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Novel NSF gene variant linked to developmental and epileptic encephalopathy 96 in a fetusNew gene variant linked to rare fetal syndrome

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Key Takeaway
Consider NSF gene testing in fetuses with complex anomalies including neurological and hematological features.

This is a case report of a single fetus presenting with multiple prenatal anomalies, in whom a novel de novo heterozygous missense variant in the NSF gene [c.1055 A>G; p (Asn352Ser)] was identified. The variant is located in the D1 domain of NSF and was classified as likely pathogenic according to ACMG/AMP criteria. The report highlights a potential genetic basis for developmental and epileptic encephalopathy 96, expanding the phenotypic spectrum associated with NSF variants.

Prenatal ultrasound findings included increased nuchal fold thickness, left clubfoot, severe anemia with cardiac enlargement, and hepatosplenomegaly. These features suggest a complex fetal syndrome with both neurological and hematological involvement. The authors suggest considering NSF variants in the differential diagnosis of such presentations.

As a case report, the evidence is limited to a single fetus, and no control group or statistical analysis was performed. The authors note the small sample size as a limitation. The causality is supported by the likely pathogenic classification, but further studies are needed to confirm the association and understand the full clinical spectrum.

For clinicians, this report underscores the importance of genetic testing in fetuses with unexplained multiple anomalies, particularly when neurological and hematological abnormalities coexist. However, given the preliminary nature of this single-case observation, findings should be interpreted with caution.

In a single case report, researchers identified a new gene variant in the NSF gene that may be linked to a rare developmental and epileptic encephalopathy. The case involved a fetus with multiple prenatal anomalies, including increased nuchal fold thickness, left clubfoot, severe anemia with cardiac enlargement, and hepatosplenomegaly. Genetic testing found a novel de novo heterozygous missense variant, c.1055 A>G, p (Asn352Ser), in the D1 domain of the NSF gene. This variant was classified as likely pathogenic according to ACMG/AMP criteria.

The findings are based on only one case, so the evidence is very limited. This is a case report, not a large study, and it cannot prove that this variant causes the condition. However, it suggests that NSF variants might be considered when doctors encounter complex fetal syndromes with neurological and hematological abnormalities.

No safety concerns were reported in this case, but the fetus had severe anemia, which was a notable feature. The main limitation is the small sample size, as only one fetus was studied. Therefore, more research is needed to confirm the role of this variant.

For readers, this report is an early step in understanding a rare condition. It does not change current medical practice, but it may help guide future research and genetic counseling. If you have questions about genetic testing or prenatal findings, talk to your doctor.

What this means for you:
A new NSF gene variant was found in one fetus with severe prenatal anomalies, but more research is needed.

Common questions

What is the NSF gene variant?

The variant is a change in the NSF gene, specifically c.1055 A>G, which leads to a protein change called p (Asn352Ser). It was found in one fetus and is classified as likely pathogenic, meaning it may contribute to disease, but more evidence is needed.

What were the fetal abnormalities in this case?

The fetus had increased nuchal fold thickness, left clubfoot, severe anemia with cardiac enlargement, and hepatosplenomegaly. These were seen on prenatal ultrasound and are part of the reported phenotype.

Is this finding applicable to other cases?

This is a single case report, so the finding is not generalizable. It suggests that NSF variants might be considered in similar cases, but more research is needed to confirm any broader relevance.

Study Details

Study typeSystematic review
EvidenceLevel 1
PublishedAug 2026
View Original Abstract ↓
BackgroundDevelopmental and epileptic encephalopathy 96 (DEE96, OMIM 619340) is a rare autosomal dominant disorder caused by heterozygous variants in the NSF gene, encoding a key AAA + ATPase involved in SNARE-mediated membrane fusion. To date, only four pathogenic variants have been reported.MethodsTrio whole-exome-sequencing and Sanger validation were performed in a fetus presenting with multiple prenatal anomalies. Bioinformatic analyses and literature review were conducted to characterize genotype-phenotype correlations.ResultsWe identified a novel de novo heterozygous missense variant [c.1055 A>G; p (Asn352Ser)] in the D1 domain of NSF, classified as likely pathogenic per ACMG/AMP criteria. Prenatal ultrasound revealed increased nuchal fold thickness, left clubfoot, severe anemia with cardiac enlargement, and hepatosplenomegaly. Increased nuchal fold thickness and left clubfoot had not been previously documented in DEE96 cases. This represents the second prenatal diagnosis and fifth case overall.ConclusionOur findings expand the genotypic and phenotypic spectrum of DEE96, demonstrating that DEE96 manifests as a multisystem disorder with prenatal onset. The high incidence of severe anemia suggests hematological involvement may be a characteristic feature. These observations support considering NSF variants in the differential diagnosis of complex fetal syndromes with neurological and hematological abnormalities.
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