Identification of a novel splice mutation in CTNNB1 gene in a Chinese family with both severe intellectual disability and serious visual defects

Abstract

The CTNNB1 gene encode the β-catenin protein which is a core unit of the cadherin/catenin multiprotein complex. The loss-of-function mutation of the CTNNB1 gene recently has been confirmed as a cause of intellectual disability. Previous studies have found that patients with CTNNB1 gene mutation may have other clinical manifestation such as microcephaly, abnormal facial features, motor and language delays, and mild visual defects. Here, we reported a 27-year-old Chinese pregnant woman with a severe intellectual disability and serious visual defects who was detected with a novel splice mutation (c.734+1G>A) in CTNNB1 gene by whole-exome sequencing and confirmed by Sanger sequencing. Further investigation showed that the variant was inherited from her mother with similar phenotypes. This report not only helps to expand the mutant spectrum of the CTNNB1 gene but also prompts a new insight into genetic diagnosis in patients with both serious intellectual disability and visual defects.

Electronic supplementary material

The online version of this article (10.1007/s10072-019-03823-5) contains supplementary material, which is available to authorized users.

Introduction

The CTNNB1 gene encodes the β-catenin protein which is a sub-unit of the cadherin/catenin multiprotein complex. Previous studies find CTNNB1 mutation related to several cancers [1]. Recently, a large-scale sequencing firstly identified CTNNB1 loss-of-function mutations as the cause of intellectual disability (ID) [2]. Other studies report different mutations in patients which phenotypes include ID, craniofacial anomalies, speech delay microcephaly, and mild visual disturbances like strabismus and hyperopia [3–5]. Our study describes a novel mutation of the CTNNB1 gene in a family who presented with serious ID and visual disturbances.

Case report

The proband was a 27-years-old Chinese pregnant woman who attended to our department at 20th gestational week for prenatal diagnosis because of the possible maternal ID. She also had severe esotropia, involuntary rotation of the head, and significant motor delay and language retardation (Fig. 1a), which appeared and got worsen since her birth. Neurologist and ophthalmologist were invited for a professional examination.

Fig. 1.

Photographs of the proband, mutations in the CTNNB1 gene, and the pedigrees of the families. a The proband had mildly abnormal craniofacial features with face involuntary movements, severe esotropia, rotation of the head, and significant motor delay and language retardation. b Sanger sequence showed a heterozygous splice mutation (c.734+1G>A) in the proband and her mother. Red arrows, mutant bases. c The pedigrees of the families

The neurologic examination found she had peripheral hypertonia with deep tendon hyperreflexia and Babinski sign positive, ataxic gait, and paroxysmal dystonic of head and neck, especially right-side rotation of head (Online Resource 1). Ceruloplasmin test, immunologic tests, brain MRI, and routine laboratory tests revealed nothing remarkable. Electroencephalograph (EEG) was mildly abnormal without typical epileptiform discharge and electromyography (EMG) was normal. Wechsler intelligence test showed severe ID with IQ score 28. The ophthalmologist found the woman had serious esotropia of both eyes, no reaction to light, and a complete lack of vision accompanied with nystagmus, lens, and vitreous opacities on oculus sinister. Complete retinal detachment and eyeball atrophy on her left eye were confirmed by fundus ultrasound.

Online Resource 1.

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For further investigation, whole-genome low-coverage sequencing (WGLCS) and whole-exome sequencing (WES) were performed to detect the potential pathogenic factors besides Karyotype (Online Resource 2). A novel mutation (c.734+1G>A) in the CTNNB1 gene was detected by WES and confirmed by Sanger sequencing (Fig. 1b).

To our interest, we learned that the proband’s mother has similar but slighter clinical manifestations (Fig. 1c; Online Resource 3). She was invited to our hospital for detailed examinations. She was 49 years old with ID (IQ score 40) and had similar neurological clinical manifestations (Fig. 2a, b) and unremarkable brain MRI and EEG. Ophthalmologic examination indicated impaired visual acuity (logarithmic visual acuity chart 0.08 in OD and 0.1 in OS) and esotropia. Fundus fluorescein angiography was then performed and displayed the exudative vitreoretinopathy (EVR) on the temporal side in both of her eyes (Fig. 2c). Sanger sequencing was carried out and confirmed the same splice mutation (c.734+1G>A) in the CTNNB1 gene in the proband’ s mother (Fig. 1c).

Fig. 2.

Photographs of proband’s mother and her fundus fluorescein angiography, expected effects on amino acid sequences, and protein functionality. a and b The proband’s mother had similar but slighter abnormal craniofacial features like a grimace, esotropia, rotation of the head, and ataxic gait. c Fundus fluorescein angiography showed exudative vitreoretinopathy on the temporal side in both eyes of proband’s mother. Red boxes, exudative vitreoretinopathy. d Amino acid sequences of the wild-type (WT) and mutation (MU) showed the mutation leading to truncation of amino acid by Clustal Omega. Three-dimensional modeling of the normal CTNNB1 protein (left) and mutant CTNNB1 protein (right) using PyMol software

Online Resource 3.

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The splice mutation (c.734+1G>A) on CTNNB 1 gene has not been reported by any research or recorded by any related gene mutation database, such as HGMD, Clinvar, and LOVD and leads to a truncated CTNNB1 protein of 245 in comparison with the wide-type sequence of 781 amino acids. We performed three-dimensional modeling change of the truncated CTNNB1 protein (Fig. 2d), which loses the very important functional domain interactive with BCL9 (B cell CLL/lymphoma 9) and SCRIB indicated by Unipro database. As BCL9 and SCRIB both participate in the Wnt signaling pathway, so we infer that the splice mutation (c.734+1G>A) affect the structure and function of a β-catenin protein which may influence the Wnt signaling pathway and causing a series of clinical manifestations. So, our further research should elucidate how the mutation affects the function of β-catenin and the precise pathogenic molecular mechanisms.

Discussion

The CTNNB1 gene encodes a β-catenin protein which is a central component of the cadherin/catenin complex. β-catenin protein participates in cell adhesion and nuclear signaling which mainly involves in the Wnt protein-mediated signal pathway. Previous studies declare CTNNB1 mutation is related to several cancers such as hepatocellular carcinoma, medulloblastoma, ovarian cancer, and pilomatricoma [1]. It was firstly connected to ID since 2012 by De Ligt J [2] and then, a series of studies report more than 20 loss-function-mutations of the CTNNB1 gene which may lead to ID [6]. As known, human β-catenin contains 781 amino acids and is subdivided into three domains: an amino-terminal domain (NTD), a central region containing 12 armadillo (ARM) repeats (residues 138–664), and a carboxy-terminal domain (CTD). However, by which mechanism, the truncated protein identified by this study may influence the Wnt signaling; it is worth further research.

Phenotypic characteristics of CTNNB1 mutation patients include ID, postnatal microcephaly, mild craniofacial particularities, and neurological disorders such as peripheral hypertonia, motor, and language development delay (Online Mendelian Inheritance in Man, OMIM# 615075). Mild visual disturbances were also reported such as astigmatism, hyperopia, and strabismus. Our case also indicated similar features but the proband suffers from complete retinal detachment and her mother also has severely impaired visual acuity. Panagiotou et al. found the CTNNB1 gene can result in exudative vitreoretinopathy with no neurological disorders [7]. However, one 3-year-old Chinese boy initially presented with EVR showed facial dysmorphism and global developmental delay during follow-up and WES identified a de novo 1-bp insertion (c.1434_1435insC, Glu479ArgfsTer18) in CTNNB1 gene (OMIM *116806.0023). Niu Li et al. also reported a 15-month-old Chinese boy with retinal detachment and development delay, who was negative for mutation related to the exudative vitreoretinopathy but a heterozygous nonsense mutation (c.1627C>T, p. Gln558X) in CTNNB1 gene was found [6]. Combined with our case, we suppose that CTNNB1 gene mutation not only can cause ID or EVR singly but also may synchronously result in these series phenotypes.

In conclusion, our study identifies a novel heterozygous splice mutation in the CTNNB1 gene (c.734+1G>A) in a Chinese family with both severe ID and visual disturbances. It helps to expand the mutant spectrum of the CTNNB1 gene and confirms that different types of mutation in CTNNB1 may be associated with ID and visual disturbances.

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.

Ethical approval

All procedures performed in studies involving human participants were in accordance with the ethical standards of the institutional and national research committee and with the 1964 Helsinki Declaration and its later amendments or comparable ethical standards.

Informed consent

Written informed consent was obtained from all individual participants included in the study for photograph and publication.