Summary Statistics:
ASD Reports: 36
Recent Reports: 5
Annotated variants: 113
Associated CNVs: 12
Evidence score: 4
Gene Score: 3
Relevance to Autism
Maternally-inherited variants affecting the NEXMIF gene have been identified in male probands presenting with intellectual disability and autistic features (Cantagrel et al., 2004; Van Maldergem et al., 2013).
Molecular Function
Involved in neurite outgrowth by regulating cell-cell adhesion via the N-cadherin signaling pathway. May act by regulating expression of protein-coding genes, such as N-cadherins and integrin beta-1 (ITGB1).
References
Primary
Disruption of a new X linked gene highly expressed in brain in a family with two mentally retarded males.
ID
Support
NEXMIF/KIDLIA Knock-out Mouse Demonstrates Autism-Like Behaviors, Memory Deficits, and Impairments in Synapse Formation and Function.
ASD
Support
The contribution of de novo coding mutations to autism spectrum disorder
ASD
Support
Autism spectrum disorder and comorbid neurodevelopmental disorders (ASD-NDDs): Clinical and genetic profile of a pediatric cohort
ASD
DD, ID
Support
De novo loss of function mutations in KIAA2022 are associated with epilepsy and neurodevelopmental delay in females.
DD, ID, epilepsy/seizures
Support
Breakpoint mapping at nucleotide resolution in X-autosome balanced translocations associated with clinical phenotypes.
DD, ID
Microcephaly, short stature
Support
Rare complete knockouts in humans: population distribution and significant role in autism spectrum disorders.
ASD
Support
A single center experience with publicly funded clinical exome sequencing for neurodevelopmental disorders or multiple congenital anomalies
DD, ID, epilepsy/seizures
Support
Meta-analysis of 2,104 trios provides support for 10 new genes for intellectual disability
ID
Support
Integrating de novo and inherited variants in 42
ASD
Support
Novel NEXMIF pathogenic variant in a boy with severe autistic features, intellectual disability, and epilepsy, and his mildly affected mother.
ID, epilepsy/seizures
Autistic features
Support
Large-scale targeted sequencing identifies risk genes for neurodevelopmental disorders
ASD, DD
Support
KIAA2022 nonsense mutation in a symptomatic female.
ID, epilepsy/seizures
Autistic behavior, microcephaly, short stature
Support
Loss of Nexmif results in the expression of phenotypic variability and loss of genomic integrity
DD, ID, epilepsy/seizures
Autistic behavior
Support
Clinical spectrum of KIAA2022 pathogenic variants in males: Case report of two boys with KIAA2022 pathogenic variants and review of the literature.
ID, autistic features
Epilepsy/seizures
Support
Novel NEXMIF gene pathogenic variant in a female patient with refractory epilepsy and intellectual disability
X-linked mental retardation-98
DD, ID, epilepsy/seizures
Support
X-linked intellectual disability related genes disrupted by balanced X-autosome translocations.
ID, ASD
Support
Complex Diagnostics of Non-Specific Intellectual Developmental Disorder
DD, ID
Support
High Rate of Recurrent De Novo Mutations in Developmental and Epileptic Encephalopathies.
Epilepsy/seizures
DD/ID
Support
Epilepsy/seizures
DD, ID
Support
Clinical spectrum of KIAA2022/NEXMIF pathogenic variants in males and females: Report of three patients from Indian kindred with a review of published patients
X-linked mental retardation-98 (MRX98)
ASD or autistic features, DD, ID, epilepsy/seizure
Support
Delineation of the KIAA2022 mutation phenotype: two patients with X-linked intellectual disability and distinctive features.
ID, autistic features
Hypotonia, distinctive facial dysmorphisms
Support
Trio-based exome sequencing reveals a high rate of the de novo variants in intellectual disability
ID
Epilepsy/seizures
Support
Genomic diagnosis for children with intellectual disability and/or developmental delay.
ID, epilepsy/seizures
Support
Phenotypic and genetic spectrum of epilepsy with myoclonic atonic seizures
ID, epilepsy/seizures
Support
A duplication of the whole KIAA2022 gene validates the gene role in the pathogenesis of intellectual disability and autism.
ID, ASD
Support
NEXMIF pathogenic variants in individuals of Korean, Vietnamese, and Mexican descent
DD, epilepsy/seizures
ASD or autistic features, ADHD, ID
Support
Whole genome sequencing resource identifies 18 new candidate genes for autism spectrum disorder
ASD
Recent Recommendation
The X-Linked Autism Protein KIAA2022/KIDLIA Regulates Neurite Outgrowth via N-Cadherin and -Catenin Signaling.
Recent Recommendation
De novo mutations of KIAA2022 in females cause intellectual disability and intractable epilepsy.
ID, epilepsy/seizures
ASD or autistic features
Recent Recommendation
XLMR protein related to neurite extension (Xpn/KIAA2022) regulates cell-cell and cell-matrix adhesion and migration.
Recent Recommendation
Loss of function of KIAA2022 causes mild to severe intellectual disability with an autism spectrum disorder and impairs neurite outgrowth.
ID
ASD
Recent Recommendation
NEXMIF encephalopathy: an X-linked disorder with male and female phenotypic patterns
X-linked mental retardation-98, DD, ID, epilepsy/s
ASD/autistic features
GEN538R001
inversion
Familial
Maternal
Multi-generational
GEN538R002
frameshift_variant
c.186del
p.Gly63ValfsTer21
Familial
Maternal
Multi-generational
GEN538R003
frameshift_variant
c.3597dupA
p.Ser1200TyrfsTer5
Familial
Maternal
Multi-generational
GEN538R004
copy_number_gain
Familial
Maternal
Simplex
GEN538R005
copy_number_gain
Familial
Maternal
Multi-generational
GEN538R006
stop_gained
c.4411C>T
p.Gln1471Ter
Unknown
Unknown
GEN538R007
stop_gained
c.2113C>T
p.Gln705Ter
De novo
Simplex
GEN538R008
stop_gained
c.964C>T
p.Arg322Ter
De novo
Simplex
GEN538R009
translocation
De novo
GEN538R010
stop_gained
c.964C>T
p.Arg322Ter
De novo
Simplex
GEN538R011
missense_variant
c.3402C>A
p.His1134Gln
De novo
Simplex
GEN538R012
frameshift_variant
c.4185del
p.Lys1396fs
De novo
GEN538R013
stop_gained
c.438C>A
p.Cys146Ter
De novo
GEN538R014
frameshift_variant
c.2042del
p.Gly681fs
De novo
GEN538R015
stop_gained
c.964C>T
p.Arg322Ter
De novo
GEN538R016
frameshift_variant
c.2201_2202delAA
p.Lys734SerfsTer24
De novo
GEN538R017
stop_gained
c.1441C>T
p.Arg481Ter
De novo
GEN538R018
frameshift_variant
c.3053_3066del14
p.Gly1018AspfsTer2
De novo
GEN538R019
copy_number_loss
De novo
GEN538R020
frameshift_variant
c.1582delA
p.Arg528GlufsTer4
De novo
GEN538R021
stop_gained
c.1882C>T
p.Arg628Ter
De novo
GEN538R022
frameshift_variant
c.2725del
p.Ala909ProfsTer13
De novo
GEN538R023
stop_gained
c.652C>T
p.Arg218Ter
De novo
GEN538R024
stop_gained
c.952C>T
p.Gln318Ter
De novo
GEN538R025
frameshift_variant
c.3596_3597insA
p.Lys1199Asnfs
De novo
GEN538R026
stop_gained
c.2707G>T
p.Glu903Ter
De novo
GEN538R027
frameshift_variant
c.422delA
p.Gln141ArgfsTer7
De novo
GEN538R028
frameshift_variant
c.625dupC
p.Leu209ProfsTer3
De novo
GEN538R029
stop_gained
c.937C>T
p.Arg313Ter
De novo
GEN538R030
frameshift_variant
c.2774_2775insGAAA
p.Asn926LysfsTer3
Unknown
Simplex
GEN538R031
frameshift_variant
c.2999_3000delCT
p.Ser1000Cysfs
De novo
GEN538R032
frameshift_variant
c.2937_2938insGAAAG
p.Gln980GlufsTer32
De novo
Simplex
GEN538R033
stop_gained
c.652C>T
p.Arg218Ter
Unknown
Multiplex
GEN538R034
stop_gained
c.2707G>T
p.Glu903Ter
De novo
GEN538R035
stop_gained
c.3470C>A
p.Ser1157Ter
Familial
Maternal
Simplex
GEN538R036
translocation
De novo
GEN538R037
frameshift_variant
c.1262_1271del
p.Leu421GlnfsTer76
Unknown
GEN538R038
frameshift_variant
c.1851del
p.Phe617LeufsTer55
Familial
Maternal
Extended multiplex
GEN538R039
frameshift_variant
c.1063del
p.Leu355Ter
De novo
Simplex
GEN538R040
stop_gained
c.898G>T
p.Glu300Ter
De novo
GEN538R041
stop_gained
c.2645C>G
p.Ser882Ter
Unknown
GEN538R042
frameshift_variant
c.3458dupA
p.Asn1153LysfsTer8
De novo
GEN538R043
stop_gained
c.1441C>T
p.Arg481Ter
Familial
Maternal
Multiplex
GEN538R044
stop_gained
c.1975C>T
p.Gln659Ter
De novo
Simplex
GEN538R045
stop_gained
c.2799C>A
p.Tyr933Ter
De novo
Simplex
GEN538R046
stop_gained
c.964C>T
p.Arg322Ter
Unknown
Multiplex
GEN538R047
frameshift_variant
c.3797dup
p.Met1268TyrfsTer28
De novo
Simplex
GEN538R048
frameshift_variant
c.2158dup
p.Ile720AsnfsTer4
De novo
Simplex
GEN538R049
stop_gained
c.1882C>T
p.Arg628Ter
Unknown
GEN538R050
stop_gained
c.882C>A
p.Tyr294Ter
De novo
GEN538R051
stop_gained
c.1882C>T
p.Arg628Ter
De novo
Simplex
GEN538R052
stop_gained
c.3376G>T
p.Glu1126Ter
De novo
Simplex
GEN538R053
frameshift_variant
c.1262_1271del
p.Leu421GlnfsTer76
De novo
Simplex
GEN538R054
stop_gained
c.2892C>G
p.Tyr964Ter
De novo
Simplex
GEN538R055
stop_gained
c.3142G>T
p.Glu1048Ter
De novo
Simplex
GEN538R056
stop_gained
c.2984C>A
p.Ser995Ter
De novo
Simplex
GEN538R057
frameshift_variant
c.2133del
p.Pro712GlnfsTer17
De novo
GEN538R058
stop_gained
c.2749G>T
p.Gly917Ter
De novo
Simplex
GEN538R059
stop_gained
c.336G>A
p.Trp112Ter
De novo
GEN538R060
stop_gained
c.3652C>T
p.Gln1218Ter
De novo
GEN538R061
stop_gained
c.784G>T
p.Glu262Ter
De novo
Simplex
GEN538R062
stop_gained
c.1954C>T
p.Gln652Ter
De novo
Simplex
GEN538R063
frameshift_variant
c.3458dupA
p.Asn1153LysfsTer8
Unknown
Not maternal
Simplex
GEN538R064
frameshift_variant
c.3458dup
p.Asn1153LysfsTer8
De novo
Simplex
GEN538R065
stop_gained
c.1882C>T
p.Arg628Ter
De novo
Simplex
GEN538R066
frameshift_variant
c.280dup
p.Ala94GlyfsTer24
Familial
Maternal
Multiplex
GEN538R067
frameshift_variant
c.3597dup
p.Ser1200IlefsTer5
De novo
GEN538R068
stop_gained
c.1568G>A
p.Trp523Ter
De novo
Simplex
GEN538R069
stop_gained
c.652C>T
p.Arg218Ter
De novo
Simplex
GEN538R070
copy_number_loss
De novo
GEN538R071
frameshift_variant
c.2562_2563dup
p.Leu855ProfsTer55
Unknown
Not paternal
Simplex
GEN538R072
stop_gained
c.1441C>T
p.Arg481Ter
De novo
Simplex
GEN538R073
frameshift_variant
c.3458dup
p.Asn1153LysfsTer8
De novo
GEN538R074
stop_gained
c.2758C>T
p.Gln920Ter
De novo
Simplex
GEN538R075
stop_gained
c.2984C>A
p.Ser995Ter
De novo
Simplex
GEN538R076
stop_gained
c.336G>A
p.Trp112Ter
De novo
Simplex
GEN538R077
stop_gained
c.2892C>G
p.Tyr964Ter
Unknown
Simplex
GEN538R078
frameshift_variant
c.2084_2085insCA
p.Gly696LysfsTer6
Familial
Maternal
GEN538R079
frameshift_variant
c.1294dup
p.Ser432PhefsTer10
De novo
Simplex
GEN538R080
frameshift_variant
c.3591del
p.Lys1199AsnfsTer73
De novo
GEN538R081
stop_gained
c.705T>A
p.Tyr235Ter
De novo
Simplex
GEN538R082
frameshift_variant
c.2053del
p.Cys685ValfsTer7
De novo
GEN538R083
frameshift_variant
c.883_884del
p.Met295ValfsTer2
Unknown
GEN538R084
stop_gained
c.694C>T
p.Gln232Ter
Unknown
Simplex
GEN538R085
frameshift_variant
c.883_884del
p.Met295ValfsTer2
Unknown
Not maternal
Simplex
GEN538R086
inframe_deletion
c.3156_3158del
p.Leu1053del
Familial
Maternal
Multiplex
GEN538R087
missense_variant
c.1556A>T
p.Asp519Val
Familial
Maternal
Multiplex
GEN538R088
missense_variant
c.3901A>T
p.Asn1301Tyr
De novo
GEN538R089
stop_gained
c.4405C>T
p.Arg1469Ter
Unknown
GEN538R090
missense_variant
c.431G>A
p.Arg144Gln
Unknown
GEN538R091
frameshift_variant
c.3842del
p.Gly1281GlufsTer16
Unknown
GEN538R092
frameshift_variant
c.3734dup
p.Ser1246LysfsTer15
Unknown
GEN538R093
frameshift_variant
c.3221dup
p.Asp1075GlyfsTer4
Unknown
GEN538R094
frameshift_variant
c.1123dup
p.Glu375GlyfsTer4
Unknown
GEN538R095
stop_gained
c.1069C>T
p.Gln357Ter
Unknown
GEN538R096
stop_gained
c.1069C>T
p.Gln357Ter
Unknown
GEN538R097
missense_variant
c.3055G>A
p.Asp1019Asn
Unknown
GEN538R098
missense_variant
c.65G>A
p.Gly22Glu
Unknown
GEN538R099
missense_variant
c.431G>A
p.Arg144Gln
Unknown
GEN538R100
missense_variant
c.431G>A
p.Arg144Gln
Unknown
GEN538R101
stop_gained
c.937C>T
p.Arg313Ter
De novo
Simplex
GEN538R102
missense_variant
c.4162G>A
p.Ala1388Thr
Familial
Maternal
GEN538R103
frameshift_variant
c.788del
p.Thr263IlefsTer41
Unknown
Unknown
GEN538R104
frameshift_variant
c.846_849del
p.Val283ThrfsTer20
De novo
Simplex
GEN538R105
stop_gained
c.937C>T
p.Arg313Ter
De novo
Simplex
GEN538R106
stop_gained
c.1441C>T
p.Arg481Ter
De novo
GEN538R107
missense_variant
c.3964A>G
p.Asn1322Asp
De novo
GEN538R108
stop_gained
c.2667G>A
p.Trp889Ter
De novo
Simplex
GEN538R109
stop_gained
c.652C>T
p.Arg218Ter
De novo
Simplex
GEN538R110a
missense_variant
c.3569G>A
p.Ser1190Asn
De novo
Simplex
GEN538R110b
frameshift_variant
c.3565_3566insCACTCTTCTCAGA
p.Gln1189ProfsTer20
De novo
Simplex
GEN538R111
missense_variant
c.1505A>G
p.Glu502Gly
Unknown
Extended multiplex
GEN538R112
frameshift_variant
c.846_849del
p.Val283ThrfsTer20
Unknown
Simplex
No Common Variants Available
X
Deletion-Duplication
21
Summary Statistics:
# of Reports: 2
# of Models: 1
Model Summary
NEXMIF KO mice show reduced sociability, social memory, usv communication and marble-buring, increased locomotion, epetitive grooming behavior, and deficits in spatial learning and memory as measured in the fear conditioning test and Barnes maze. Loss of NEXMIF shows decrease in synapse density and synaptic protein expression as well as abnormal spine morphology.
References
Primary
NEXMIF/KIDLIA Knock-out Mouse Demonstrates Autism-Like Behaviors, Memory Deficits, and Impairments in Synapse Formation and Function.
Model Type:
Genetic
Model Genotype:
Heterozygous
Mutation:
C77370tm1 (KOMP) Wtsi (KIAA2022) KO mice were generated through the deletion of exon 4 of Nexmif. Heterozygous female mice were crossed with wildtype male mice and hetrozygous KO male mice used for experiments since Nexmif is an X-linked gene.
Allele Type: Knockout
Strain of Origin: C57Bl/6J
Genetic Background: C57Bl/6J
ES Cell Line: KIAA2022 KO embryonic stem (ES) cells
Mutant ES Cell Line:
Model Source: Pettitt et al, 2009 (PMID 19525957); KOMP, clone EPD0411_7_H02
Self grooming: home cage/familiar environment1
Increased
View More
Description: Mutants show increase in the time spent and the number of episodes of self-grooming, resulting in patches of lost fur.
Exp Paradigm: NA
Grooming behavior assessments
8-12 weeks
General locomotor activity: ambulatory activity1
Increased
View More
Description: Mutants travel longer distance.
Exp Paradigm: NA
Open field test
8-12 weeks
General locomotor activity1
Increased
View More
Description: Mutants travel at higher speed.
Exp Paradigm: NA
Open field test
8-12 weeks
Neuroreceptor levels: glutamate receptors: ampa receptors1
Decreased
View More
Description: Mutants show a decrease in the expression of ampar subunit glua1, in the hippocampus and cortex.
Exp Paradigm: NA
Western blot
8-12 weeks
Neuroreceptor levels: glutamate receptors: ampa receptors1
Decreased
View More
Description: Mutants show a decrease in the expression of ampar subunit glua1 in the hippocampus.
Exp Paradigm: NA
Immunohistochemistry
8-12 weeks
Dendritic architecture: spine morphology1
Abnormal
View More
Description: Mutants show an increase in immature filopodia and thin spine protrusions with less mature stubby spines in the hippocampus. mutants show an increase in dendritic spine length in the hippocampus.
Exp Paradigm: NA
Golgi-cox staining
3 months
Dendritic architecture: spine density1
Decreased
View More
Description: Mutants show decrease in hippocampal dendritic spine density.
Exp Paradigm: NA
Golgi-cox staining
3 months
Presynaptic function: paired-pulse facilitation1
Increased
View More
Description: Mutants show increase in paired pulse ratio, particularly at high frequency stimulation, in ca3-ca1 synapses in hippocampal brain slices, indicating abnormality in presynaptic function.
Exp Paradigm: NA
Field potential recordings
15-17 weeks
Network excitability: synchronous2
Increased
View More
Description: If the observed correlation coefficient was greater than the 95th percentile of the shuffled null distribution, a neuron pair was deemed significantly correlated (correlated pair). The fraction of session-relevant pairs was increased in NEXMIF knockout. In wildtype mice, the correlation strengths of these session-relevant pairs were slightly higher during running, but were not significantly different between resting and running, indicating that when an animal switches between the two behavioral states, the relevant CA1 network connectivity remains largely stable. In knockout mice, however, correlation strength among session-relevant cells is significantly higher during running than resting. In wildtype force-directed maps, cells were more tightly clustere
Exp Paradigm: in vivo
Calcium imaging
7-34 weeks
Increased
View More
Description: A cell was deemed to be movement-modulated if the observed neural activity difference was greater than the 97.5th percentile of the shuffled null distribution for that cell. Using this analysis, 31.0% of neurons were found to be movement-modulated in knockout animals, significantly higher than the 25.7% observed in wildtype.
Exp Paradigm: in vivo
Calcium imaging
7-34 weeks
Decreased
View More
Description: Mutants show a decrease in input-output relationship at ca3-ca1 synapses, indicating decrease in excitatory synaptic strength.
Exp Paradigm: NA
Field potential recordings
15-17 weeks
Decreased
View More
Description: Mutant mice bury fewer marbles, indicating decrease in interest in external environment.
Exp Paradigm: NA
Marble-burying test
8-12 weeks
Increased
View More
Description: Mutants show spontaneous seizures that were fatal at older ages.
Exp Paradigm: NA
General observations
3 months
Decreased
View More
Description: Mutant mice spent less time with a social mouse stimulus than with an empty cup.
Exp Paradigm: NA
Three-chamber social approach test
8-12 weeks
Decreased
View More
Description: Mutant mice show no preference for an unfamiliar mouse.
Exp Paradigm: NA
Three-chamber social approach test
8-12 weeks
Ultrasonic vocalization: isolation induced1
Decreased
View More
Description: Mutants make fewer calls, make calls of shorter length, spend less time calling, use less modulation in calls and show no change in peak amplitude or frequency of calls.
Exp Paradigm: NA
Monitoring ultrasonic vocalizations
P5, p7, p9
Increased
View More
Description: Mutants travel less in the center.
Exp Paradigm: NA
Open field test
8-12 weeks
Spatial reference memory1
Decreased
View More
Description: Mutant mice show decrease in the number of nose pokes made at the target hole during probe for spatial memory when the target hole was covered at 5 days but not at 24 hours post-training. mutants took longer to find the target hole and travelled longer distances before finding the target hole.
Exp Paradigm: NA
Barnes maze test
8-12 weeks
Cued or contextual fear conditioning: memory of cue1
Decreased
View More
Description: Mutants show decrease in freezing when exposed to the cued tone associated with foot shock in prior training sessions.
Exp Paradigm: NA
Fear conditioning test
8-12 weeks
Cued or contextual fear conditioning: memory of context1
Decreased
View More
Description: Mutants show decrease in freezing time and increase in motion when placed in the context associated with foot shock in prior training sessions.
Exp Paradigm: NA
Fear conditioning test
8-12 weeks
Decreased
View More
Description: Mutant mice were slower to use direct search strategies to locate the target hole and employed more mixed or serial searches. mutants improved in direct searches over the training sessions.
Exp Paradigm: NA
Barnes maze test
8-12 weeks
Decreased
View More
Description: Mutants show loss of the nexmif protein in cytoplasmic and nuclear fractions of cortical lysates.
Exp Paradigm: NA
Western blot
8-12 weeks
Decreased
View More
Description: Mutants show loss of the nexmif protein in cortical layers.
Exp Paradigm: NA
Immunohistochemistry
P0
Protein expression level evidence1
Decreased
View More
Description: Mutants show decrease in levels of the gabaa receptor alpha1 subunit, the scaffolding protein gephyrin but no change in synapsin or psd05 in the hippocampus and the cerebral cortex.
Exp Paradigm: NA
Western blot
8-12 weeks
No change
General observations
8-12 weeks
No change
General observations
Adult
No change
General observations
P0
No change
Fear conditioning test
8-12 weeks
Cued or contextual fear conditioning1
No change
Fear conditioning test
8-12 weeks
No change
Barnes maze test
8-12 weeks
General locomotor activity2
No change
Spherical treadmill
7-34 weeks
No change
General observations
8-12 weeks
No change
Histology
8-12 weeks
No change
Histology
8-12 weeks
No change
Immunohistochemistry
P0
No change
Immunohistochemistry
P0
Action potential property: firing pattern2
No change
Calcium imaging
7-34 weeks
No change
Calcium imaging
7-34 weeks
Neuronal activation: locomotion2
No change
Calcium imaging
7-34 weeks
No change
General observations
8-12 weeks
Not Reported:
Circadian sleep/wake cycle, Immune response, Maternal behavior, Physiological parameters, Sensory
No PIN Data Available