Background
Childhood epilepsies are caused by heterogeneous underlying disorders where approximately 40% of the origins of epilepsy can be attributed to genetic factors. The application of next-generation sequencing (NGS) has revolutionized molecular diagnostics and has enabled the identification of disease-causing genes and variants in childhood epilepsies. The objective of this study was to use NGS to identify variants in patients with childhood epilepsy, to expand the variant spectrum and discover potential therapeutic targets.
Methods
In our study, 55 children with epilepsy of unknown etiology were analyzed by combining clinical-exome and whole-exome sequencing. Novel variants were characterized using various in silico algorithms for pathogenicity and structure prediction.
Results
The molecular genetic cause of epilepsy was identified in 28 patients and the overall diagnostic success rate was 50.9%. We identified variants in 22 different genes associated with epilepsy that correlate well with the described phenotype.
SCN1A
gene variants were found in five unrelated patients, while
ALDH7A1
and
KCNQ2
gene variants were found twice. In the other 19 genes, variants were found only in a single patient. This includes genes such as
ASH1L
,
CSNK2B
,
RHOBTB2
, and
SLC13A5
, which have only recently been associated with epilepsy. Almost half of diagnosed patients (46.4%) carried novel variants. Interestingly, we identified variants in
ALDH7A1
,
KCNQ2
,
PNPO
,
SCN1A
, and
SCN2A
resulting in gene-directed therapy decisions for 11 children from our study, including four children who all carried novel
SCN1A
genetic variants.
Conclusions
Described novel variants will contribute to a better understanding of the European genetic landscape, while insights into the genotype-phenotype correlation will contribute to a better understanding of childhood epilepsies worldwide. Given the expansion of molecular-based approaches, each newly identified genetic variant could become a potential therapeutic target.
Supplementary Information
The online version contains supplementary material available at 10.1007/s40291-024-00720-2.