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Relevance to Autism

Screening of ENU mutagenized mice for ASD-like behavioral phenotypes (deficits in ultrasonic vocalizations (USVs) and nest-building behavior) in El Hayek et al., 2020 identified Kdm5a as a candidate gene; to validate this discovery, the authors generated a Kdm5a knockout mouse model (Kdm5a-/-) and demonstrated Kdm5a-/- mice not only exhibited disrupted ultrasonic vocalizations but also displayed repetitive behaviors, sociability deficits, cognitive dysfunction, and abnormal dendritic morphogenesis. Screening of whole exome sequencing and microarray data from a clinical cohort in this report also identified individuals with de novo heterozygous variants and homozygous variants in the KDM5A gene presenting with a phenotype characterized by autism spectrum disorder, developmental delay, intellectual disability, and delayed/absent speech development.

Molecular Function

This gene encodes a member of the Jumonji, AT-rich interactive domain 1 (JARID1) histone demethylase protein family. The encoded protein plays a role in gene regulation through the histone code by specifically demethylating lysine 4 of histone H3. The encoded protein interacts with many other proteins, including retinoblastoma protein, and is implicated in the transcriptional regulation of Hox genes and cytokines.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
KDM5A mutations identified in autism spectrum disorder using forward genetics
ASD
DD, ID, epilepsy/seizures
Support
ASD
Support
Impaired Neurodevelopmental Genes in Slovenian Autistic Children Elucidate the Comorbidity of Autism With Other Developmental Disorders
ASD
DD
Support
High prevalence of multilocus pathogenic variation in neurodevelopmental disorders in the Turkish population
DD, epilepsy/seizures

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN1232R001 
 initiator_codon_variant 
 c.1A>T 
 p.Met1? 
 De novo 
  
 Simplex 
 GEN1232R002a 
 copy_number_loss 
  
  
 Familial 
 Both parents 
 Multiplex 
 GEN1232R003 
 missense_variant 
 c.4283G>T 
 p.Arg1428Leu 
 De novo 
  
 Simplex 
 GEN1232R004a 
 splice_site_variant 
 c.2541+1G>T 
  
 Familial 
 Both parents 
 Multiplex 
 GEN1232R005a 
 missense_variant 
 c.1429T>G 
 p.Phe477Val 
 Familial 
 Both parents 
 Simplex 
 GEN1232R006 
 stop_gained 
 c.4048C>T 
 p.Arg1350Ter 
 De novo 
  
 Simplex 
 GEN1232R007a 
 copy_number_loss 
  
  
 Familial 
 Both parents 
 Simplex 
 GEN1232R008a 
 missense_variant 
 c.2525A>C 
 p.Gln842Pro 
 Familial 
 Both parents 
 Simplex 
 GEN1232R009 
 missense_variant 
 c.953A>G 
 p.Tyr318Cys 
 Unknown 
  
  
 GEN1232R010 
 missense_variant 
 c.2510C>T 
 p.Pro837Leu 
 Familial 
  
 Multiplex 

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
12
Deletion-Duplication
 36
 
12
Duplication
 5
 
12
Deletion
 1
 
12
Duplication
 2
 
12
Duplication
 1
 
12
Duplication
 3
 
12
Deletion
 9
 
12
Duplication
 1
 

Model Summary

Kdm5a knockout mice show decrease in vocalization, decreased nest building ability, repetitive behaviors, sociability deficits, cognitive dysfunction, abnormal dendritic morphogenesis, and abnormal hippocampal transcriptome.

References

Type
Title
Author, Year
Primary
KDM5A mutations identified in autism spectrum disorder using forward genetics

M_KDM5A_1_KO_HM

Model Type: Genetic LOF
Model Genotype: Homozygous
Mutation: Kdm5a constitutive knockout mouse generated using crispr/cas9 to insert a single base pair (g-c) in exon 13, which results in a frameshift mutation in codon 581 to terminate translation after the inclusion of 8 aberrant amino acids.
Allele Type: Knockout
Strain of Origin: C57BL/6J
Genetic Background: C57BL/6J
ES Cell Line: NA
Mutant ES Cell Line: NA
Model Source: 33350388

M_KDM5A_1_KO_HM

Category
Entity
Quantity
Experimental Paradigm
Age at Testing
General locomotor activity: Ambulatory activity1
Increased
Description: Increase in total distance travelled
 Open field test
 5-9 weeks
Dendritic architecture: spine density1
Decreased
Description: Decreased spine density
 Golgi-Cox staining
 14-16 weeks
Dendritic architecture: dendritic tree complexity1
Decreased
Description: Decreased dendritic interactions
 Golgi-Cox staining
 14-16 weeks
Dendritic architecture: dendritic length1
Decreased
Description: Decreased dendritic length
 Golgi-Cox staining
 14-16 weeks
Stereotypy1
Increased
Description: Increase in forepaw wringing and clasping upon being suspended
 Tail suspension test
 4 weeks
Self grooming1
Increased
Description: Increase in self grooming
 Grooming behavior assessments
 5-9 weeks
Social interaction1
Decreased
Description: Decreased interaction duration
 Reciprocal social interaction test
 5-9 weeks
Nest building behavior1
Decreased
Description: Decreased nest quality score
 Nest building assay
 4 weeks
Ultrasonic vocalization: Isolation induced1
Decreased
Description: Reduced peak frequency of emitted usvs and decrease in number of usvs
 Monitoring ultrasonic vocalizations
 P4
Anxiety1
Increased
Description: Decreased time in center
 Open field test
 5-9 weeks
Spatial working memory1
Decreased
Description: No decrease in latency to locate the hidden platform over a period of 4 days
 Morris water maze test
 5-9 weeks
Spatial reference memory1
Decreased
Description: No preference for the quadrant where the platform was during the probe test
 Morris water maze test
 5-9 weeks
Targeted expression1
Decreased
Description: Lack of kdm5a protein in cortical tissues
 Western blot
 Adult
Differential gene expression1
Abnormal
Description: Dysregulation of 450 genes, dysregulation of essential neurodevelopmental genes (gse147435)
 RNA sequencing
 Adult
Differential gene expression1
Abnormal
Description: Dysregulation of efcab6, ptgds, shh, ccnd1 (gse147435)
 Quantitative PCR (qRT-PCR)
 Adult
Size/growth1
 No change
 Body length measurement
 Adult
Size/growth1
 No change
 Body weight measurement
 Adult
Brain size1
 No change
 Measurement of tissue weight
 Adult
Reproductive function1
 No change
 Genotypic ratio of progeny from heterozygous parents
 P0
 Not Reported:

 

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