Cited by 17Advanced Neuroimaging Techniques and ApplicationsFunctional Brain Connectivity StudiesAdvanced MRI Techniques and Applications

Towards reliable reconstruction of the mouse brain corticothalamic connectivity using diffusion MRI

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Arefin, Tanzil Mahmud, Lee, Choong Heon, Liang, Zifei, Rallapalli, Harikrishna, Wadghiri, Youssef Z., Turnbull, Daniel H., Zhang, Jiangyang·2023·NeuroImage

Abstract

Diffusion magnetic resonance imaging (dMRI) tractography has yielded intriguing insights into brain circuits and their relationship to behavior in response to gene mutations or neurological diseases across a number of species. Still, existing tractography approaches suffer from limited sensitivity and specificity, leading to uncertain interpretation of the reconstructed connections. Hence, in this study, we aimed to optimize the imaging and computational pipeline to achieve the best possible spatial overlaps between the tractography and tracer-based axonal projection maps within the mouse brain corticothalamic network. We developed a dMRI-based atlas of the mouse forebrain with structural labels imported from the Allen Mouse Brain Atlas (AMBA). Using the atlas and dMRI tractography, we first reconstructed detailed node-to-node mouse brain corticothalamic structural connectivity matrices using different imaging and tractography parameters. We then investigated the effects of each condition for accurate reconstruction of the corticothalamic projections by quantifying the similarities between the tractography and the tracer data from the Allen Mouse Brain Connectivity Atlas (AMBCA). Our results suggest that these parameters significantly affect tractography outcomes and our atlas can be used to investigate macroscopic structural connectivity in the mouse brain. Furthermore, tractography in mouse brain gray matter still face challenges and need improved imaging and tractography methods.

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Authors
Arefin, T. M., Lee, C. H., Liang, Z., Rallapalli, H., Wadghiri, Y. Z., Turnbull, D. H., & Zhang, J.
Affiliations
  • Pennsylvania State University (US)
  • Center for Advanced Imaging Innovation and Research (US)
Corresponding author
Zhang, Jiangyang
Venue
NeuroImage
Publisher
Elsevier BV
Published
2023-06
Volume
273
Pages
120111
ISSN
1053-8119 (ISSN-L)
OpenAlex
W4365458813
Cited by
17
References
95
Citations by year
2026: 4 · 2025: 6 · 2024: 6 · 2023: 1
FWCI
2.80
Type
journal article
Language
en
Open access
Locations
  • NeuroImage (publishedVersion, cc-by-nc-nd)
  • PubMed (publishedVersion)
  • PubMed Central (acceptedVersion, other-oa)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
Funders
  • Services Industriels de Genève (1S10OD018337–01)
  • National Institutes of Health (R01HD074593, R01NS102904)
  • National Cancer Institute (5P30CA016087)
  • National Institute of Biomedical Imaging and Bioengineering (P41 EB017183, UL1 TR000038)
  • National Center for Advancing Translational Sciences
Topics
  • Health Sciences › Medicine › Radiology, Nuclear Medicine and Imaging › Advanced Neuroimaging Techniques and Applications
  • Life Sciences › Neuroscience › Cognitive Neuroscience › Functional Brain Connectivity Studies
  • Health Sciences › Medicine › Radiology, Nuclear Medicine and Imaging › Advanced MRI Techniques and Applications
Keywords
mouse brain, diffusion MRI tractography, structural connectivity, Allen Mouse Brain Connectivity Atlas, Allen Mouse Brain Atlas, brain atlas, axonal projections
MeSH terms
Animals, Axons, Brain, Sensitivity and Specificity, Diffusion Magnetic Resonance Imaging, Mice, Diffusion Tensor Imaging, White Matter, Gray Matter

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