High-resolution mapping and digital atlas of subcortical regions in the macaque monkey based on matched MAP-MRI and histology

Saleem, Kadharbatcha S.; Avram, Alexandru; Glen, Daniel; Yen, Cecil Chern-Chyi; Ye, Frank Q.; Komlosh, Michal E.; Basser, Peter J.

doi:10.1016/j.neuroimage.2021.118759

Cited by 38 publications

(63 citation statements)

References 137 publications

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“…The subcortical structures primarily consist of the limbic system (i.e., the hypothalamus, the amygdala, the thalamus, and the hippocampus), basal ganglia, and olfactory bulb [ 54 , 55 ], which play roles in chronic pain-induced depression, anxiety, perception, cognition, and memory [ 55 – 58 ]. Our investigation of the hippocampal formation (Fig.…”

Section: Resultsmentioning

confidence: 99%

Coexistence of chronic hyperalgesia and multilevel neuroinflammatory responses after experimental SCI: a systematic approach to profiling neuropathic pain

Wang

Gunduz

Semeano

et al. 2022

J Neuroinflammation

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Background People with spinal cord injury (SCI) frequently develop neuropathic pain (NP) that worsens disability and diminishes rehabilitation efficacy. Chronic NP is presently incurable due to poor understanding of underlying mechanisms. We hypothesized that multilocus neuroinflammation (NIF) might be a driver of SCI NP, and tested it by investigating whether NP coexisted with central NIF, neurotransmission (NTM), neuromodulation (NML) and neuroplasticity (NPL) changes post-SCI. Methods Female Sprague–Dawley rats (230–250 g) with T10 compression or laminectomy were evaluated for physical conditions, coordinated hindlimb functions, neurological reflexes, and mechanical/thermal sensitivity thresholds at 1 day post-injury (p.i.) and weekly thereafter. Eight weeks p.i., central nervous system tissues were histochemically and immunohistochemically characterized for parameters/markers of histopathology and NIF/NTM/NML/NPL. Also analyzed was the correlative relationship between levels of selected biomarkers and thermosensitivity thresholds via statistical linear regression. Results SCI impaired sensorimotor functions, altered reflexes, and produced spontaneous pain signs and hypersensitivity to evoked nociceptive, mechanical, and thermal inputs. Only injured spinal cords exhibited neural lesion, microglia/astrocyte activation, and abnormal expression of proinflammatory cytokines, as well as NIF/NTM/NML/NPL markers. Brains of SCI animals displayed similar pathophysiological signs in the gracile and parabrachial nuclei (GrN and PBN: sensory relay), raphe magnus nucleus and periaqueduct gray (RMN and PAG: pain modulation), basolateral amygdala (BLA: emotional-affective dimension of pain), and hippocampus (HPC: memory/mood/neurogenesis). SCI augmented sensory NTM/NPL (GrN and PBN); increased GAD67 (PAG) level; reduced serotonin (RMN) and fear-off neuronal NTR2 (BLA) expressions; and perturbed neurogenesis (HPC). Conclusion T10 compression caused chronic hyperalgesia that coexisted with NIF/NTM/NML/NPL responses at multilevel neuroaxis centers. The data have provided multidimensional biomarkers as new mechanistic leads to profile SCI NP for therapeutic/therapy development.

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Section: Resultsmentioning

confidence: 99%

Coexistence of chronic hyperalgesia and multilevel neuroinflammatory responses after experimental SCI: a systematic approach to profiling neuropathic pain

Wang

Gunduz

Semeano

et al. 2022

J Neuroinflammation

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“…The researcher obtain the PE area of macaques from D99 atlas v2.0 ( Saleem et al, 2021 ). The maximum probability map (MPM) in individual space is obtained by registration processing, and the PE brain region is extracted.…”

Section: Methodsmentioning

confidence: 99%

Corresponding anatomical of the macaque superior parietal lobule areas 5 (PE) subdivision reveal similar connectivity patterns with humans

Wang

et al. 2022

Front. Neurosci.

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Using the animal brain as a cross-species tool for human brain research based on imaging features can provide more potential to reveal comprehensive human brain analysis. Previous studies have shown that human Brodmann area 5 (BA5) and macaque PE are homologous regions. They are both involved in processes depth and direction information during the touch process in the arm movement. However, recent studies show that both BA5 and PE are not homogeneous. According to the cytoarchitecture, BA5 is subdivided into three different subregions, and PE can be subdivided into PEl, PEla, and PEm. The species homologous relationship among the subregions is not clear between BA5 and PE. At the same time, the subdivision of PE based on the anatomical connection of white matter fiber bundles needs more verification. This research subdivided the PE of macaques based on the anatomical connection of white matter fiber bundles. Two PE subregions are defined based on probabilistic fiber tracking, one on the anterior side and the other on the dorsal side. Finally, the research draws connectivity fingerprints with predefined homologous target areas for the BA5 and PE subregions to reveal the characteristics of structure and functions and gives the homologous correspondence identified.

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“…The output deformation maps from the subject mean ME-GRE magnitude aligned to the symmetric population-averaged T1w template were then used to create symmetric population-averaged QSM templates. The macaque brain population-averaged T1w template was nonlinearly registered to the D99 (Saleem et al, 2021;Saleem and Logothetis, 2012), the NMT v2 (Jung et al, 2021), and the INIA19 (Rohlfing et al, 2012) macaque atlases. were derived from the labels of the available macaque atlases (D99 and INIA19).…”

Section: Mri Data Analysesmentioning

confidence: 99%

“…However, given that T1w alone is insufficient, neuroimaging studies in humans explored the use of additional MRI contrasts such as T2, T2*, and QSM to generate contrast from subcortical deep gray matter nuclei (Alkemade et al, 2017;Bazin et al, 2020;Xiao et al, 2015). The available macaque atlases such as the D99 (Saleem et al, 2021;Saleem and Logothetis, 2012) and the NMT (Hartig et al, 2021;Jung et al, 2021) incorporate parcellations based on T1w only and cytoarchitectonic mapping derived from post-mortem histology. In the future, we believe that adding multi-contrast acquisitions might aid in the development of more precise atlas parcellations and clearer delineation of regional boundaries, although with the limitation of an increase in acquisition time.…”

Section: Applications Of Tq-silicon For Brain Segmentationmentioning

confidence: 99%

“…U-Net) (Wang et al, 2021), showing an improvement in brain segmentation over other methods implemented in the pre-processing pipelines of common analyses packages of FSL (Jenkinson et al, 2012), AFNI (Cox and Hyde, 1997) and Freesurfer (Fischl, 2012). Other approaches use no-contrast-based segmentation obtained from a nonlinear diffeomorphic averaging (Avants et al, 2011) of an NHP template that is used to nonlinearly warp individual NHP subjects along with their respective tissue types (Jung et al, 2021;Saleem et al, 2021;Saleem and Logothetis, 2012). This approach may, however, fail in case of significant deviations from the normal brain.…”

Section: Introductionmentioning

confidence: 99%

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Fusion of quantitative susceptibility maps and T1-weighted images improve brain tissue contrast in primates

Dadarwal

Ortiz-Rios

Boretius

2021

Preprint

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Recent progress in quantitative susceptibility mapping (QSM) has enabled the accurate delineation of submillimeter scale subcortical brain structures in humans. QSM reflects the magnetic susceptibility arising from the spatial distribution of iron, myelin, and calcium in the brain. The simultaneous visualization of cortical, subcortical, and white matter structure remains, however, challenging, utilizing QSM data solely. Here we present TQ-SILiCON, a fusion method that enhances the contrast of cortical and subcortical structures and provides an excellent white matter delineation by combining QSM and conventional T1-weighted (T1w) images. In this study, we first established QSM in the macaque monkey to map iron-rich subcortical structures. Implementing the same QSM acquisition and analyses methods allowed a similar accurate delineation of subcortical structures in humans. Moreover, applying automatic brain tissue segmentation to TQ-SILiCON images of the macaque improved the classification of the brain tissue types as compared to the single T1 contrast. Furthermore, we validate our dual-contrast fusion approach in humans and similarly demonstrate improvements in automated segmentation of cortical and subcortical structures. We believe the proposed contrast will facilitate translational studies in non-human primates to investigate the pathophysiology of neurodegenerative diseases that affect the subcortical structures of the basal ganglia in humans.

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High-resolution mapping and digital atlas of subcortical regions in the macaque monkey based on matched MAP-MRI and histology

Cited by 38 publications

References 137 publications

Coexistence of chronic hyperalgesia and multilevel neuroinflammatory responses after experimental SCI: a systematic approach to profiling neuropathic pain

Coexistence of chronic hyperalgesia and multilevel neuroinflammatory responses after experimental SCI: a systematic approach to profiling neuropathic pain

Corresponding anatomical of the macaque superior parietal lobule areas 5 (PE) subdivision reveal similar connectivity patterns with humans

Fusion of quantitative susceptibility maps and T1-weighted images improve brain tissue contrast in primates

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