One Gene Down, Brain Function Affected: Insights into Neurodevelopmental Disorders

One Gene Down, Brain Function Affected: Insights into Neurodevelopmental Disorders

Introduction

What happens when losing just one copy of a gene is enough to alter how the brain develops?

Most of us imagine severe genetic disorders coming from large mutations or missing chromosomes, not from a single under-expressed gene. This phenomenon, known as haploinsufficiency, plays a powerful role in shaping neurodevelopment and contributes to conditions ranging from intellectual disability to autism spectrum disorder.

In this article, we explore what haploinsufficient genes are, how they influence brain development, and why even small changes in gene dosage can have big effects on cognition, behaviour, and neural circuits.

Understanding haploinsufficiency matters because these genes help explain why some neurodevelopmental disorders arise, why symptoms vary so widely between individuals, and where future treatments may come from. Understanding the genetic makeup of neurodevelopmental disorders is important for researchers to come up with targeted gene therapy, allowing them to treat the disease early, limiting the cognitive damage among children. 

Neurodevelopmental Disorders and Haploinsufficient Genes

Neurodevelopmental disorders(NDDs) are a class of disorders affecting brain development and function. NDDs are characterised by an inability to reach cognitive, emotional, and motor developmental milestones. Some haplogenetic genes are responsible for these disorders. These genes fall into the category of highly vulnerable genes, and mutations affecting them are associated with a significantly increased risk of the disease. These genes include DEPDC5, CACNA1A, and SCN8A. However, these genes are subject to strong negative selection pressure and are categorised as rare variants associated with decreased risk and high penetrance.

The other end of the spectrum comprises those genes that are less sensitive to disruptive mutations and, therefore, are not subject to negative selective pressure that runs in families for generations. Single disruptive events affecting non-vulnerable genes contribute to the polygenic nature of NDD, alongside common genetic variants. In these cases, phenotypical outcomes not only depend on the sum of the effects of single mutations but also on the physical or functional interactions between the genes, a process called epistasis[1].

Example proof that one copy of a defective gene can lead to developmental problems. 

Deletion of the JARID 2 gene or a single-nucleotide variant of JARID2 leads to developmental delays in humans with learning difficulties. Other features include decreased bodily tone, autistic features, and aggressive behaviours[2]. 

Missing one copy of the genes named CHD2 and RGMA can lead to delays in speaking and motor functioning, walking abnormalities, abnormal facial features, autistic features with reduced or lack of attention. These individuals begin to have fits at 24 months of age. Not all people present similarly. How people present depends upon the interaction of affected genes with nearby genes[3].

Patients who inherited a copy of the EPHA gene from apparently normal parents experience a delay in speech and abnormal behaviours[4].

All the above examples are enough to show the importance of the phenomenon of a haploinsufficient gene causing developmental delays in children.

Future Perspective

Further genetic studies can unravel the complex aetiology and pathways underlying cognitive disorders and can provide a more practical approach to treating these patients. Another important issue is to focus on the extent to which gene expression varies according to the environment, opening the possibility of exploring gene-environment interactions. Understanding of this phenomenon can enable researchers to develop tools that can be used to diagnose these diseases early, leading to early intervention[5].


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References & Research

  1. Neurodevelopmental Disorders: From Genetics to Functional Pathways: Trends in Neurosciences n.d. https://www.cell.com/trends/neurosciences/fulltext/S0166-2236(20)30122-3 (accessed November 21, 2025).
  2. Verberne EA, Goh S, England J, van Ginkel M, Rafael-Croes L, Maas S, et al. JARID2 haploinsufficiency is associated with a clinically distinct neurodevelopmental syndrome. Genet Med 2021;23:374–83. https://doi.org/10.1038/s41436-020-00992-z.
  3. CHD2 haploinsufficiency is associated with developmental delay, intellectual disability, epilepsy and neurobehavioural problems | Journal of Neurodevelopmental Disorders n.d. https://link.springer.com/article/10.1186/1866-1955-6-9 (accessed December 10, 2025).
  4. Lévy J, Schell B, Nasser H, Rachid M, Ruaud L, Couque N, et al. EPHA7 haploinsufficiency is associated with a neurodevelopmental disorder. Clin Genet 2021;100:396–404. https://doi.org/10.1111/cge.14017.
  5. Bishop D v. m. Genes, Cognition, and Communication. Ann N Y Acad Sci 2009;1156:1–18. https://doi.org/10.1111/j.1749-6632.2009.04419.x.

Discussion

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