Department of Neuroscience

Research Abstract

Dr. Fitzpatrick’s primary research interests lie in the integration and application of multi-scale optical and charged particle imaging technologies -- specifically, biological applications of ion microscopy, development of correlative 3D light and electron microscopy approaches, and new computational tools to visualize and manipulate large-scale multi-dimensional datasets.

Selected Publications

• A.J. Calhoun, A. Tong, N. Pokala, J.A.J Fitzpatrick, T.O. Sharpee and S.H. Chalasani. 2015. Neural Mechanisms for evaluating environemtal variability in Caenorhabditis elegans. Neuron. 86, 1-14, April 22, 2015
• M.W. Adams, A.F. Loftus, S.E. Dunn, M.S. Joens and J.A.J. Fitzpatrick. 2015. Invited Chapter on "Light-Sheet Fluorescence Microscopy". Current Protocols in Cytometry. 71:12.37.1-12.37.15.
• H. Contreras, M.S. Joens, L.M. McMath, V.P. Le, M.V. Tullius, J.M. Kimmey, N. Bionghi, M.A. Horwitz, J.A.J. Fitzpatrick and C.W. Goulding. 2014. Characterization of a Mycobacterium tuberculosis nanocompartment and its potential cargo proteins. Journal of Biological Chemistry\., May 22 pii: jbc.M114.570119.
• M.S. Joens, C. Huynh, J.M. Kasuboski, D. Ferranti, Y.J. Sigal, F. Zeitvogel, M. Obst, C.J. Burkhardt, K.P. Curran, S.H. Chalasani, L.A. Stern, B. Goetze and J.A.J. Fitzpatrick. 2013. Helium Ion Microscopy (HIM) for the imaging of biological samples at sub-nanometer resolution. Scientific Reports. 3, 3514.
• Y.S. Hu, Q. Zhu, K. Elkins, K. Tse, Y. Li, J.A.J. Fitzpatrick, I.M. Verma and H. Cang. 2013. Light-sheet Bayesian microscopy enables deep-cell super-resolution imaging of heterochromatin in live human embryonic stem cells. Optical Nanoscopy. 2:7.
• Y.H. Chien, M.E. Werner, J. Stubbs, M.S. Joens, J. Li, S. Chien, J.A.J. Fitzpatrick, B.J. Mitchell and C. Kintner. 2013. Bbof1 is required to maintain cilia orientation. Development. Aug;140(16):3468-77.
• L. Crabbe, A.J. Cesare, J.M. Kasuboski, J.A.J. Fitzpatrick, and J. Karlseder. 2012. Human telomeres are tethered to the nuclear envelope during postmitotic nuclear assembly. Cell Reports. Dec 27;2(6):1521-9.
• H. D. Ou, W Kwiatkowski, T Deerinck, A Noske, K.Y. Blain, H Land, C Soria, C.J. Powers, X Shu, R Tsien, J.A.J. Fitzpatrick, J.A. Long, M.H. Ellisman, S Choe and C.C. O'Shea. 2012. Structure of E4-ORF3 reveals a viral supramolecular assembly that inactivates multiple tumor suppressors. Cell. Oct 12; 151(2):304-19.
• J.M. Kasuboski, Y.J. Sigal, M.S. Joens, B.F. Lillemeier and J.A.J. Fitzpatrick. 2012. Invited Chapter on "Super-Resolution Microscopy: a comparative treatment" Current Protocols in Cytometry. Oct; Chapter 2: Unit 2.17.
• M. Hatori, C. Vollmers, A. Zarrinpar, L. Ditacchio, E.A. Bushong, S. Gill, M. Leblanc, A. Chaix, M.S. Joens, J.A.J. Fitzpatrick, M.H. Ellisman and S. Panda. 2012. Time-restricted feeding without reducing caloric intake prevents metabolic diseases in mice fed a high-fat diet. Cell Metabolism. Jun 6; 15(6):848-60.
• S. Shruti, J. Urban-Ciecko, J.A.J. Fitzpatrick, R. Brenner, M.P. Bruches and A.L. Barth. 2012. The Brain- Specific Beta4 Subunit Downregulates BK Channel Cell Surface Expression. PLoS One. 7(3) e33429.
• M.T. Hayashi, A.J. Cesare, J.A.J. Fitzpatrick, E. Lazzerini-Denchi and J. Karlseder. 2012. A Telomere-Dependent DNA Damage Checkpoint induced by Prolonged Mitotic Arrest. Nature Structural and Molecular Biology. 11(19) 387-94.
• J.A.J. Fitzpatrick and B.L. Lillemeier. 2011. Fluorescence Correlation Spectroscopy: Linking Molecular Dynamics to Biological Function in vitro and in situ. Current Opinion in Structural Biology. 21(5) 650-60.
• D.F. Egan, D.B. Shackelford, M.M. Mihaylova, S.R. Gelino, R.A. Kohnz, W Mair, D.S. Vasquez, A Joshi, D.M. Gwinn, R Taylor, J.M. Asara, J.A.J. Fitzpatrick, A Dillin, B Viollet, M Kundu, M Hansen, and R.J. Shaw. 2011. Phosphorylation of ULK1 (hATG1) by AMP-activated protein kinase connects energy sensing to mitophagy. Science. 331(6016) 456-461.
• K. Padmanabhan, Shane E. Andrews and J.A.J. Fitzpatrick. 2010. Invited Chapter on "Mutli-Photon Imaging". Current Protocols in Cytometry. 2.9.1-2.9.12.
• C.S. Szent-Gyorgyi, B.F. Schmidt, J.A.J. Fitzpatrick and M.P. Bruchez. 2010. Fluorogenic dendrons with multiple donor chromophores as bright genetically targeted and activated probes. Journal of the American Chemical Society. 132(32):11103-9.
• E. Fishilevich, J.A.J. Fitzpatrick and J.S. Minden. 2010. pHMA, a pH-sensitive GFP reporter for cell engulfment, in Drosophila embryos, tissues, and cells. Developmental Dynamics. 239(2), 559-573.
• S. Shenoy, R. Moldovan, J.A.J. Fitzpatrick, M. Deserno and M. Lösche. 2010. In-plane homogeneity and lipid dynamics in tethered bilayer lipid membranes (tBLMs). Softmatter. 6,1263-1274.
• J.A.J. Fitzpatrick, S.K. Andreko, L.A. Ernst, A.S. Waggoner, B. Ballou and M.P. Bruchez. 2009. Long-term persistence and spectral blue shifting of quantum dots in vivo. Nano Letters. 9(7), 2736–2741. Highlighted in Chemical and Engineering News, June 2009.
• J.A.J. Fitzpatrick, Q. Yan, J.J. Sieber, M. Dyba, C. Szent-Gyorgyi, A.S. Waggoner and M.P. Bruchez. 2009. STED nanoscopy in living cells using fluorogen activating proteins. Bioconjugate Chemistry. 20(10), 1843-1847.
• M.M. Witzberger, J.A.J. Fitzpatrick, J.C. Crowley and J.S. Minden. 2008. End-on Imaging: A new perspective on dorsoventral development in drosophila embryos. Developmental Dynamics, 237(11), 3252-3259, PMID: 18855896.
• C. Szent-Gyorgyi, B.F. Schmidt, Y. Creeger, G. Fisher, K. Zakel, S. Adler, J.A.J. Fitzpatrick, C. Woolford, Q. Yan, K. Vasilev, P. Berget, M.P. Bruchez, J. Jarvik, A.S. Waggoner. 2008. Fluorogen-activating single-chain antibodies for imaging cell surface proteins. Nature Biotechnology. 26(2), 235-249, PMID: 18157118. Featured article in issue.
• S.K. Chakraborty, J.A.J. Fitzpatrick, J.A. Phillippi, S. Andreko, M.P. Bruchez and B. Ballou. 2007. Choleratoxin B conjugated quantum dots for live cell labeling. Nano Letters. 7(9), 2618-2626, PMID: 17663586. Highlighted in Nature Nanotechnology Sept 2008.