Novel homozygous frameshift insertion variant in the last exon of the EDARADD causing hypohidrotic ectodermal dysplasia in two siblings: case report and review of the literature

Abstract

Background

Hypohidrotic ectodermal dysplasia (HED) is a genetic disorder that results in the abnormal development of structures derived from ectodermal tissue. This rare condition predominantly affects the hair, nails, eccrine glands, and teeth. While HED can be caused by various genes, the EDA, EDAR, EDARADD, and WNT10A genes account for approximately 90% of cases. Notably, HED forms associated with variants in the EDA, EDAR, or EDARADD genes may exhibit similar phenotypes due to defects in a common signaling pathway. Proper interaction among the products of these genes is crucial for the activation of the nuclear factor (NF-κB) signaling pathway, which subsequently regulates the transcription of targeted genes. The EDARADD gene, in particular, harbors one of the rarest reported variants associated with HED.

Case presentation

Five-and two-years-old brothers born into consanguineous parents were examined at our outpatient medical genetics clinic at Sanliurfa Training and Research Hospital, Turkey. Both displayed the same classical phenotypic features of HED. The elder had a very sparse dark and brittle hair, sparse eyebrows and eyelashes, conical upper and lower premolar teeth with hypodontia, widely spaced teeth, very dry skin, mildly prominent forehead, and periorbital wrinkles. The younger one showed the same, but less severe, clinical features. After thorough examination and patient history evaluation, targeted next-generation sequencing analysis yielded the novel homozygous insertion variant c.322_323insCGGGC p.(Arg108ProfsTer7) in EDARADD. The mutation has not been reported to date in the literature.

Conclusions

In this report, we present two siblings exhibiting classical HED symptoms and a novel insertion variant of the EDARADD gene, which leads to a frameshift introducing a stop codon. Both brothers inherited such mutation from their parents, who were heterozygous carriers of the same variant. The present study may shed light about the pathogenic mechanisms underlying HED, and expand the spectrum of EDARADD gene variants associated with this condition.

Background

Ectodermal dysplasia (ED) is a genetically heterogeneous condition characterized by the abnormal development of structures derived from the ectodermal tissue [1]. Among its most frequent forms there are hypohidrotic and anhidrotic ectodermal dysplasias (HED/AED), which present a triad of symptoms, including scalp alopecia or sparse hair (generalized hypotrichosis), teeth anomalies, and hypohidrosis. In addition, some patients may also exhibit minor dysmorphic features such as forehead bumps, rings under the eyes, everted nose, and prominent lips. Several genes have been implicated in the pathogenesis, with the most commonly identified genetic aetiologies being X-linked EDA mutations, as well as autosomal EDAR and EDARADD mutations. Proper function of these three genes and their products is crucial for downstream activation of the nuclear factor (NF-κB), which subsequently regulates the expression of various genes involved in ectodermal development [2].

EDARADD is a recently identified gene that encodes a protein with a death domain in the C-terminus, causing HED with an unclear mechanism [3]. Indeed, the number of reported variants in EDARADD remains relatively small, and the majority of these variants are single nucleotide variations. We report on a novel insertion pathogenic variant causing a frameshift of the EDARADD gene [4,5,6,7]. This variant has been identified, in the homozygous state, in two male siblings born to healthy consanguineous parents. To the best of our knowledge, ours are among the very few patients reported in the literature being affected by HED associated with a pathogenic variant of the EDARADD gene.

Case Presentation

Five- and two-year-old brothers were born uneventfully, into consanguineous (first-degree cousins) parents originating from Syria (Fig. 1b). Both showed the same classical phenotypic features of HED. The elder brother presented with very dry skin, very sparse dark and brittle hair, sparse eyebrows and eyelashes, mildly prominent forehead, periorbital wrinkles, conical upper and lower premolar tooth with hypodontia, and widely spaced teeth (Fig. 1a). His developmental milestones and mental status were normal. The younger sibling displayed slightly milder symptoms, with very sparse blonde hair, a mildly prominent forehead, and teeth anomalies similar to those of the elder brother (Fig. 1a), for which both were receiving dental treatment. The family reported that both brothers have been unable to sweat since birth, and that they had experienced hyperpyrexia due to common infections, successfully managed with medications during hospitalizations. Owing to their reduced ability to sweat, the parents ensured the siblings’ protection from sun by sunscreen use. Notably, both parents denied having any relatives with a similar condition, and further examination confirmed that the remaining three living siblings (1 male, 2 females), and the parents themselves, showed no signs of HED.

Fig. 1

Pictures of affected individuals, pedigree, sequencing display, and representation of reported variants respectively (a) Dysmorphic features of the proband (above) and affected younger brother (below). Note the very sparse and brittle hair, absent eyebrows and eyelashes, conical teeth with hypodontia, mildly prominent forehead, and periorbital wrinkles (b) Pedigree of the family (c) Sanger sequencing display of the proband and heterozygous mother, flanking sequence of the variant. Black rectangle appoints the position of insertion (d) Schematic diagram of reported variants. Truncating variants written in red, non-truncating variants in black and the reported variant in brown. Protein region encoded by exon 6 magnified and death domain highlighted with different colour. Note the reported variants position in 5’ upstream of death domain in exon 6

Informed consent was obtained from the parents. The EDA, EDAR, WNT10A, and EDARADD genes were sequenced through NGS following manufacturer’s instructions. Thereafter, Sanger sequencing was conducted, confirming the identified variant, in all family members.

Next-generation sequencing (NGS) analysis did not reveal any causative variants in the EDA, EDAR, or WNT10A genes. However, in the EDARADD gene (RefSeq accession number NM_145861), a homozygous pentanucleotide insertion, c.322_323insCGGGC (p.Arg108ProfsTer7), leading to a frameshift which introduces a premature stop codon, was identified and considered likely pathogenic in both siblings, based on the American College of Medical Genetics criteria (PVS1-Pathogenic criterion for predicted loss of function variants, PM2-Population data, PP1-Segregation data). This variant was absent in the Exome Aggregation Consortium and dbSNP database. Subsequent Sanger sequencing was performed in all family members, confirming the homozygosity status in the affected patients. Co-segregation analysis revealed that both parents and one health male sibling were heterozygous carriers of the same mutation (Fig. 1c).

Discussion and conclusions

Ectodermal dysplasia is a genetically and phenotypically heterogeneous condition characterized by the abnormal development of ectodermal derived structures. Although there have been a few other genes reported in individuals with ED-related findings, for hypohidrotic ectodermal dysplasia (HED) four main genes, namely EDA (the most common), in addition to EDAR, WNT10A, and EDARADD, have been suggested to be causative [8,9,10,11]. Neonatologists and paediatricians should raise the suspicion of HED in the presence of congenital skin defects, keeping in mind that such disorder may also be linked with mutations different than those affecting the EDA gene, including EDARADD [12]. Moreover, both recessive and dominant forms of HED caused by EDARADD mutations are clinically indistinguishable, and therefore in these cases genetic investigations are decisive for diagnosis confirmation [3, 7, 13]. Indeed, our patients exhibited the triad of symptoms characteristic of HED, including very sparse and brittle hair, teeth anomalies and reduced sweating. Finally, clinicians have to perform a careful differential diagnosis, including conditions sustained by different genetic aetiology such as mutation in TP63 [14].

In our study, we conducted next-generation sequencing of EDARADD, and identified a homozygous variant c.322_323insCGGGC p.(Arg108ProfsTer7) causing a frameshift, and located 5’ upstream of the death domain in exon 6. Such variant has not been previously reported in HED individuals, and data from large population studies is insufficient to assess its frequency. The mutation is an insertion of 5 bases at position c.322, and is expected to impact the protein, made by 215 amino acids in its wild type, introducing a premature termination codon at position 108.

Further studies confirmed co-segregation of the variant in the parents, and identified the heterozygous state in a healthy brother. Based on the segregation analysis, we concluded that this variant causes the recessive form of the disease, as no other family member exhibited symptoms related to HED.

To date, ten different mutations in EDARADD have been associated with HED, with only three of these being deletion or insertion [4, 5, 7, 8, 15,16,17,18,19], and different possible molecular pathogenic mechanisms have been hypothesized (disruption of the interaction with EDAR; impairment of the wild-type EDARADD ability to activate NF-kB, disturbance of the multimerization of EDARADD). Additionally, a homozygous gross deletion c.131-?_189+?del was reported with a loss-of-function mechanism.

Zygosity-position-mutation type does not seem to consistently predict the severity of the condition. Published literature is not conclusive in regard to the pathogenic mechanism of EDARADD, probably due to very low number of reported variants. However, the loss-of-function mechanism has been considered as a causing process of the disease linked to EDARADD [16, 17]. This may be due to the loss of protein through nonsense mediated mRNA decay (NMD), leading to the production of truncated proteins that are missing the death domain in exon 6 (highly conserved among species, suggesting its essential function) [20].

Three previous reported variants causing premature termination codons, as shown in Table 1, are predicted to go NMD. Since the present variant is not predicted to go NMD but removes more than 10% of transcript, this might be the first truncating variant causing termination codon and not going NMD. Therefore, the predicted molecular pathogenic mechanism is the translation of mRNA containing a premature stop codon, and the production of truncated proteins that are missing the death domain in exon 6. The reported variant is located in the 5’ upstream sequence of the death domain (Fig. 1d), probably leading to its deficient or absent translation. Also, the phenotypic variability of the syndrome may be explained by different conditions such as modifier genetic variations, possible interactions with regulatory factors and/or the involvement of epigenetic mechanisms in addition to EDARADD pleiotropy, which has already been described in the literature regarding other genes [21, 22].

Table 1 Reported variants, variant types and references in EDARADD with the transcript NM_145861 by their position on transcript. Homozygotes written in bold, reported variant is in bold and italic. Last column shows phenotypic features of reported probands

In conclusion, our study identified a novel homozygous insertion variant in EDARADD, causing autosomal recessive HED. The segregation analysis strongly supported the recessive inheritance model. Although further studies are needed, our report expands the understanding of the disease, highlighting how genetic testing plays a pivotal role in molecular diagnosis and family risk assessment, also in light of the clinical indistinguishability of the various forms of HED.