Diadem X: Automated 4 dimensional analysis of morphological data

Neuroinformatics

Volumn 9, Issue 2-3, 2011, Pages 107-112

  He, Hai Yan ^a   Cline, Hollis T ^a  

^a SCRIPPS RESEARCH INSTITUTE   (United States)

Author keywords

4D data analysis; Axon arbor; Dendritic arbor; Structural plasticity; Time lapse in vivo imaging

Indexed keywords

ANIMAL; ARTICLE; CONFOCAL MICROSCOPY; CYTOLOGY; DATA MINING; DENDRITE; HUMAN; IMAGE CYTOMETRY; IMAGE PROCESSING; METHODOLOGY; NERVE CELL; NERVE CELL PLASTICITY; NERVE FIBER; NEUROANATOMICAL TRACT TRACING; PHYSIOLOGY; THREE DIMENSIONAL IMAGING; TIME; TIME LAPSE IMAGING;

ANIMALS; AXONS; DATA MINING; DENDRITES; HUMANS; IMAGE CYTOMETRY; IMAGE PROCESSING, COMPUTER-ASSISTED; IMAGING, THREE-DIMENSIONAL; MICROSCOPY, CONFOCAL; NEUROANATOMICAL TRACT-TRACING TECHNIQUES; NEURONAL PLASTICITY; NEURONS; TIME FACTORS; TIME-LAPSE IMAGING;

EID: 79958161138     PISSN: 15392791     EISSN: None     Source Type: Journal    
DOI: 10.1007/s12021-011-9098-x     Document Type: Article

References (45)

1. Al-Kofahi, O., Radke, R. J., Roysam, B., and Banker, G., Automated semantic analysis of changes in image sequences of neurons in culture. IEEE Trans Biomed Eng 53 (6), 1109 (2006).
2. Bas, E. and Erdogmus, D., Principal Curves as Skeletons of Tubular Objects: Locally Characterizing the Structures of Axons. Neuroinformatics (2011);
3. Narayanaswamy, A., Wang, Y., and Roysam, B., A Preprocessing Pipeline to Enhance 3-D Images of Neuronal Arbors. Neuroinformatics (2011);
4. Wang, Y., Narayanaswamy, A., Tsai, C., and Roysam, B., Generally Applicable 3D Neuron Tracing Approach and System based on Open-Curve Snake. Neuroinformatics (2011);
5. Zhao, T. et al., Automated Reconstruction of Neuronal Morphology Based on Local Geometrical and Global Structural Models. Neuroinformatics. Neuroinformatics (2011);
6. Tretken, E., Gonzolez, G., Blum, C., and Fua, P., Automated Reconstruction of Dendritic and Axonal Trees by Global Optimization with Geometric Priors. Neuroinformatics. Neuroinformatics (2011);
7. Chothani, P., Mehta, V., and Stepanyants, A., Automated tracing of neurites from light microscopy stacks of images. Neuroinformatics (2011).
8. Hubel, D. H., Weisel, T. N., and LeVay, S., Plasticity of ocular dominance columns in monkey striate cortex. Phil. Trans. R. Soc. Lond. (B) 278, 377 (1977).
9. Law, MI and Constantine-Paton, M, Anatomy and physiology of experimentally produced striped tecta. J. Neuroscience 1, 741 (1981).
10. Reh, T. and Constantine-Paton, M., Eye-specific segregation requires neural activity in three-eyed Rana pipiens. J. Neurosci. 5, 1132 (1985).
11. Katz, L. C. and Shatz, C. J., Synaptic activity and the construction of cortical circuits. Science 274, 1132 (1996).
12. Antonini, A. and Stryker, M. P., Rapid remodeling of axonal arbors in the visual cortex. Science 260 (5115), 1819 (1993).
13. Antonini, A. and Stryker, M. P., Plasticity of geniculocortical afferents following brief or prolonged monocular occlusion in the cat. J Comp Neurol 369 (1), 64 (1996).
14. Katz, L. C. and Shatz, C. J., Synaptic activity and the construction of cortical circuits. Science 274 (5290), 1133 (1996);
15. Luo, L. and O'Leary, D. D., Axon retraction and degeneration in development and disease. Annu Rev Neurosci 28, 127 (2005).
16. Cragg, B. G., The development of synapses in the visual system of the cat. J Comp Neurol 160 (2), 147 (1975);
17. Huttenlocher, P. R. and Dabholkar, A. S., Regional differences in synaptogenesis in human cerebral cortex. J Comp Neurol 387 (2), 167 (1997);
18. Rakic, P. et al., Concurrent overproduction of synapses in diverse regions of the primate cerebral cortex. Science 232 (4747), 232 (1986);
19. Warton, S. S. and McCart, R., Synaptogenesis in the stratum griseum superficiale of the rat superior colliculus. Synapse 3 (2), 136 (1989).
20. Hua, J. Y. and Smith, S. J., Neural activity and the dynamics of central nervous system development. Nat Neurosci 7 (4), 327 (2004).
21. Alsina, B., Vu, T., and Cohen-Cory, S., Visualizing synapse formation in arborizing optic axons in vivo: dynamics and modulation by BDNF. Nat Neurosci 4 (11), 1093 (2001);
22. Meyer, M. P. and Smith, S. J., Evidence from in vivo imaging that synaptogenesis guides the growth and branching of axonal arbors by two distinct mechanisms. J Neurosci 26 (13), 3604 (2006);
23. Ruthazer, E. S., Li, J., and Cline, H. T., Stabilization of axon branch dynamics by synaptic maturation. J Neurosci 26 (13), 3594 (2006);
24. Witte, S., Stier, H., and Cline, H. T., In vivo observations of timecourse and distribution of morphological dynamics in Xenopus retinotectal axon arbors. J Neurobiol 31 (2), 219 (1996);
25. O'Rourke, N. A., Cline, H. T., and Fraser, S. E., Rapid remodeling of retinal arbors in the tectum with and without blockade of synaptic transmission. Neuron 12, 921 (1994);
26. Witte, S., Stier, H., and Cline, H. T., In vivo observations of timecourse and distribution of morphological dynamics in Xenopus retinotectal axon arbors. Journal of Neurobiology 31 (2), 219 (1996).
27. O'Rourke, N. A. and Fraser, S. E., Dynamic changes in optic fiber terminal arbors lead to retinotopic map formations: An in vivo confocal microscopic study. Neuron 5, 159 (1990).
28. Jontes, J. D., Buchanan, J., and Smith, S. J., Growth cone and dendrite dynamics in zebrafish embryos: early events in synaptogenesis imaged in vivo. Nat Neurosci 3 (3), 231 (2000);
29. Niell, C. M., Meyer, M. P., and Smith, S. J., In vivo imaging of synapse formation on a growing dendritic arbor. Nat Neurosci 7 (3), 254 (2004);
30. Wu, G.-Y., Zou, D. J., Rajan, I., and Cline, H.T., Dendritic dynamics in vivo change during neuronal maturation. J. Neurosci. 19, 4472 (1999).
31. Li, J., Erisir, A., and Cline, H. T., In vivo time-lapse imaging and serial section electron microscopy reveal developmental synaptic rearrangements. Neuron 69, in press (2011).
32. Holtmaat, A. and Svoboda, K., Experience-dependent structural synaptic plasticity in the mammalian brain. Nat Rev Neurosci 10 (9), 647 (2009).
33. Rajan, I. and Cline, H.T., Glutamate receptor activity is required for normal development of tectal cell dendrites in vivo. J. Neurosci. 18, 7836 (1998);
34. Rajan, I., Witte, S., and Cline, H.T., NMDA receptor activity stabilizes presynaptic retinotectal axons and postsynaptic optic tectal cell dendrites in vivo. J. Neurobiol. 38, 357 (1999).
35. Brown, C. E. et al., Extensive turnover of dendritic spines and vascular remodeling in cortical tissues recovering from stroke. J Neurosci 27 (15), 4101 (2007);
36. Majewska, A. K., Newton, J. R., and Sur, M., Remodeling of synaptic structure in sensory cortical areas in vivo. J Neurosci 26 (11), 3021 (2006);
37. Tropea, D., Majewska, A. K., Garcia, R., and Sur, M., Structural dynamics of synapses in vivo correlate with functional changes during experience-dependent plasticity in visual cortex. J Neurosci 30 (33), 11086 (2010).
38. Ruthazer, E. S. et al., in Imaging in Neuroscience and Development, edited by R. Yuste and A. Konnerth (Cold Spring Harbor Laboratory Press, Cold Spring Harbor, 2004);
39. Keck, T. et al., Massive restructuring of neuronal circuits during functional reorganization of adult visual cortex. Nat Neurosci 11 (10), 1162 (2008).
40. Yang, G., Pan, F., and Gan, W. B., Stably maintained dendritic spines are associated with lifelong memories. Nature 462 (7275), 920 (2009).
41. Haas, K., Li, J., and Cline, H. T., AMPA receptors regulate experience-dependent dendritic arbor growth in vivo. Proc Natl Acad Sci U S A 103 (32), 12127 (2006);
42. Sin, W. C., Haas, K., Ruthazer, E. S., and Cline, H. T., Dendrite growth increased by visual activity requires NMDA receptor and Rho GTPases. Nature 419 (6906), 475 (2002);
43. Lee, W. C. et al., Dynamic remodeling of dendritic arbors in GABAergic interneurons of adult visual cortex. PLoS Biol 4 (2), e29 (2006);
44. Lee, W. C. et al., A dynamic zone defines interneuron remodeling in the adult neocortex. Proc Natl Acad Sci U S A 105 (50), 19968 (2008).
45. Bestman, J. E. and Cline, H. T., The Relationship between Dendritic Branch Dynamics and CPEB-Labeled RNP Granules Captured in Vivo. Front Neural Circuits 3, 10 (2009).