A multiscale approach for the reconstruction of the fiber architecture of the human brain based on 3D-PLI

Frontiers in Neuroanatomy

Volumn 9, Issue september, 2015, Pages

  Reckfort, Julia ^a   Wiese, Hendrik ^a   Pietrzyk, Uwe ^a,b   Zilles, Karl ^a,c   Amunts, Katrin ^a,d   Axer, Markus ^a  

^a FORSCHUNGSZENTRUM JÜLICH   (Germany)

^b UNIVERSITY OF WUPPERTAL   (Germany)

^c UNIVERSITY HOSPITAL RWTH AACHEN   (Germany)

^d HEINRICH HEINE UNIVERSITY   (Germany)

Author keywords

Brain; Connectome; Fiber orientation; Multiscale approach; Polarized light imaging

Indexed keywords

ANIMAL TISSUE; ARTICLE; CHLOROCEBUS SABAEUS; CONNECTOME; CONTROLLED STUDY; CYTOARCHITECTURE; IMAGE ANALYSIS; LIGHT INTENSITY; METHODOLOGY; MOTOR RETARDATION; MULTISCALE APPROACH; MYELIN SHEATH; NERVE CONDUCTION; NERVE RECONSTRUCTION; NEUROIMAGING; NONHUMAN; POLARIMETRY; POLARIZATION MICROSCOPY; POLARIZED LIGHT IMAGING; SPATIAL ORIENTATION; THREE DIMENSIONAL IMAGING;

EID: 84941087491     PISSN: None     EISSN: 16625129     Source Type: Journal    
DOI: 10.3389/fnana.2015.00118     Document Type: Article

References (42)

1. Aboitiz, F., Scheibel, A. B., Fisher, R. S., and Zaidel, E. (1992). Fiber composition of the human corpus callosum. Brain Res. 598, 143-153. doi: 10.1016/0006-8993(92)90178-C
2. Amunts, K., Bücker, O., and Axer, M. (2013a). “Towards a multiscale, high-resolution model of the human brain” in Brain-Inspired Computing, eds L. Grandinetti, T. Lippert, and N. Petkov (Cetraro: Springer), 3-14. doi: 10.1007/978-3-319-12084-31
3. Amunts, K., Lepage, C., Borgeat, L., Mohlberg, H., Dickscheid, T., Rousseau, M.-E., et al. (2013b). Bigbrain: an ultrahigh-resolution 3D human brain model. Science 340, 1472-1475. doi: 10.1126/science.1235381
4. Axer, M., Amunts, K., Gräßel, D., Palm, C., Dammers, J., Axer, H., et al. (2011a). A novel approach to the human connectome: ultra-high resolution mapping of fiber tracts in the brain. Neuroimage 54, 1091-1101. doi: 10.1016/j.neuroimage.2010.08.075
5. Axer, M., Gräßel, D., Kleiner, M., Dammers, J., Dickscheid, T., Reckfort, J., et al. (2011b). High-resolution fiber tract reconstruction in the human brain by means of three-dimensional polarized light imaging. Front. Neuroinform. 5:34. doi: 10.3389/fninf.2011.00034
6. Basser, P. J., Mattiello, J., and Lebihan, D. (1994). Estimation of the effective self­diffusion tensor from the NMR spin echo. J. Magn. Reson. B 103, 247-254. doi: 10.1006/jmrb.1994.1037
7. Beaulieu, C. (2002). The basis ofanisotropic water diffusion in the nervous system -a technical review. NMR Biomed. 15, 435-455. doi: 10.1002/nbm.782
8. Behrens, T. E. J., Berg, H. J., Jbabdi, S., Rushworth, M. F. S., and Woolrich, M. W. (2007). Probabilistic diffusion tractography with multiple fibre orientations: what can we gain? Neuroimage 34, 144-155. doi: 10.1016/j.neuroimage.2006.09.018
9. Brodmann, K. (1903). Bemerkungen zur untersuchung des nervensystems im polarisierten licht. J. Psychol. Neurol. 2, 211-213.
10. Bürgel, U., Amunts, K., Hoemke, L., Mohlberg, H., Gilsbach, J., and Zilles, K. (2006). White matter fiber tracts of the human brain: three-dimensional mapping at microscopic resolution topography and intersubject variability. Neuroimage 29, 1092-1105. doi: 10.1016/j.neuroimage.2005.08.040
11. Bürgel, U., Mecklenburg, I., Blohm, U., and Zilles, K. (1997). Histological visualization of long fiber tracts in the white matter of adult human brains. J. Brain Res. 38, 397-404.
12. Conturo, T. E., Lori, N. F., Cull, T. S., Akbudak, E., Snyder, A. Z., Shimony, J. S., et al. (1999). Tracking neuronal fiber pathways in the living human brain. Proc. Natl. Acad. Sci. U.S.A. 96, 10422-10427. doi: 10.1073/pnas.96.18.10422
13. de Boer, J. F., Milner, T. E., van Gemert, M. J. C., and Nelson, J. S. (1997). Two-dimensional birefringence imaging in biological tissue by polarization-sensitive optical coherence tomography. Opt. Lett. 22, 934-936. doi: 10.1364/0L.22.000934
14. Dell'Acqua, F., Rizzo, G., Scifo, P., Clarke, R. A., Scotti, G., and Fazio, F. (2007). A model-based deconvolution approach to solve fiber crossing in diffusion-weighted MR imaging. IEEE Trans. Biomed. Eng. 54, 462-472. doi: 10.1109/TBME.2006.888830
15. Descoteaux, M., Angelino, E., Fitzgibbons, S., and Deriche, R. (2007). Regularized, fast, and robust analytical Q-ball imaging. Magn. Reson. Med. 58, 497-510. doi: 10.1002/mrm.21277
16. Dohmen, M., Menzel, M., Wiese, H., Reckfort, J., Hanke, F., Pietrzyk, U., et al. (2015). Understanding fiber mixture by simulation in 3D polarized light imaging. NeuroImage 111, 464-475. doi: 10.1016/j.neuroimage.2015.02.020
17. Glazer, A., Lewis, J., and Kaminsky, W. (1996). An automatic optical imaging system for birefringent media. Proc. R. Soc. A Math. Phys. Eng. Sci. 452, 2751-2765. doi: 10.1098/rspa.1996.0145
18. Goethlin, G. (1913). Die doppelbrechenden eigenschaften des nervengewebes ihre ursachen und ihre biologischen konsequenzen. Kungl. Svenska Vetenskapsakad. Handl. 51, 1-92.
19. Jansons, K. M., and Alexander, D. C. (2003). Persistent angular structure: new insights from diffusion magnetic resonance imaging data. Inverse Probl. 19, 1031-1046. doi: 10.1088/0266-5611/19/5/303
20. Johansen-Berg, H., and Rushworth, M. F. S. (2009). Using diffusion imaging to study human connectional anatomy. Annu. Rev. Neurosci. 32, 75-94. doi: 10.1146/annurev.neuro.051508.135735
21. Klein, S., Staring, M., Murphy, K., Viergever, M., and Pluim, J. (2010). Elastix: a toolbox for intensity based medical image registration. IEEE Trans. Med. Imaging 29, 196-205. doi: 10.1109/TMI.2009.2035616
22. Kleiner, M., Axer, M., Gräßel, D., Reckfort, J., Pietrzyk, U., Amunts, K., et al. (2012). “Classification of ambiguous nerve fiber orientations in 3D polarized light imaging” in Proceeding MICCAI, eds N. Ayache, H. Delingette, P. Golland, and K. Mori (Heidelberg: Springer), 206-213. doi: 10.1007/978-3-642­33415-3
23. Klingler, J. (1935). Erleichterung der makroskopischen praeparation des gehirns durch den gefrierprozess. Schweiz. Arch. Neurol. Psychiatr. 36, 247-256.
24. Larsen, L., Griffin, L. D., Gräßel, D., Witte, O. W., and Axer, H. (2007). Polarized light imaging of white matter architecture. Microsc. Res. Tech. 70, 851-863. doi: 10.1002/jemt.20488
25. Li, A., Gong, H., Zhang, B., Wang, Q., Yan, C., Wu, J., et al. (2010). Micro-optical sectioning tomography to obtain a high-resolution atlas of the mouse brain. Science 330, 1404-1408. doi: 10.1126/science.1191776
26. Martenson, R. (1992). Myelin: Biology and Chemistry. Boca Raton, FL: CRC Press.
27. Mori, S., and Zhang, J. (2006). Principles of diffusion tensor imaging and its applications to basic neuroscience research. Neuron 51, 527-539. doi: 10.1016/j.neuron.2006.08.012
28. Pierpaoli, C., and Basser, P. J. (1996). Toward a quantitative assessment of diffusion anisotropy. Magn. Reson. Med. 36, 893-906. doi: 10.1002/mrm.1910360612
29. Reckfort, J., Wiese, H., Dohmen, M., Gräßel, D., Pietrzyk, U., Zilles, K., et al. (2013). “Extracting the inclination angle of nerve fibers within the human brain with 3D-PLI independent of system properties, Vol. 8873” in Proceeding SPIE -International Society of Optical Engineering (San Diego, CA). doi: 10.1117/12.2023198
30. Schindelin, J., Arganda-Carreras, I., Frise, E., Kaynig, V., Longari, M., Pietzsch, T., et al. (2012). Fiji: an open-source platform for biological-image analysis. Nat. Methods 9, 676-682. doi: 10.1038/NMETH.2019
31. Schmahmann, J. D., Pandya, D. N., Wang, R., Dai, G., D'Arceuil, H. E., De Crespigny, A. J., et al. (2007). Association fibre pathways of the brain: parallel observations from diffusion spectrum imaging and autoradiography. Brain 130, 630-653. doi: 10.1093/brain/awl359
32. Schmidt, W. (1923). Zur doppelbrechung des nervenmarks. Z. Wiss. Mikrosk. 41, 29-38.
33. Schmitt, F., and Bear, R. (1937). The optical properties of vertebrate nerve axons as related to fiber size. J. Cell. Comp. Physiol. 9, 261-273. doi: 10.1002/jcp.1030090209
34. Silvestri, L., Bria, A., Sacconi, L., Iannello, G., and Pavone, F. S. (2012). Confocal light sheet microscopy: micron-scale neuroanatomy of the entire mouse brain. Opt. Express 20, 20582-20598. doi: 10.1364/0E.20.020582
35. Tournier, J., Calamante, F., and Connelly, A. (2007). Robust determination of the fiber orientation distribution in diffusion MRI: non-negativity constrained super-resolved spherical deconvolution. NeuroImage 35, 1459-1472. doi: 10.1016/j.neuroimage.2007.02.016
36. Tournier, J., Calamante, F., Gadian, D., and Connelly, A. (2004). Direct estimation of the fiber orientation density function from diffusion-weighted mri data using spherical deconvolution. NeuroImage 23, 1176-1185. doi: 10.1016/j.neuroimage.2004.07.037
37. Tuch, D. S., Reese, T. G., Wiegell, M. R., Makris, N., Belliveau, J. W., and van Wedeen, J. (2002). High angular resolution diffusion imaging reveals intravoxel white matter fiber heterogeneity. Magn. Reson. Med. 48, 577-582. doi: 10.1002/mrm.10268
38. Tüere, U., Yasargil, M. G., Friedmann, A. H., and Al-Mefty, O. (2000). Fiber dissection technique: lateral aspect of the brain. Neurosurgery 47,417-427. doi: 10.1097/00006123-200008000-00028
39. Wang, H., Black, A. J., Zhu, J., Stigen, T. W., Al-Qaisi, M. K., Netoff, T. I., et al. (2011). Reconstructing micrometer-scale fiber pathways in the brain: multi­contrast optical coherence tomography based tractography. NeuroImage 58, 984-992. doi: 10.1016/j.neuroimage.2011.07.005
40. Wiese, H., GraBel, D., Pietrzyk, U., Amunts, K., and Axer, M. (2014). “Polarized Light Imaging of the Human Brain: A New Approach to the Data Analysis of Tilted Sections,” in Proceedings ofSPIE-International Professional Society Optics and Photonics Technology, ed D. B. Chenault and D. H. Goldstein (Baltimore: International Society of Optical Engineering).
41. Wolman, M. (1975). Polarized-light microscopy as a tool of diagnostic pathologyreview. J. Histochem. Cytochem. 23, 21-50. doi: 10.1177/23.1.1090645
42. Yoo, T., Ackerman, M., Lorensen, W., Schroeder, W., Chalana, V., Aylward, S., et al. (2002). Engineering and algorithm design for an image processing API: a technical report on ITK-the insight toolkit. Stud. Health Technol. Inform. 85, 586-592. doi: 10.1.1.2.1280