Along-axon diameter variation and axonal orientation dispersion revealed with 3D electron microscopy: implications for quantifying brain white matter microstructure with histology and diffusion MRI.

Brain Structure & Function
Hong-Hsi LeeEls Fieremans

Abstract

Tissue microstructure modeling of diffusion MRI signal is an active research area striving to bridge the gap between macroscopic MRI resolution and cellular-level tissue architecture. Such modeling in neuronal tissue relies on a number of assumptions about the microstructural features of axonal fiber bundles, such as the axonal shape (e.g., perfect cylinders) and the fiber orientation dispersion. However, these assumptions have not yet been validated by sufficiently high-resolution 3-dimensional histology. Here, we reconstructed sequential scanning electron microscopy images in mouse brain corpus callosum, and introduced a random-walker (RaW)-based algorithm to rapidly segment individual intra-axonal spaces and myelin sheaths of myelinated axons. Confirmed by a segmentation based on human annotations initiated with conventional machine-learning-based carving, our semi-automatic algorithm is reliable and less time-consuming. Based on the segmentation, we calculated MRI-relevant estimates of size-related parameters (inner axonal diameter, its distribution, along-axon variation, and myelin g-ratio), and orientation-related parameters (fiber orientation distribution and its rotational invariants; dispersion angle). The reported dis...Continue Reading

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Citations

Dec 24, 2019·NMR in Biomedicine·Jan BrabecMarkus Nilsson
Feb 13, 2020·ELife·Jelle VeraartNoam Shemesh
Apr 17, 2019·Scientific Reports·Ali AbdollahzadehAlejandra Sierra
Mar 3, 2020·Frontiers in Neuroscience·Michela FratiniAlejandra Sierra
Dec 11, 2020·NeuroImage·Kevin D HarkinsMark D Does
Sep 30, 2020·Experimental Neurology·Ruili Feng TieqiaoWen
Jul 1, 2020·Physics in Medicine and Biology·Daniel J SullivanAssimina A Pelegri
Dec 31, 2020·Proceedings of the National Academy of Sciences of the United States of America·Mariam AnderssonTim B Dyrby
Feb 12, 2021·Communications Biology·Ali AbdollahzadehJussi Tohka
Oct 24, 2020·Journal of Neuroscience Methods·Dmitry S Novikov
Feb 24, 2021·Glia·Dave E MarzanJames L Salzer
Jul 22, 2020·Journal of Neuroscience Methods·Ileana O JelescuKurt G Schilling
Jul 3, 2021·Frontiers in Neuroscience·Muhamed BarakovicAlessandro Daducci
Jul 9, 2020·Communications Biology·Hong-Hsi LeeEls Fieremans

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Methods Mentioned

BETA
electron microscopy
light microscopy
confocal microscopy
confocal

Software Mentioned

RaW
Matlab
ilastik
simeq

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