, W., Gulcan, H.O., Kizil, C., Yarim, M. (2022) Discovery of Potent Cholinesterase Inhibition-Based Multi-Target-Directed Lead Compounds for Synaptoprotection in Alzheimer's Disease. Journal of medicinal chemistry. 65(18):12292-12318
Cosacak, M.I., Bhattarai, P., De Jager, P.L., Menon, V., Tosto, G., Kizil, C. (2022) Single Cell/Nucleus Transcriptomics Comparison in Zebrafish and Humans Reveals Common and Distinct Molecular Responses to Alzheimer's Disease. Cells. 11(11)
Lee, A.J., Raghavan, N.S., Bhattarai, P., Siddiqui, T., Sariya, S., Reyes-Dumeyer, D., Flowers, X.E., Cardoso, S.A.L., De Jager, P.L., Bennett, D.A., Schneider, J.A., Menon, V., Wang, Y., Lantigua, R.A., Medrano, M., Rivera, D., Jiménez-Velázquez, I.Z., Kukull, W.A., Brickman, A.M., Manly, J.J., Tosto, G., Kizil, C., Vardarajan, B.N., Mayeux, R. (2022) FMNL2 regulates gliovascular interactions and is associated with vascular risk factors and cerebrovascular pathology in Alzheimer's disease. Acta Neuropathologica. 144(1):59-79
Kizil, C., Sariya, S., Kim, Y.A., Rajabli, F., Martin, E., Reyes-Dumeyer, D., Vardarajan, B., Maldonado, A., Haines, J.L., Mayeux, R., Jiménez-Velázquez, I.Z., Santa-Maria, I., Tosto, G. (2022) Admixture Mapping of Alzheimer's disease in Caribbean Hispanics identifies a new locus on 22q13.1. Molecular psychiatry. 27(6):2813-2820
Siddiqui, T., Bhattarai, P., Popova, S., Cosacak, M.I., Sariya, S., Zhang, Y., Mayeux, R., Tosto, G., Kizil, C. (2021) KYNA/Ahr Signaling Suppresses Neural Stem Cell Plasticity and Neurogenesis in Adult Zebrafish Model of Alzheimer's Disease. Cells. 10(10):
D'Gama, P.P., Qiu, T., Cosacak, M.I., Rayamajhi, D., Konac, A., Hansen, J.N., Ringers, C., Acuña-Hinrichsen, F., Hui, S.P., Olstad, E.W., Chong, Y.L., Lim, C.K.A., Gupta, A., Ng, C.P., Nilges, B.S., Kashikar, N.D., Wachten, D., Liebl, D., Kikuchi, K., Kizil, C., Yaksi, E., Roy, S., Jurisch-Yaksi, N. (2021) Diversity and function of motile ciliated cell types within ependymal lineages of the zebrafish brain. Cell Reports. 37:109775
Chang, W., Pedroni, A., Bertuzzi, M., Kizil, C., Simon, A., Ampatzis, K. (2021) Locomotion dependent neuron-glia interactions control neurogenesis and regeneration in the adult zebrafish spinal cord. Nature communications. 12:4857
Fore S., Acuña-Hinrichsen F., Mutlu K.A., Bartoszek E.M., Serneels B., Faturos N.G., Chau K.T.P., Cosacak M.I., Verdugo CD., Palumbo F., Ringers C., Jurisch-Yaksi N., Kizil C., Yaksi E. (2020) Functional properties of habenular neurons are determined by developmental stage and sequential neurogenesis. Science advances. 6(36):eaaz3173
Cosacak, M.I., Bhattarai, P., Kizil, C. (2020) Protocol for Dissection and Dissociation of Zebrafish Telencephalon for Single-Cell Sequencing. STAR protocols. 1:100042
Jurisch-Yaksi, N., Yaksi, E., Kizil, C. (2020) Radial glia in the zebrafish brain: Functional, structural, and physiological comparison with the mammalian glia. Glia. 68(12):2451-2470
Mashkaryan, V., Siddiqui, T., Popova, S., Cosacak, M.I., Bhattarai, P., Brandt, K., Govindarajan, N., Petzold, A., Reinhardt, S., Dahl, A., Lefort, R., Kizil, C. (2020) Type 1 Interleukin-4 Signaling Obliterates Mouse Astroglia in vivo but Not in vitro. Frontiers in cell and developmental biology. 8:114
Bhattarai, P., Cosacak, M.I., Mashkaryan, V., Demir, S., Popova, S.D., Govindarajan, N., Brandt, K., Zhang, Y., Chang, W., Ampatzis, K., Kizil, C. (2020) Neuron-glia interaction through Serotonin-BDNF-NGFR axis enables regenerative neurogenesis in Alzheimer's model of adult zebrafish brain. PLoS Biology. 18:e3000585
Diaz Verdugo, C., Myren-Svelstad, S., Aydin, E., Van Hoeymissen, E., Deneubourg, C., Vanderhaeghe, S., Vancraeynest, J., Pelgrims, R., Cosacak, M.I., Muto, A., Kizil, C., Kawakami, K., Jurisch-Yaksi, N., Yaksi, E. (2019) Glia-neuron interactions underlie state transitions to generalized seizures. Nature communications. 10:3830
Cosacak, M.I., Bhattarai, P., Reinhardt, S., Petzold, A., Dahl, A., Zhang, Y., Kizil, C. (2019) Single-Cell Transcriptomics Analyses of Neural Stem Cell Heterogeneity and Contextual Plasticity in a Zebrafish Brain Model of Amyloid Toxicity. Cell Reports. 27:1307-1318.e3
Celikkaya, H., Cosacak, M.I., Papadimitriou, C., Popova, S., Bhattarai, P., Biswas, S.N., Siddiqui, T., Wistorf, S., Nevado-Alcalde, I., Naumann, L., Mashkaryan, V., Brandt, K., Freudenberg, U., Werner, C., Kizil, C. (2019) GATA3 Promotes the Neural Progenitor State but Not Neurogenesis in 3D Traumatic Injury Model of Primary Human Cortical Astrocytes. Frontiers in Cellular Neuroscience. 13:23
Reinhardt, L., Kordes, S., Reinhardt, P., Glatza, M., Baumann, M., Drexler, H.C.A., Menninger, S., Zischinsky, G., Eickhoff, J., Fröb, C., Bhattarai, P., Arulmozhivarman, G., Marrone, L., Janosch, A., Adachi, K., Stehling, M., Anderson, E.N., Abo-Rady, M., Bickle, M., Pandey, U.B., Reimer, M.M., Kizil, C., Schöler, H.R., Nussbaumer, P., Klebl, B., Sterneckert, J.L. (2019) Dual Inhibition of GSK3β and CDK5 Protects the Cytoskeleton of Neurons from Neuroinflammatory-Mediated Degeneration In Vitro and In Vivo. Stem Cell Reports. 12(3):502-517
Kizil, C., Bhattarai, P. (2018) Is Alzheimer's Also a Stem Cell Disease? - The Zebrafish Perspective. Frontiers in cell and developmental biology. 6:159
Kizil, C. (2018) Mechanisms of Pathology-Induced Neural Stem Cell Plasticity and Neural Regeneration in Adult Zebrafish Brain. Current pathobiology reports. 6:71-77
Bhattarai, P., Thomas, A.K., Cosacak, M.I., Papadimitriou, C., Mashkaryan, V., Zhang, Y., Kizil, C. (2017) Modeling Amyloid-β42 Toxicity and Neurodegeneration in Adult Zebrafish Brain. Journal of visualized experiments : JoVE. (128)
Cosacak, M.I., Bhattarai, P., Bocova, L., Dzewas, T., Mashkaryan, V., Papadimitriou, C., Brandt, K., Hollak, H., Antos, C.L., Kizil, C. (2017) Human TAUP301L overexpression results in TAU hyperphosphorylation without neurofibrillary tangles in adult zebrafish brain.. Scientific Reports. 7:12959
Bhattarai, P., Thomas, A.K., Zhang, Y., Kizil, C. (2017) The effects of aging on Amyloid-β42-induced neurodegeneration and regeneration in adult zebrafish brain. Neurogenesis (Austin, Tex.). 4:e1322666
Bhattarai, P., Thomas, A.K., Cosacak, M.I., Papadimitriou, C., Mashkaryan, V., Froc, C., Reinhardt, S., Kurth, T., Dahl, A., Zhang, Y., Kizil, C. (2016) IL4/STAT6 Signaling Activates Neural Stem Cell Proliferation and Neurogenesis upon Amyloid-β42 Aggregation in Adult Zebrafish Brain. Cell Reports. 17:941-948
Tincer, G., Mashkaryan, V., Bhattarai, P., Kizil, C. (2016) Neural stem/progenitor cells in Alzheimer's disease. The Yale journal of biology and medicine. 89:23-35
Kizil, C., Iltzsche, A., Thomas, A.K., Bhattarai, P., Zhang, Y., Brand, M. (2015) Efficient cargo delivery into adult brain tissue using short cell-penetrating peptides. PLoS One. 10:e0124073
Kizil, C., Kyritsis, N., Brand, M. (2015) Effects of inflammation on stem cells: together they strive?. EMBO reports. 16(4):416-426
Cosacak, M.I., Papadimitriou, C., Kizil, C. (2015) Regeneration, Plasticity, and Induced Molecular Programs in Adult Zebrafish Brain. BioMed Research International. 2015:769763
Kizil, C., Küchler, B., Yan, J.J., Özhan, G., Moro, E., Argenton, F., Brand, M., Weidinger, G., Antos, C.L. (2014) Simplet/Fam53b is required for Wnt signal transduction by regulating β-catenin nuclear localization. Development (Cambridge, England). 141:3529-39
Kizil, C., Iltzsche, A., Kaslin, J., and Brand, M. (2013) Micromanipulation of gene expression in the adult zebrafish brain using cerebroventricular microinjection of morpholino oligonucleotides. Journal of visualized experiments : JoVE. (75):e50415
Kizil, C., Kyritsis, N., Dudczig, S., Kroehne, V., Freudenreich, D., Kaslin, J., and Brand, M. (2012) Regenerative Neurogenesis from Neural Progenitor Cells Requires Injury-Induced Expression of Gata3. Developmental Cell. 23(6):1230-1237
Kyritsis, N., Kizil, C., Zocher, S., Kroehne, V., Kaslin, J., Freudenreich, D., Iltzsche, A., and Brand, M. (2012) Acute Inflammation Initiates the Regenerative Response in the Adult Zebrafish Brain. Science (New York, N.Y.). 338(6112):1353-1356
Kizil, C., Dudczig, S., Kyritsis, N., Machate, A., Blaesche, J., Kroehne, V., and Brand, M. (2012) The chemokine receptor cxcr5 regulates the regenerative neurogenesis response in the adult zebrafish brain. Neural Development. 7(1):27
Kizil, C., Kaslin, J., Kroehne, V., and Brand, M. (2012) Adult neurogenesis and brain regeneration in zebrafish. Developmental Neurobiology. 72(3):429-461
Kizil, C., and Brand, M. (2011) Cerebroventricular Microinjection (CVMI) into Adult Zebrafish Brain Is an Efficient Misexpression Method for Forebrain Ventricular Cells. PLoS One. 6(11):e27395
Kizil, C., Otto, G.W., Geisler, R., Nüsslein-Volhard, C., and Antos, C.L. (2009) Simplet controls cell proliferation and gene transcription during zebrafish caudal fin regeneration. Developmental Biology. 325(2):329-340
Kizil, C. (2009) Characterization of fam53b, simplet (smp) gene in caudal fin regeneration and embryonic development of zebrafish (Danio rerio). Ph.D. Thesis. :126p

- Kizil C. (2011) Turkish science seeks freedom. Science. 334(6055):452-3.
- Kizil C. (2011) Academic autonomy: more freedom for Turkish science. Nature. 477(7366):538.
- Altindis E, Alpar MA, Aksay E, Beckwith J, Bokel C, Curl RF, Darnell RB, Elledge SJ, Erman B, Frahm J, Goff SP, Greengard P, Hoffmann R, Ilhan B, Kaslin J, Lipkin SM, Poulopoulou C, Raz E, Rubin MA, Salturk M, Schrock RR, Trautmann A, Unutmaz D, Weinstein H, Kizil C. (2013) Turkey must end violent response to protests. Science. 341(6143):236.
- Kizil C. (2016) Degrees of freedom. New Scientist. 231(3084):20-21.
- Kizil C. (2016) Government: Concern grows for Turkey's academics. Nature. 529(7587):466.
- Kizil C. (2017) An existential threat. New Scientist. 234(3121):24-25.
- Kizil C. (2018) Turkish Medical Association central council detained for demanding peace. Lancet. 391(10120):532