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Baxi M, Cetin-Karayumak S, Papadimitriou G, Makris N, van der Kouwe A, Jenkins B, Moore TL, Rosene DL, Kubicki M, Rathi Y. Investigating the contribution of cytoarchitecture to diffusion MRI measures in gray matter using histology. FRONTIERS IN NEUROIMAGING 2022; 1:947526. [PMID: 37555179 PMCID: PMC10406256 DOI: 10.3389/fnimg.2022.947526] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/18/2022] [Accepted: 07/19/2022] [Indexed: 08/10/2023]
Abstract
Postmortem studies are currently considered a gold standard for investigating brain structure at the cellular level. To investigate cellular changes in the context of human development, aging, or disease treatment, non-invasive in-vivo imaging methods such as diffusion MRI (dMRI) are needed. However, dMRI measures are only indirect measures and require validation in gray matter (GM) in the context of their sensitivity to the underlying cytoarchitecture, which has been lacking. Therefore, in this study we conducted direct comparisons between in-vivo dMRI measures and histology acquired from the same four rhesus monkeys. Average and heterogeneity of fractional anisotropy and trace from diffusion tensor imaging and mean squared displacement (MSD) and return-to-origin-probability from biexponential model were calculated in nine cytoarchitectonically different GM regions using dMRI data. DMRI measures were compared with corresponding histology measures of regional average and heterogeneity in cell area density. Results show that both average and heterogeneity in trace and MSD measures are sensitive to the underlying cytoarchitecture (cell area density) and capture different aspects of cell composition and organization. Trace and MSD thus would prove valuable as non-invasive imaging biomarkers in future studies investigating GM cytoarchitectural changes related to development and aging as well as abnormal cellular pathologies in clinical studies.
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Affiliation(s)
- Madhura Baxi
- Graduate Program for Neuroscience, Boston University, Boston, MA, United States
- Psychiatry Neuroimaging Laboratory, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, United States
| | - Suheyla Cetin-Karayumak
- Psychiatry Neuroimaging Laboratory, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, United States
| | - George Papadimitriou
- Center for Morphometric Analysis, Massachusetts General Hospital, Charlestown, MA, United States
| | - Nikos Makris
- Psychiatry Neuroimaging Laboratory, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, United States
| | - Andre van der Kouwe
- Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, United States
| | - Bruce Jenkins
- Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, United States
| | - Tara L. Moore
- Anatomy and Neurobiology, Boston University School of Medicine, Boston, MA, United States
- Center for Systems Neuroscience, Boston, MA, United States
| | - Douglas L. Rosene
- Anatomy and Neurobiology, Boston University School of Medicine, Boston, MA, United States
- Center for Systems Neuroscience, Boston, MA, United States
| | - Marek Kubicki
- Psychiatry Neuroimaging Laboratory, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, United States
- Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, United States
| | - Yogesh Rathi
- Psychiatry Neuroimaging Laboratory, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, United States
- Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, United States
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Honda Y, Shimokawa T, Matsuda S, Kobayashi Y, Moriya-Ito K. Hippocampal Connectivity of the Presubiculum in the Common Marmoset (Callithrix jacchus). Front Neural Circuits 2022; 16:863478. [PMID: 35860211 PMCID: PMC9289110 DOI: 10.3389/fncir.2022.863478] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2022] [Accepted: 05/26/2022] [Indexed: 11/23/2022] Open
Abstract
The marmoset (a New World monkey) has recently received much attention as an experimental animal model; however, little is known about the connectivity of limbic regions, including cortical and hippocampal memory circuits, in the marmoset. Here, we investigated the neuronal connectivity of the marmoset, especially focusing on the connectivity between the hippocampal formation and the presubiculum, using retrograde and anterograde tracers (cholera toxin-B subunit and biotin dextran amine). We demonstrated the presence of a direct projection from the CA1 pyramidal cell layer to the deep layers of the presubiculum in the marmoset, which was previously identified in the rabbit brain, but not in the rat. We also found that the cells of origin of the subiculo-presubicular projections were localized in the middle part along the superficial-to-deep axis of the pyramidal cell layer of the distal subiculum in the marmoset, which was similar to that in both rats and rabbits. Our results suggest that, compared to the rat and rabbit brains, connections between the hippocampal formation and presubiculum are highly organized and characteristic in the marmoset brain.
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Affiliation(s)
- Yoshiko Honda
- Department of Anatomy and Neurobiology, School of Medicine, Tokyo Women’s Medical University, Tokyo, Japan
- *Correspondence: Yoshiko Honda,
| | - Tetsuya Shimokawa
- Division of Anatomy and Embryology, Department of Functional Biomedicine, Ehime University, Toon, Japan
| | - Seiji Matsuda
- Division of Anatomy and Embryology, Department of Functional Biomedicine, Ehime University, Toon, Japan
| | - Yasushi Kobayashi
- Department of Anatomy, National Defense Medical College, Tokorozawa, Japan
| | - Keiko Moriya-Ito
- Department of Brain Development and Neural Regeneration, Tokyo Metropolitan Institute of Medical Science, Tokyo, Japan
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Application of Digital Image Based on Machine Learning in Media Art Design. COMPUTATIONAL INTELLIGENCE AND NEUROSCIENCE 2021; 2021:8546987. [PMID: 34853587 PMCID: PMC8629670 DOI: 10.1155/2021/8546987] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/16/2021] [Revised: 10/30/2021] [Accepted: 11/02/2021] [Indexed: 11/17/2022]
Abstract
In digital media art, expressive force is an important art form of media. This paper studies digital images that have the same effect when applied to media art. The research object is media art images, and the application effect of the proposed algorithm is related to the media art images. The development of digital image technology has brought revolutionary changes to traditional media art expression techniques. In this paper, a partial-pixel interpolation technique based on convolutional neural network is proposed. Supervised training of convolutional neural networks requires predetermining the input and target output of the network, namely, integer image and fractional image in this paper. To solve the problem that the subpixel sample cannot be obtained, this paper first analyzes the imaging principle of digital image and proposes a subpixel sample generation algorithm based on Gaussian low-pass filter and polyphase sampling. From the perspective of rate distortion optimization, the purpose of pixel motion compensation is to improve the accuracy of interframe prediction. Therefore, this paper defines pixel motion compensation as an interframe regression problem, that is, the mapping process of the reference image integral pixel sample to the current image sample to be encoded. In this paper, a generalized partial-pixel interpolation model is proposed for bidirectional prediction. The partial-pixel interpolation of bidirectional prediction is regarded as a binary regression model; that is, the integral pixel reference block in two directions is mapped to the current block to be coded. It further studies how to apply the trained digital images to media art design more flexibly and efficiently.
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Majka P, Bednarek S, Chan JM, Jermakow N, Liu C, Saworska G, Worthy KH, Silva AC, Wójcik DK, Rosa MGP. Histology-Based Average Template of the Marmoset Cortex With Probabilistic Localization of Cytoarchitectural Areas. Neuroimage 2020; 226:117625. [PMID: 33301940 DOI: 10.1016/j.neuroimage.2020.117625] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2020] [Revised: 11/19/2020] [Accepted: 12/01/2020] [Indexed: 12/25/2022] Open
Abstract
The rapid adoption of marmosets in neuroscience has created a demand for three dimensional (3D) atlases of the brain of this species to facilitate data integration in a common reference space. We report on a new open access template of the marmoset cortex (the Nencki-Monash, or NM template), representing a morphological average of 20 brains of young adult individuals, obtained by 3D reconstructions generated from Nissl-stained serial sections. The method used to generate the template takes into account morphological features of the individual brains, as well as the borders of clearly defined cytoarchitectural areas. This has resulted in a resource which allows direct estimates of the most likely coordinates of each cortical area, as well as quantification of the margins of error involved in assigning voxels to areas, and preserves quantitative information about the laminar structure of the cortex. We provide spatial transformations between the NM and other available marmoset brain templates, thus enabling integration with magnetic resonance imaging (MRI) and tracer-based connectivity data. The NM template combines some of the main advantages of histology-based atlases (e.g. information about the cytoarchitectural structure) with features more commonly associated with MRI-based templates (isotropic nature of the dataset, and probabilistic analyses). The underlying workflow may be found useful in the future development of 3D brain atlases that incorporate information about the variability of areas in species for which it may be impractical to ensure homogeneity of the sample in terms of age, sex and genetic background.
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Affiliation(s)
- Piotr Majka
- Laboratory of Neuroinformatics, Nencki Institute of Experimental Biology of the Polish Academy of Sciences, 02-093 Warsaw, Poland; Australian Research Council, Centre of Excellence for Integrative Brain Function, Monash University Node, Clayton, VIC 3800, Australia; Biomedicine Discovery Institute and Department of Physiology, Monash University, Clayton, VIC 3800, Australia.
| | - Sylwia Bednarek
- Laboratory of Neuroinformatics, Nencki Institute of Experimental Biology of the Polish Academy of Sciences, 02-093 Warsaw, Poland
| | - Jonathan M Chan
- Australian Research Council, Centre of Excellence for Integrative Brain Function, Monash University Node, Clayton, VIC 3800, Australia; Biomedicine Discovery Institute and Department of Physiology, Monash University, Clayton, VIC 3800, Australia
| | - Natalia Jermakow
- Laboratory of Neuroinformatics, Nencki Institute of Experimental Biology of the Polish Academy of Sciences, 02-093 Warsaw, Poland
| | - Cirong Liu
- Department of Neurobiology, University of Pittsburgh Brain Institute, Pittsburgh, PA, USA
| | - Gabriela Saworska
- Laboratory of Neuroinformatics, Nencki Institute of Experimental Biology of the Polish Academy of Sciences, 02-093 Warsaw, Poland
| | - Katrina H Worthy
- Biomedicine Discovery Institute and Department of Physiology, Monash University, Clayton, VIC 3800, Australia
| | - Afonso C Silva
- Department of Neurobiology, University of Pittsburgh Brain Institute, Pittsburgh, PA, USA
| | - Daniel K Wójcik
- Laboratory of Neuroinformatics, Nencki Institute of Experimental Biology of the Polish Academy of Sciences, 02-093 Warsaw, Poland; Institute of Applied Psychology, Faculty of Management and Social Communication, Jagiellonian University, 30-348 Cracow, Poland
| | - Marcello G P Rosa
- Australian Research Council, Centre of Excellence for Integrative Brain Function, Monash University Node, Clayton, VIC 3800, Australia; Biomedicine Discovery Institute and Department of Physiology, Monash University, Clayton, VIC 3800, Australia
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Pillay S, Bhagwandin A, Bertelsen MF, Patzke N, Engler G, Engel AK, Manger PR. The hippocampal formation of two carnivore species: The feliform banded mongoose and the caniform domestic ferret. J Comp Neurol 2020; 529:8-27. [PMID: 33016331 DOI: 10.1002/cne.25047] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2020] [Revised: 09/29/2020] [Accepted: 09/30/2020] [Indexed: 02/03/2023]
Abstract
Employing cyto-, myelo-, and chemoarchitectural staining techniques, we analyzed the structure of the hippocampal formation in the banded mongoose and domestic ferret, species belonging to the two carnivoran superfamilies, which have had independent evolutionary trajectories for the past 55 million years. Our observations indicate that, despite the time since sharing a last common ancestor, these species show extensive similarities. The four major portions of the hippocampal formation (cornu Ammonis, dentate gyrus, subicular complex, and entorhinal cortex) were readily observed, contained the same internal subdivisions, and maintained the topological relationships of these subdivisions that could be considered typically mammalian. In addition, adult hippocampal neurogenesis was observed in both species, occurring at a rate similar to that observed in other mammals. Despite the overall similarities, several differences to each other, and to other mammalian species, were observed. We could not find evidence for the presence of the CA2 and CA4 fields of the cornu Ammonis region. In the banded mongoose the dentate gyrus appears to be comprised of up to seven lamina, through the sublamination of the molecular and granule cell layers, which is not observed in the domestic ferret. In addition, numerous subtle variations in chemoarchitecture between the two species were observed. These differences may contribute to an overall variation in the functionality of the hippocampal formation between the species, and in comparison to other mammalian species. These similarities and variations are important to understanding to what extent phylogenetic affinities and constraints affect potential adaptive evolutionary plasticity of the hippocampal formation.
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Affiliation(s)
- Sashrika Pillay
- School of Anatomical Sciences, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa
| | - Adhil Bhagwandin
- School of Anatomical Sciences, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa
| | - Mads F Bertelsen
- Centre for Zoo and Wild Animal Health, Copenhagen Zoo, Frederiksberg, Denmark
| | - Nina Patzke
- School of Anatomical Sciences, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa
| | - Gerhard Engler
- Department of Neurophysiology and Pathophysiology, University Medical Center Hamburg-Eppendorf, Hamburg, Germany
| | - Andreas K Engel
- Department of Neurophysiology and Pathophysiology, University Medical Center Hamburg-Eppendorf, Hamburg, Germany
| | - Paul R Manger
- School of Anatomical Sciences, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa
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