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Relevance to Autism

Overexpression of the KCTD13 gene in zebrafish resulted in induction of the microcephaly phenotype associated with 16p11.2 duplications, whereas suppression of KCTD13 expression resulted in the macrocephaly phenotype associated with 16p11.2 deletions (Golzio et al., 2012). An autistic proband with a de novo deletion including exons 3-5 of the KCTD13 gene was also identified in this report.

Molecular Function

Substrate-specific adapter of a BCR (BTB-CUL3-RBX1) E3 ubiquitin-protein ligase complex required for synaptic transmission (PMID 19782033). The BCR(KCTD13) E3 ubiquitin ligase complex mediates the ubiquitination of RHOA, leading to its degradation by the proteasome (PMID 19782033) Degradation of RHOA regulates the actin cytoskeleton and promotes synaptic transmission.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
KCTD13 is a major driver of mirrored neuroanatomical phenotypes of the 16p11.2 copy number variant.
ASD
Support
Epilepsy/seizures
Support
Regulation of purine metabolism connects KCTD13 to a metabolic disorder with autistic features
ASD
SCZ
Support
Targeted sequencing and functional analysis reveal brain-size-related genes and their networks in autism spectrum disorders.
ASD
Support
Identification of rare variants in KCTD13 at the schizophrenia risk locus 16p11.2.
SCZ
Recent Recommendation
A Potential Contributory Role for Ciliary Dysfunction in the 16p11.2 600 kb BP4-BP5 Pathology.
Recent Recommendation
Spatiotemporal 16p11.2 protein network implicates cortical late mid-fetal brain development and KCTD13-Cul3-RhoA pathway in psychiatric diseases.
Recent Recommendation
CRISPR/Cas9-mediated Knockout of the Neuropsychiatric Risk Gene KCTD13 Causes Developmental Deficits in Human Cortical Neurons Derived from Induced...
Recent Recommendation
Kctd13 deletion reduces synaptic transmission via increased RhoA.

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN363R001 
 copy_number_loss 
  
  
 De novo 
  
  
 GEN363R002 
 synonymous_variant 
 c.6G>T 
 p.Ser2= 
 Unknown 
  
  
 GEN363R003 
 missense_variant 
 c.405G>A 
 p.Leu135= 
 Unknown 
 Not maternal 
 Multiplex 
 GEN363R004 
 missense_variant 
 c.256A>C 
 p.Ile86Leu 
 Familial 
  
 Simplex 

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
16
Deletion-Duplication
 139
  construct
16
Duplication
 4
 
16
Deletion
 1
 
16
Deletion
 1
 
16
Duplication
 15
 

Model Summary

Overexpression of BBS7 rescues head size and neuroanatomical defects of kctd13 morphants, whereas suppression or overexpression of CEP290 rescues phenotypes induced by KCTD13 under- or overexpression, respectively. Lack of kctd13 on a mitf1a null background results in no increase in head size or cell proliferation but increases RhoA protein expression in the brain.

References

Type
Title
Author, Year
Primary
KCTD13 is a major driver of mirrored neuroanatomical phenotypes of the 16p11.2 copy number variant.
Primary
A Potential Contributory Role for Ciliary Dysfunction in the 16p11.2 600 kb BP4-BP5 Pathology.
Primary
The Immune Signaling Adaptor LAT Contributes to the Neuroanatomical Phenotype of 16p11.2 BP2-BP3 CNVs.
Primary
Kctd13 deletion reduces synaptic transmission via increased RhoA.

Z_KCTD13_1_MRNA-OE

Model Type: Genetic
Model Genotype: Wild type
Mutation: Human wild type mRNA was cloned into the pCS2 vector and transcribed in vitro and injected into wildtype zebrafish embryos at the 1-2 cell stage. Capped mRNA was generated and injected zebrafish embryos with equimolar pairwise cocktail combinations at two dosages of 25 pg and 50 pg; these commonly used ranges were selected because they represent >0.250.5% of total polyA+ mRNA in a zebrafish embryo and are thus likely to achieve significant overexpression above the baseline of any single transcript.
Allele Type: Overexpression
Strain of Origin: Not specified
Genetic Background: Not specified
ES Cell Line: Not specified
Mutant ES Cell Line: Not specified
Model Source: 22596160

Z_KCTD13_3_MO_KD

Model Type: Genetic
Model Genotype: Wild type
Mutation: Wildtype Zebrafish embryos were injected with splice blocking morpholios against Kctd13 at the 1-to 2-cell stage. Control MO was the scrambled nucleotide sequence from Gene Tools, LLC.
Allele Type: Loss of Function
Strain of Origin: Not specified
Genetic Background: Not specified
ES Cell Line: Not specified
Mutant ES Cell Line: Not specified
Model Source: 22596160

Z_CEP290_2_MRNA_OE

Model Type: Genetic
Model Genotype: Wild type
Mutation: 100 pg wildtype CEP290 human transcript was injected into wild-type zebrafish embryos at the 1- to 2-cell stage.
Allele Type: Overexpression
Strain of Origin: Not specified
Genetic Background: Not specified
ES Cell Line: Not specified
Mutant ES Cell Line: Not specified
Model Source: 25937446

Z_KCTD13_1_SBMO_KD

Model Type: Genetic
Model Genotype: Wild type
Mutation: 10ng splice-blocking MOs against kctd13 was injected into wild-type zebrafish embryos at the 1- to 2-cell stage.
Allele Type: Loss of Function
Strain of Origin: Not specified
Genetic Background: Not specified
ES Cell Line: Not specified
Mutant ES Cell Line: Not specified
Model Source: 25937446

Z_KCTD13_3_MRNA_OE

Model Type: Genetic
Model Genotype: Wild type
Mutation: 100 pg wildtype KCTD13 human transcript was injected into wild-type zebrafish embryos at the 1- to 2-cell stage.
Allele Type: Overexpression
Strain of Origin: Not specified
Genetic Background: Not specified
ES Cell Line: Not specified
Mutant ES Cell Line: Not specified
Model Source: 25937446

Z_KCTD13_1_MRNA

Model Type: Genetic
Model Genotype: Wild type
Mutation: Kctd13 human transcript was over-expressed by injection into wildtype zebrafish embryos at the 1- to 2-cell stage.
Allele Type: Overexpression
Strain of Origin:
Genetic Background:
ES Cell Line:
Mutant ES Cell Line:
Model Source: 28965845

Z_KCTD13_1_KO_HM_MITF1A_KO_HM

Model Type: Genetic
Model Genotype: Homozygous
Mutation: The kctd13 mutant, ZFIN mutant line kctd13^a160, was generated by simultaneous injection of four guide RNAs (gRNAs) and approximately 0.5microliter of 50 micromolar Cas9 protein into embryos from a nacre (mitfa/) line crossed to an EK line. The out-of-frame mutant, a 46-bp insertion at the first gRNA target and 37-bp deletion between the second and third gRNA targets was identified and sequenced.
Allele Type: Loss of function
Strain of Origin: EK
Genetic Background: EK
ES Cell Line: Not specified
Mutant ES Cell Line: Not specified
Model Source: 29088697

Z_KCTD13_1_MRNA-OE

Category
Entity
Quantity
Experimental Paradigm
Age at Testing
Neuronal number1
Decreased
Description: Transcipt injection shows decrease in the number of neurons compared to controls.
 Immunostaining
 4.5 dpf
Brain morphology1
Decreased
Description: Transcript injection decreased telencephalon development compared to controls.
 Immunostaining
 4.5 dpf
Brain size1
Decreased
Description: Transcript injection showed reduced head size compared to controls.
 General observations
 4.25-4.5 dpf
Brain morphology1
Decreased
Description: Transcript injection decreased mesencephalon morphogenesis compared to controls.
 Immunostaining
 4.5 dpf
Brain morphology1
Abnormal
Description: Transcript injection shows concomitant loss of organization and bilateral symmetry compared to controls.
 Immunostaining
 2 dpf
Brain morphology1
Decreased
Description: Transcript injection decreased diencephalon morphogenesis compared to controls.
 Immunostaining
 4.5 dpf
Brain morphology1
Abnormal
Description: Transcript injection shows aberrant distribution of axonal tracks compared to controls.
 Immunostaining
 2 dpf
Cell proliferation1
Decreased
Description: Transcript injection shows decreased cell proliferation compared to controls.
 Immunostaining
 4.5 dpf
Mortality/lethality1
 No change
 General observations
 4.25 dpf
Size/growth1
 No change
 General observations
 4.5 dpf
Neuronal size1
 No change
 Immunostaining
 4.5 dpf
Morphology of the retina1
 No change
 Immunostaining
 4.5 dpf
 Not Reported: Circadian sleep/wake cycle, Communications, Emotion, Immune response, Learning & memory, Maternal behavior, Motor phenotype, Neurophysiology, Physiological parameters, Repetitive behavior, Seizure, Social behavior

Z_KCTD13_3_MO_KD

Category
Entity
Quantity
Experimental Paradigm
Age at Testing
Brain morphology1
Abnormal
Description: Morphants show concomitant loss of organization and bilateral symmetry compared to controls.
 Immunostaining
 2 dpf
Brain morphology1
Abnormal
Description: Morphants show aberrant distribution of axonal tracks compared to controls.
 Immunostaining
 2 dpf
Neuronal number1
Increased
Description: Morphants show increased in neuronal number compared to controls.
 Immunostaining
 4.5 dpf
Brain size1
Increased
Description: Morphant showed increased head size compared to controls.
 General observations
 4.5 dpf
Targeted expression1
Decreased
Description: Morphant showed reduced kctd13 transcript compared to controls.
 Quantitative pcr (qrt-pcr)
 4.5 dpf
Cell proliferation1
Increased
Description: Morphant shows increased cell proliferation compared to controls.
 Immunostaining
 4.5 dpf
Size/growth1
 No change
 General observations
 4.5 dpf
Brain morphology1
 No change
 Immunostaining
 4.5 dpf
Brain morphology1
 No change
 Immunostaining
 4.5 dpf
Brain morphology1
 No change
 Immunostaining
 4.5 dpf
Neuronal size1
 No change
 Immunostaining
 4.5 dpf
Morphology of the retina1
 No change
 Immunostaining
 4.5 dpf
 Not Reported: Circadian sleep/wake cycle, Communications, Emotion, Immune response, Learning & memory, Maternal behavior, Motor phenotype, Neurophysiology, Physiological parameters, Repetitive behavior, Seizure, Social behavior

Z_CEP290_2_MRNA_OE

Category
Entity
Quantity
Experimental Paradigm
Age at Testing
Neuronal number1
Increased
Description: Injection of cep290 transcript alone increased ectopic HuC/D expression compared to controls.
Exp Paradigm: Injected embryos were stained with HuC/D antibody. Anti-HuC/D is a marker for post- mitotic neurons, i.e., cells positive for HuC and HuD (also known as ELAVL3 and ELAVL4).
 Immunostaining
 2 dpf
Neuronal number1
Decreased
Description: Injection of cep290 mRNA alone reduced bilateral HuC/D expression compared to controls.
Exp Paradigm: Injected embryos were stained with HuC/D antibody. Anti-HuC/D is a marker for post- mitotic neurons, i.e., cells positive for HuC and HuD (also known as ELAVL3 and ELAVL4).
 Immunostaining
 2 dpf
Neuronal number1
Increased
Description: Cep290 transcript injection increased unilateral HuC/D expression compared to controls.
Exp Paradigm: Injected embryos were stained with HuC/D antibody. Anti-HuC/D is a marker for post- mitotic neurons, i.e., cells positive for HuC and HuD (also known as ELAVL3 and ELAVL4).
 Immunostaining
 2 dpf
Neuronal number1
 No change
 Immunostaining
 2 dpf
 Not Reported: Circadian sleep/wake cycle, Communications, Developmental profile, Emotion, Immune response, Learning & memory, Maternal behavior, Molecular profile, Motor phenotype, Neurophysiology, Physiological parameters, Repetitive behavior, Seizure, Sensory, Social behavior

Z_KCTD13_1_SBMO_KD

Category
Entity
Quantity
Experimental Paradigm
Age at Testing
Neuronal number1
Decreased
Description: Morphants show reduced bilateral HuC/D expression compared to controls.
Exp Paradigm: Injected embryos were stained with HuC/D antibody. Anti-HuC/D is a marker for post- mitotic neurons, i.e., cells positive for HuC and HuD (also known as ELAVL3 and ELAVL4).
 Immunostaining
 2 dpf
Neuronal number1
Increased
Description: Morphants show increased unilateral HuC/D expression compared to controls.
Exp Paradigm: Injected embryos were stained with HuC/D antibody. Anti-HuC/D is a marker for post- mitotic neurons, i.e., cells positive for HuC and HuD (also known as ELAVL3 and ELAVL4).
 Immunostaining
 2 dpf
Neuronal number1
Increased
Description: Total number of neurons was increased in kctd13 morphants compared to controls.
Exp Paradigm: Injected embryos were stained with HuC/D antibody. Anti-HuC/D is a marker for post- mitotic neurons, i.e., cells positive for HuC and HuD (also known as ELAVL3 and ELAVL4).
 Immunostaining
 4.5 dpf
Cell proliferation: neural precursors1
Increased
Description: Suppression of kctd13 led to an increased number of newborn neurons compared to controls.
Exp Paradigm: Injected embryos were stained with HuC/D antibody. Anti-HuC/D is a marker for post- mitotic neurons, i.e., cells positive for HuC and HuD (also known as ELAVL3 and ELAVL4).
 Immunostaining
 2 dpf
Neuronal number1
Increased
Description: Suppression of kctd13 led to the ectopic expression of HuC/D concomitant with an increased number of newborn neurons and macrocephaly
Exp Paradigm: Injected embryos were stained with HuC/D antibody. Anti-HuC/D is a marker for post- mitotic neurons, i.e., cells positive for HuC and HuD (also known as ELAVL3 and ELAVL4).
 Immunostaining
 2 dpf
Brain size1
Increased
Description: Intraocular distance is increased in morphants compared to controls.
 Microscopic analysis
 4.5 dpf
Neuronal number1
 No change
 Immunostaining
 2 dpf
 Not Reported: Circadian sleep/wake cycle, Communications, Developmental profile, Emotion, Immune response, Learning & memory, Maternal behavior, Molecular profile, Motor phenotype, Neurophysiology, Physiological parameters, Repetitive behavior, Seizure, Sensory, Social behavior

Z_KCTD13_3_MRNA_OE

Category
Entity
Quantity
Experimental Paradigm
Age at Testing
Neuronal number1
Increased
Description: Kctd13 mRNA injection increased unilateral HuC/D expression compared to controls.
Exp Paradigm: Injected embryos were stained with HuC/D antibody. Anti-HuC/D is a marker for post- mitotic neurons, i.e., cells positive for HuC and HuD (also known as ELAVL3 and ELAVL4).
 Immunostaining
 2 dpf
Neuronal number1
Decreased
Description: Injection of kctd13 transcript reduced HuC/D expression compared to controls.
Exp Paradigm: Injected embryos were stained with HuC/D antibody. Anti-HuC/D is a marker for post- mitotic neurons, i.e., cells positive for HuC and HuD (also known as ELAVL3 and ELAVL4).
 Immunostaining
 2 dpf
Brain size1
Decreased
Description: KCTD13 mRNA injected embryos show reduced head size compared to controls.
 Microscopic analysis
 4.5 dpf
Neuronal number1
Decreased
Description: KCTD13 mRNA injection shows reduced bilateral HuC/D expression compared to controls.
Exp Paradigm: Injected embryos were stained with HuC/D antibody. Anti-HuC/D is a marker for post- mitotic neurons, i.e., cells positive for HuC and HuD (also known as ELAVL3 and ELAVL4).
 Immunostaining
 2 dpf
Brain size1
Decreased
Description: Intraocular distance was decreased in embryos injected with kctd13 transcript compared to controls.
 Microscopic analysis
 4.5 dpf
Neuronal number1
 No change
 Immunostaining
 2 dpf
 Not Reported: Circadian sleep/wake cycle, Communications, Developmental profile, Emotion, Immune response, Learning & memory, Maternal behavior, Molecular profile, Motor phenotype, Neurophysiology, Physiological parameters, Repetitive behavior, Seizure, Sensory, Social behavior

Z_KCTD13_1_MRNA

Category
Entity
Quantity
Experimental Paradigm
Age at Testing
Cell proliferation: neural precursors1
Decreased
Description: Injection of Kctd13 mRNA resulted in a significant decrease in the number of proliferating brain cells compared to controls.
 Whole-mount immunohistochemistry
 2 dpf
 Not Reported: Circadian sleep/wake cycle, Communications, Developmental profile, Emotion, Immune response, Learning & memory, Maternal behavior, Molecular profile, Motor phenotype, Neurophysiology, Physiological parameters, Repetitive behavior, Seizure, Sensory, Social behavior

Z_KCTD13_1_KO_HM_MITF1A_KO_HM

Category
Entity
Quantity
Experimental Paradigm
Age at Testing
Protein expression: in situ protein expression1
Increased
Description: Kctd13-mutant zebrafish showed an increase in RhoA protein levels compared to controls.
Exp Paradigm: Western blot
 Western blot
 6 dpf
Protein expression: in situ protein expression1
Increased
Description: Kctd13-mutant zebrafish showed an increase in RhoA protein levels compared to controls.
Exp Paradigm: Immunostaining
 Immunostaining
 6 dpf
Cell proliferation1
 No change
 Immunostaining
 4.5 dpf
Brain size1
 No change
 General observations
 Not reported
 Not Reported: Circadian sleep/wake cycle, Communications, Developmental profile, Emotion, Immune response, Learning & memory, Maternal behavior, Motor phenotype, Neurophysiology, Physiological parameters, Repetitive behavior, Seizure, Sensory, Social behavior


Interactor Symbol Interactor Name Interactor Organism Entrez ID Uniprot ID Interaction Type Evidence Reference
ARIH1 ariadne homolog, ubiquitin-conjugating enzyme E2 binding protein, 1 (Drosophila) 25820 Q9Y4X5 IP; LC-MS/MS
Huttlin EL , et al. 2015
ARMC7 armadillo repeat containing 7 79637 Q9H6L4 Y2H
Rual JF , et al. 2005
C6orf55 Vps20-associated 1 homolog (S. cerevisiae) 51534 Q9NP79 Y2H
Rual JF , et al. 2005
CUL3 cullin 3 8452 B7Z600 IP; MS; COMPASS
Bennett EJ , et al. 2010
CUL3 cullin 3 8452 B7Z600 Y2H; bimolecular fluorescence complementation assay
Rolland T , et al. 2014
CUL3 cullin 3 8452 B7Z600 Y2H
Lin GN , et al. 2015
CUL3 cullin 3 8452 B7Z600 IP; LC-MS/MS
Huttlin EL , et al. 2015
FLJ22494 nudix (nucleoside diphosphate linked moiety X)-type motif 18 79873 Q6ZVK8 Y2H
Rual JF , et al. 2005
FLNC filamin C, gamma 2318 Q14315 IP; LC-MS/MS
Huttlin EL , et al. 2015
KAT7 K(lysine) acetyltransferase 7 11143 B4DGY4 Y2H
Rual JF , et al. 2005
KCTD10 potassium channel tetramerisation domain containing 10 83892 Q9H3F6 IP; MS; COMPASS
Sowa ME , et al. 2009
KCTD10 potassium channel tetramerisation domain containing 10 83892 Q9H3F6 IP; LC-MS/MS
Huttlin EL , et al. 2015
KCTD13 potassium channel tetramerisation domain containing 13 253980 Q8WZ19 IP; MS; COMPASS
Sowa ME , et al. 2009
KCTD13 potassium channel tetramerisation domain containing 13 253980 Q8WZ19 Y2H; bimolecular fluorescence complementation assay
Rolland T , et al. 2014
LAMB4 laminin, beta 4 22798 A4D0S4 IP; MS; COMPASS
Sowa ME , et al. 2009
LNX ligand of numb-protein X 1, E3 ubiquitin protein ligase 84708 Q8TBB1 Y2H
Rual JF , et al. 2005
MYST2 K(lysine) acetyltransferase 7 11143 B4DGY4 Y2H
Rual JF , et al. 2005
Nfkb1 nuclear factor of kappa light polypeptide gene enhancer in B-cells 1 4790 P19838 Y2H; GST
He H , et al. 2001
NUDT18 nudix (nucleoside diphosphate linked moiety X)-type motif 18 79873 Q6ZVK8 Y2H
Rual JF , et al. 2005
PCNA proliferating cell nuclear antigen 5111 P12004 Y2H
Rual JF , et al. 2005
PFDN2 prefoldin subunit 2 5202 B1AQP2 IP; LC-MS/MS
Huttlin EL , et al. 2015
PLEC plectin 5339 Q15149 IP; MS; COMPASS
Sowa ME , et al. 2009
POLD2 polymerase (DNA directed), delta 2, accessory subunit 5425 A4D2J4 Y2H
Rual JF , et al. 2005
SPRTN SprT-like N-terminal domain 83932 Q9H040 TAP; MS
Ghosal G , et al. 2012
SRPX sushi-repeat containing protein, X-linked 8406 B3KWP8 IP; MS; COMPASS
Sowa ME , et al. 2009
TFAP2A transcription factor AP-2 alpha (activating enhancer binding protein 2 alpha) 7020 P05549 Y2H; GST; IP/WB
Ding X , et al. 2008
TNFAIP1 tumor necrosis factor, alpha-induced protein 1 (endothelial) 7126 Q13829 IP; MS; COMPASS
Sowa ME , et al. 2009
TNFAIP1 tumor necrosis factor, alpha-induced protein 1 (endothelial) 7126 Q13829 Y2H; bimolecular fluorescence complementation assay
Rolland T , et al. 2014
TNFAIP1 tumor necrosis factor, alpha-induced protein 1 (endothelial) 7126 Q13829 IP; LC-MS/MS
Huttlin EL , et al. 2015
UBC ubiquitin C 7316 P63279 LC-MS/MS
Danielsen JM , et al. 2010
USP25 ubiquitin specific peptidase 25 29761 Q9UHP3 IP; MS; COMPASS
Sowa ME , et al. 2009
USP25 ubiquitin specific peptidase 25 29761 Q9UHP3 IP; LC-MS/MS
Huttlin EL , et al. 2015
VTA1 Vps20-associated 1 homolog (S. cerevisiae) 51534 Q9NP79 Y2H
Rual JF , et al. 2005
ZMYND19 zinc finger, MYND-type containing 19 116225 Q96E35 Y2H
Rual JF , et al. 2005
ZMYND19 zinc finger, MYND-type containing 19 116225 Q96E35 Y2H; bimolecular fluorescence complementation assay
Rolland T , et al. 2014
CUL3 cullin 3 26554 Q9JLV5 IP/WB
Ibeawuchi SR , et al. 2015
Rnd2 Rho family GTPase 2 11858 Q9QYM5 Y2H; IP/WB
Gladwyn-Ng I , et al. 2016
Rnd3 Rho family GTPase 3 74194 P61588 Y2H; IP/WB
Gladwyn-Ng I , et al. 2016
Sp1 trans-acting transcription factor 1 20683 O89090 Luciferase reporter assay
Zhou J , et al. 2005

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