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Relevance to Autism

Mah-som et al., 2023 identified 13 unrelated individuals harboring heterozygous variants in the VCP gene associated with a childhood-onset order characterized by developmental delay, intellectual disability, hypotonia, and macrocephaly; three of the individuals in this study were formally diagnosed with autism (one of whom was enrolled in the SPARK study), while several additional individuals presented with autistic features and/or motor stereotypy. Furthermore, all disease-associated VCP missense and in-frame deletion variants reported in Mah-som et al., 2023 were experimentally shown to cause either a statistically significant increase or decrease in ATPase function compared to wild-type VCP, consistent with a gain-of-function or loss-of-function effect, respectively. A de novo loss-of-function variant and additional de novo missense variants in the VCP gene had previously been reported in ASD probands from the Simons Simplex Collection, the SPARK cohort, and the Autism Simplex Collection (O'Roak et al., 2014; Trost et al., 2022). Huang et al., 2020 observed that knock-in mice with a p.Arg95Gly mutation, which was originally identiifed in patients with IBMPFD and had been found to reduce the protein synthesis efficiency of neurons, displayed social deficits and reduced vocal communications.

Molecular Function

This gene encodes a member of the AAA ATPase family of proteins. The encoded protein plays a role in protein degradation, intracellular membrane fusion, DNA repair and replication, regulation of the cell cycle, and activation of the NF-kappa B pathway. This protein forms a homohexameric complex that interacts with a variety of cofactors and extracts ubiquitinated proteins from lipid membranes or protein complexes. Mutations in this gene cause IBMPFD (inclusion body myopathy with paget disease of bone and frontotemporal dementia), ALS (amyotrophic lateral sclerosis) and Charcot-Marie-Tooth disease in human patients.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
DD, ID
ASD or autistic features, ADHD, epilepsy/seizures,
Support
Recurrent de novo mutations implicate novel genes underlying simplex autism risk.
ASD
Support
Genomic architecture of autism from comprehensive whole-genome sequence annotation
ASD
Support
ASD

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN1418R001 
 frameshift_variant 
 c.265del 
 p.Arg89GlyfsTer8 
 De novo 
  
  
  et al.  
 GEN1418R002 
 missense_variant 
 c.685C>T 
 p.Leu229Phe 
 De novo 
  
 Multiplex 
  et al.  
 GEN1418R003 
 splice_site_variant 
 c.709-2A>G 
  
 De novo 
  
  
  et al.  
 GEN1418R004 
 missense_variant 
 c.753G>T 
 p.Lys251Asn 
 De novo 
  
 Simplex 
  et al.  
 GEN1418R005 
 missense_variant 
 c.766C>G 
 p.Arg256Gly 
 De novo 
  
  
  et al.  
 GEN1418R006 
 inframe_deletion 
 c.801_803del 
 p.Phe267del 
 De novo 
  
 Simplex 
  et al.  
 GEN1418R007 
 missense_variant 
 c.812G>A 
 p.Gly271Asp 
 De novo 
  
 Simplex 
  et al.  
 GEN1418R008 
 inframe_deletion 
 c.901_903del 
 p.Ile301del 
 De novo 
  
 Simplex 
  et al.  
 GEN1418R009 
 missense_variant 
 c.1084C>T 
 p.Arg362Cys 
 De novo 
  
  
  et al.  
 GEN1418R010 
 missense_variant 
 c.1622C>A 
 p.Ser541Tyr 
 De novo 
  
 Simplex 
  et al.  
 GEN1418R011 
 missense_variant 
 c.1874G>C 
 p.Arg625Pro 
 De novo 
  
  
  et al.  
 GEN1418R012 
 missense_variant 
 c.2257C>T 
 p.Arg753Trp 
 Familial 
 Paternal 
  
  et al.  
 GEN1418R013 
 missense_variant 
 c.892C>T 
 p.Pro298Ser 
 De novo 
  
 Simplex 
  et al.  
 GEN1418R014 
 frameshift_variant 
 c.1545_1549del 
 p.Phe516TrpfsTer16 
 De novo 
  
 Simplex 
 GEN1418R015 
 missense_variant 
 c.1153A>C 
 p.Thr385Pro 
 De novo 
  
 Simplex 
 GEN1418R016 
 missense_variant 
 c.250A>G 
 p.Met84Val 
 De novo 
  
  

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
9
Deletion-Duplication
 12
 
9
Deletion
 2
 
9
Duplication
 1
 
9
Duplication
 2
 
9
N/A
 1
 
9
Duplication
 7
 
9
Duplication
 3
 
9
Duplication
 1
 

Model Summary

The Vcp gene encodes for Valosin-containing protein, and it is associated with multiple neurological disorders. The R95G knockin model exhibits autism-like behaviors, including social deficits and motor phenotypes. The phenotypes resulting from the same mutation are modulated by the protein levels in the diet. Supplementing the diet with leucine improves some of the behavioral phenotypes.

References

Type
Title
Author, Year
Primary

M_VCP_1_KI_HM

Model Type: Genetic
Model Genotype: Homozygous
Mutation: A recombineering-based method was used to generate knockin mutant mice. A genomic fragment covering from intron 1 to intron 4 of the Vcp gene was subcloned from bacterial artificial chromosome clone RP23-343E15 into a modified pBluescript vector. The R95G point mutation at the third exon and an EcoRV site in the third intron were generated by direct mutagenesis. The targeting vector was electroporated into C57BL/6 embryonic stem cells for production of chimeric mice. Animals accessed water ad libitum and food comprised of chow 5K54, which contains 19% protein.
Allele Type: Knockin
Strain of Origin: C57BL/6
Genetic Background:
ES Cell Line:
Mutant ES Cell Line:
Model Source:

M_VCP_2_KI_HM

Model Type: Genetic
Model Genotype: Homozygous
Mutation: A recombineering-based method was used to generate knockin mutant mice. A genomic fragment covering from intron 1 to intron 4 of the Vcp gene was subcloned from bacterial artificial chromosome clone RP23-343E15 into a modified pBluescript vector. The R95G point mutation at the third exon and an EcoRV site in the third intron were generated by direct mutagenesis. The targeting vector was electroporated into C57BL/6 embryonic stem cells for production of chimeric mice. Animals accessed water ad libitum and food comprised of chow 5010, which contains 24.6% protein.
Allele Type: Knockin
Strain of Origin: C57BL/6
Genetic Background:
ES Cell Line:
Mutant ES Cell Line:
Model Source:

M_VCP_1_KI_HM

Category
Entity
Quantity
Experimental Paradigm
Age at Testing
Grip strength1
Decreased
Description: Vcp mutant mice fed 19% protein chow exhibited decreased muscle strength at 18 months compared to wildtype controls.
Exp Paradigm: Force gauge
 Grip strength test
 18 months
Dendritic architecture: spine density1
Decreased
Description: Vcp mutant mice fed 19% protein chow exhibited a significant decrease in dendritic spine density compared to wildtype controls.
 Fluorescence microscopy
 9 weeks
Social approach1
Decreased
Description: Vcp mutant mice fed 19% protein chow spent significantly less time interacting with stranger 1, as demonstrated by the preference index, compared to wildtype controls.
Exp Paradigm: stranger mouse in chamber 1 (s1), object in chamber 2
 Three-chamber social approach test
 9-10 weeks
Social interaction1
Decreased
Description: Vcp mutant mice fed 19% protein chow spent less time interacting with stranger mice compared to wildtype controls.
 Reciprocal social interaction test
 10 weeks
Ultrasonic vocalization1
Decreased
Description: Vcp mutant mice fed 19% protein chow exhibited reduced ultrasonic vocalization production compared to wildtype mice, though only the results at P8 were statistically significant.
 Monitoring ultrasonic vocalizations
 P4, P6, P8, P10
Size/growth1
Decreased
Description: Vcp mutant mice fed 19% protein chow exhibited decreased body weight at 18 months compared to wildtype controls.
 Body weight measurement
 18 months
Size/growth1
 No change
 Body weight measurement
 12 months
Size/growth1
 No change
 Body weight measurement
 12 weeks
Size/growth1
 No change
 Body weight measurement
 9 weeks
Skeletal development1
 No change
 Skeletal X-rays
 24 weeks
Anxiety1
 No change
 Open field test
 8 weeks
Anxiety1
 No change
 Elevated plus maze test
 8 weeks
Anxiety1
 No change
 Light-dark exploration test
 8 weeks
Spatial working memory1
 No change
 Y-maze test
 8 weeks
General locomotor activity1
 No change
 Open field test
 8 weeks
Grip strength1
 No change
 Grip strength test
 12 months
Grip strength1
 No change
 Grip strength test
 12 weeks
Grip strength1
 No change
 Grip strength test
 9 weeks
Motor coordination and balance1
 No change
 Accelerating rotarod test
 10-12 weeks
Rearing behavior1
 No change
 Open field test
 8 weeks
Brain morphology1
 No change
 General observations
 24 months
Self grooming1
 No change
 Open field test
 8 weeks
Social memory1
 No change
 Three-chamber social approach test
 9-10 weeks
 Not Reported:

M_VCP_2_KI_HM

Category
Entity
Quantity
Experimental Paradigm
Age at Testing
Social memory: long-term social memory1
Decreased
Description: Vcp mutant mice fed 24.6% protein chow exhibited a significant decrease in the amount of time spent interacting with a stranger mouse over a familiar mouse, as demonstrated by a decrease in the preference index, compared to wildtype controls.
Exp Paradigm: stranger mouse in chamber 1 (s3), familiar mouse in chamber 2 (s1), 24 hours after phase 2 of testing
 Three-chamber social approach test
 10 weeks
Cued or contextual fear conditioning1
Decreased
Description: Vcp mutant mice fed 24.6% protein chow exhibited a significant decrease in freezing responses on day 6, with approximately 20% of time spent freezing compared to over 40% in wildtype controls.
Exp Paradigm: single foot shock applied daily on training days 1â??5; contextual memory in the absence of foot shock measured on day 6
 Fear conditioning test
 12 weeks
Size/growth1
 No change
 Body weight measurement
 12 months
Size/growth1
 No change
 Body weight measurement
 18 months
Size/growth1
 No change
 Body weight measurement
 12 weeks
Size/growth1
 No change
 Body weight measurement
 9 weeks
Skeletal development1
 No change
 Skeletal X-rays
 24 weeks
Anxiety1
 No change
 Open field test
 12 weeks
Anxiety1
 No change
 Light-dark exploration test
 12 weeks
Spatial working memory1
 No change
 Y-maze test
 12 weeks
General locomotor activity1
 No change
 Open field test
 12 weeks
Grip strength1
 No change
 Grip strength test
 12 months
Grip strength1
 No change
 Grip strength test
 18 months
Rearing behavior1
 No change
 Open field test
 12 weeks
Brain morphology1
 No change
 General observations
 24 weeks
Brain morphology1
 No change
 Histology
 6 months
Self grooming1
 No change
 Open field test
 12 weeks
Social approach1
 No change
 Three-chamber social approach test
 10 weeks
Social interaction1
 No change
 Reciprocal social interaction test
 9 weeks
Social memory1
 No change
 Three-chamber social approach test
 10 weeks
 Not Reported:

 

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