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Pathophysiology Nodes

8
8 shared nodes are defined in this module.
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Cell Types

3
cortical radial glial cell CL:0013000 Cell Ontology (CL) Relation: this mechanism module involves this cell type This mechanism module involves cortical radial glial cell (CL:0013000). CL:0013000 is a cell type from the Cell Ontology. Cajal-Retzius cell CL:0000695 Cell Ontology (CL) Relation: this mechanism module involves this cell type This mechanism module involves Cajal-Retzius cell (CL:0000695). CL:0000695 is a cell type from the Cell Ontology. cerebral cortex neuron CL:0010012 Cell Ontology (CL) Relation: this mechanism module involves this cell type This mechanism module involves cerebral cortex neuron (CL:0010012). CL:0010012 is a cell type from the Cell Ontology.
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Biological Processes

10
protein O-linked glycosylation via mannose GO:0035269 ↓ DECREASED Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves decreased protein O-linked glycosylation via mannose (GO:0035269). GO:0035269 is a biological process from the Gene Ontology. extracellular matrix organization GO:0030198 ↕ DYSREGULATED Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves dysregulated extracellular matrix organization (GO:0030198). GO:0030198 is a biological process from the Gene Ontology. cell adhesion GO:0007155 ↓ DECREASED Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves decreased cell adhesion (GO:0007155). GO:0007155 is a biological process from the Gene Ontology. collagen fibril organization GO:0030199 ↕ DYSREGULATED Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves dysregulated collagen fibril organization (GO:0030199). GO:0030199 is a biological process from the Gene Ontology. basement membrane assembly GO:0070831 ↓ DECREASED Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves decreased basement membrane assembly (GO:0070831). GO:0070831 is a biological process from the Gene Ontology. basement membrane organization GO:0071711 ↕ DYSREGULATED Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves dysregulated basement membrane organization (GO:0071711). GO:0071711 is a biological process from the Gene Ontology. formation of radial glial scaffolds GO:0021943 ↓ DECREASED Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves decreased formation of radial glial scaffolds (GO:0021943). GO:0021943 is a biological process from the Gene Ontology. Cajal-Retzius cell differentiation GO:0021870 ⚠ ABNORMAL Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves abnormal Cajal-Retzius cell differentiation (GO:0021870). GO:0021870 is a biological process from the Gene Ontology. neuron migration GO:0001764 ↑ INCREASED Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves increased neuron migration (GO:0001764). GO:0001764 is a biological process from the Gene Ontology. cerebral cortex radial glia-guided migration GO:0021801 ↕ DYSREGULATED Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves dysregulated cerebral cortex radial glia-guided migration (GO:0021801). GO:0021801 is a biological process from the Gene Ontology.
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Notes

This is a mechanism module, not a specific disease entry. Disorder entries reference individual nodes via conforms_to (for example, "pial_basement_membrane_radial_glial_endfoot_failure#Pial Basement Membrane Breach"). Use this module for cobblestone-like or bilateral frontoparietal polymicrogyria mechanisms when the shared pathograph is pial basement membrane/radial-glial basal endfoot failure followed by neuronal overmigration. Do not use it for primary microtubule-dependent neuronal migration arrest, apical neuroependyma/periventricular heterotopia, Reelin terminal translocation defects, or broad PI3K-AKT-mTOR cortical overgrowth unless a disease-specific branch independently shows this pial-boundary skeleton.
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Mechanistic Hypotheses

1
Pial Boundary-Failure Overmigration Model
pial_boundary_overmigration_model CANONICAL Evidence: 2
Evidence balance 2 support
Pathogenic disruption of the pial ECM interface, especially through alpha-dystroglycan O-mannosylation or GPR56-COL3A1 signaling, weakens basement membrane integrity and radial-glial basal endfoot anchoring. The causal readout is not primarily slow or failed neuronal locomotion; it is loss of the cortical pial boundary that allows overmigration and ectopic extracortical/cobblestone-like tissue.
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Discussions and Knowledge Gaps

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Which aspects of pial basement membrane and radial-glial basal endfoot failure in mouse or other models faithfully map to human cobblestone-like cortical malformations, PMG overlap, epilepsy risk, and regional gyral patterning?
HUMAN MODEL MISMATCH OPEN gap_pial_boundary_human_model_translatability
Attached to: Pial Basement Membrane Breach Radial-Glial Basal Endfoot Detachment Neuronal Overmigration Across the Pial Boundary
The review and primary papers support a coherent boundary-failure mechanism, but several translatability gaps remain: FKRP mouse knock-in versus knock-down severity differs from patients, human GPR56 regulation is shaped by gyrencephalic/regional enhancers, PMG mechanisms remain incompletely resolved, and seizures are common in human MCDs while often absent from animal models. This is a human/model mismatch knowledge gap rather than a generic missing-mechanism gap.
Proposed experiments: Human cortical organoid pial-ECM and radial-glial endfoot perturbation panel
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Used By Disorder Entries

6
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Pathograph

Use the checkboxes to hide or show graph categories. Hover nodes for evidence-backed metadata.
Pathograph: causal mechanism network for Pial Basement Membrane and Radial-Glial Endfoot Failure Module Interactive directed graph showing how this shared module's pathophysiology nodes connect.
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Pathophysiology

8
Alpha-Dystroglycan Glycosylation and ECM Ligand Binding Failure
trigger
Pathogenic variants in DAG1 or in dystroglycan O-mannosylation pathway genes reduce functional alpha-dystroglycan glycosylation and impair binding to extracellular matrix ligands such as laminin. Representative upstream genes include POMT1, POMT2, POMGNT1, FKTN, FKRP, LARGE1, CRPPA (the current symbol for ISPD), POMK, B4GAT1, and B3GALNT2.
protein O-linked glycosylation via mannose GO:0035269 ↓ DECREASED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves decreased protein O-linked glycosylation via mannose (GO:0035269). GO:0035269 is a biological process from the Gene Ontology. extracellular matrix organization GO:0030198 ↕ DYSREGULATED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves dysregulated extracellular matrix organization (GO:0030198). GO:0030198 is a biological process from the Gene Ontology.
Show evidence (2 references)
PMID:12140558 SUPPORT Human Clinical
"Here we show, in both MEB and FCMD patients, that alpha-dystroglycan is expressed at the muscle membrane, but similar hypoglycosylation in the diseases directly abolishes binding activity of dystroglycan for the ligands laminin, neurexin and agrin."
Human disease tissue evidence supports alpha-dystroglycan hypoglycosylation as a biochemical lesion that abolishes ECM-ligand binding.
PMID:12369018 SUPPORT Human Clinical
"Immunohistochemical analysis of muscle from patients with POMT1 mutations corroborated the O-mannosylation defect, as judged by the absence of glycosylation of alpha-dystroglycan."
Links a dystroglycan O-mannosylation gene to loss of alpha-dystroglycan glycosylation in a human Walker-Warburg syndrome context.
GPR56-COL3A1 Pial ECM Signaling Failure
trigger
Pathogenic ADGRG1/GPR56 or COL3A1 variants impair a pial ECM receptor-ligand axis required for regional cortical development, pial basement membrane integrity, and inhibition of inappropriate neuronal migration beyond the pial surface.
cortical radial glial cell CL:0013000 Cell Ontology (CL) Relation: this pathophysiological event involves this cell type This pathophysiological event involves cortical radial glial cell, annotated with forebrain radial glial cell (CL:0013000). CL:0013000 is a cell type from the Cell Ontology.
cell adhesion GO:0007155 ↓ DECREASED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves decreased cell adhesion (GO:0007155). GO:0007155 is a biological process from the Gene Ontology. collagen fibril organization GO:0030199 ↕ DYSREGULATED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves dysregulated collagen fibril organization (GO:0030199). GO:0030199 is a biological process from the Gene Ontology.
Show evidence (3 references)
PMID:21768377 SUPPORT In Vitro
"Here we identify collagen, type III, alpha-1 (gene symbol Col3a1) as the ligand of GPR56 through an in vitro biotinylation/proteomics approach."
Identifies collagen III/COL3A1 as the ligand for GPR56, grounding this receptor-ligand branch.
PMID:21768377 SUPPORT In Vitro
"Functional studies suggest that the interaction of collagen III with its receptor GPR56 inhibits neural migration in vitro."
Supports the functional interpretation that the GPR56-COL3A1 interaction constrains migration at the pial boundary.
PMID:28258187 SUPPORT Human Clinical
"Type III procollagen, the chains of which are encoded by COL3A1, is the ligand of the G protein-coupled receptor 56 (GPR56), also known as adhesion G protein-coupled receptor G1."
Human-genetics paper independently anchors COL3A1 as the GPR56 ligand in the clinical malformation context.
Pial Basement Membrane Assembly Failure
central effector
Reduced dystroglycan-laminin binding weakens assembly and maintenance of basement membrane components at the pial surface. This node captures the ECM-assembly branch that feeds into pial basal lamina discontinuity.
basement membrane assembly GO:0070831 ↓ DECREASED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves decreased basement membrane assembly (GO:0070831). GO:0070831 is a biological process from the Gene Ontology. basement membrane organization GO:0071711 ↕ DYSREGULATED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves dysregulated basement membrane organization (GO:0071711). GO:0071711 is a biological process from the Gene Ontology.
Show evidence (2 references)
PMID:9865703 SUPPORT In Vitro
"We find that dystroglycan is required for the formation of a basement membrane in embryoid bodies."
Establishes dystroglycan as required for basement membrane formation in a controlled cell-derived model system.
PMID:9865703 SUPPORT In Vitro
"Our results further indicate that dystroglycanlaminin interactions are prerequisite for the deposition of other basement membrane proteins."
Supports the specific ligand-binding-to-basement-membrane assembly link used in the dystroglycan branch.
Pial Basement Membrane Breach
central effector
Failure of basement membrane assembly or GPR56-COL3A1 signaling produces discontinuities and breaches in the pial basal lamina/glia limitans. This is the central boundary defect that permits downstream overmigration.
basement membrane organization GO:0071711 ↕ DYSREGULATED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves dysregulated basement membrane organization (GO:0071711). GO:0071711 is a biological process from the Gene Ontology.
Show evidence (2 references)
PMID:12140559 SUPPORT Model Organism
"Dystroglycan-null brain loses its high-affinity binding to the extracellular matrix protein laminin, and shows discontinuities in the pial surface basal lamina (glia limitans) that probably underlie the neuronal migration errors."
Directly links dystroglycan loss to pial basal lamina discontinuities and downstream neuronal positioning errors.
PMID:18509043 SUPPORT Model Organism
"By detailed time course analysis, we reveal that the leading causal events are likely the breaches in the pial BM."
Places pial basement membrane breach early in the causal order.
Radial-Glial Basal Endfoot Detachment
effector
Pial basement membrane disruption destabilizes radial glial basal endfeet, compromising the glia limitans and the radial scaffold that normally constrains cortical organization and neuronal movement.
cortical radial glial cell CL:0013000 Cell Ontology (CL) Relation: this pathophysiological event involves this cell type This pathophysiological event involves cortical radial glial cell, annotated with forebrain radial glial cell (CL:0013000). CL:0013000 is a cell type from the Cell Ontology.
formation of radial glial scaffolds GO:0021943 ↓ DECREASED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves decreased formation of radial glial scaffolds (GO:0021943). GO:0021943 is a biological process from the Gene Ontology.
Show evidence (2 references)
PMID:18509043 SUPPORT Model Organism
"We show further that GPR56 is present in abundance in radial glial endfeet."
Localizes GPR56 to radial glial endfeet, supporting the endfoot-specific branch.
PMID:18509043 SUPPORT Model Organism
"These observations provide compelling evidence that GPR56 functions in regulating pial BM integrity during cortical development."
Supports the causal connection between GPR56, pial basement membrane integrity, and cortical development.
Cajal-Retzius Cell Mislocalization
amplifier
Boundary failure disrupts marginal-zone organization and mislocalizes Cajal-Retzius cells, which can amplify cortical disorganization and severity across dystroglycanopathy models.
Cajal-Retzius cell CL:0000695 Cell Ontology (CL) Relation: this pathophysiological event involves this cell type This pathophysiological event involves Cajal-Retzius cell (CL:0000695). CL:0000695 is a cell type from the Cell Ontology.
Cajal-Retzius cell differentiation GO:0021870 ⚠ ABNORMAL Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves abnormal Cajal-Retzius cell differentiation (GO:0021870). GO:0021870 is a biological process from the Gene Ontology.
Show evidence (1 reference)
PMID:26306834 SUPPORT Model Organism
"Furthermore, the mislocalization of Cajal-Retzius cells is correlated with the gradient of these lesions and the severity of the brain phenotype in these models."
Supports Cajal-Retzius mislocalization as a severity-linked amplifier in dystroglycanopathy pial-boundary lesions.
Neuronal Overmigration Across the Pial Boundary
effector
With the pial boundary breached and radial-glial endfeet detached, neurons can migrate beyond the cortical surface rather than stopping within the cortical plate/marginal zone. This overmigration is the key mechanistic output that distinguishes this module from intrinsic neuronal migration arrest modules.
cerebral cortex neuron CL:0010012 Cell Ontology (CL) Relation: this pathophysiological event involves this cell type This pathophysiological event involves cerebral cortex neuron (CL:0010012). CL:0010012 is a cell type from the Cell Ontology.
neuron migration GO:0001764 ↑ INCREASED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves increased neuron migration (GO:0001764). GO:0001764 is a biological process from the Gene Ontology. cerebral cortex radial glia-guided migration GO:0021801 ↕ DYSREGULATED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves dysregulated cerebral cortex radial glia-guided migration (GO:0021801). GO:0021801 is a biological process from the Gene Ontology.
Show evidence (2 references)
PMID:21768377 SUPPORT Human Clinical
"Mutations in the GPR56 gene cause a malformed cerebral cortex in both humans and mice that resembles cobblestone lissencephaly, which is characterized by overmigration of neurons beyond the pial basement membrane."
Directly states the overmigration phenotype and links it to the GPR56-associated cortical malformation.
PMID:20929962 SUPPORT Human Clinical
"The foetal case, which was terminated at 35 weeks of gestation in view of suspicion of Walker Warburg syndrome, showed a cobblestone-like lissencephaly with a succession of normal, polymicrogyric and 'cobblestone-like' cortex with ectopic neuronal overmigration, agenesis of the cerebellar vermis..."
Human fetopathology supports ectopic neuronal overmigration and the overlap between polymicrogyric and cobblestone-like cortex.
Cobblestone-Like Cortical Malformation and PMG Overlap
consequence
The downstream tissue pattern is cobblestone-like malformation with possible overlap with bilateral frontoparietal polymicrogyria, white matter changes, cerebellar dysplasia, and other cortical organization abnormalities. The endpoint should be curated in disease entries according to their specific phenotype, but the shared module endpoint is pial-boundary overmigration.
Show evidence (3 references)
PMID:20929962 SUPPORT Human Clinical
"Taken as a whole, these observations collectively demonstrate that GPR56 bilateral bifrontoparietal polymicrogyria combines all the features of a cobblestone-like lissencephaly and also suggest that GRP56-related defects produce a phenotypic continuum ranging from bilateral bifrontoparietal..."
Supports the modeled clinical overlap between GPR56-related BFPP and the cobblestone-like malformation spectrum. The source uses the historical GPR56 name.
PMID:28258187 SUPPORT Human Clinical
"Homozygous or compound heterozygous mutations in COL3A1 are associated with cobblestone-like malformation in all three families reported to date."
Extends the endpoint to the COL3A1 ligand side of the same GPR56-COL3A1 pial-boundary axis.
PMID:28258187 SUPPORT Human Clinical
"The presence of cobblestone-like malformation in patients with bi-allelic COL3A1 mutations emphasises the critical role of the type III collagen-GPR56 axis and the pial membrane in the regulation of brain development and cortical lamination."
Ties the human endpoint back to the type III collagen-GPR56/pial membrane mechanism represented by this module.