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Association Study on Multi-Timepoint DNA Methylation Levels of Serotonin Transporter Gene and Adolescent
Tempei Ikegame1, Miki Bundo2, Daiki Nagaoka1
1Department of Neuropsychiatry, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.
Neuropsychopharmacology Reports
|December 4, 2025
Summary
DNA methylation in the SLC6A4 gene may indicate externalizing behaviors in adolescent males. This study tracked SLC6A4 methylation across three early adolescent time points, finding lower levels in males with persistent externalizing problems.
Area of Science:
- Epigenetics
- Developmental Psychology
- Neuroscience
Background:
- The SLC6A4 gene encodes the serotonin transporter, crucial for regulating synaptic serotonin levels.
- Adolescence is a critical period for neurodevelopment and the emergence of psychopathology.
- Previous research identified distinct psychopathological and behavioral clusters in adolescents using deep learning.
Purpose of the Study:
- To investigate the association between multi-timepoint DNA methylation levels of the SLC6A4 gene and psychopathological/behavioral clusters in early adolescence.
- To explore potential epigenetic markers for adolescent behavioral issues.
Main Methods:
- Genomic DNA was extracted from saliva samples of 122 adolescents at ages 11, 13, and 15.
- DNA methylation levels at functional CpG sites in the SLC6A4 promoter were measured using bisulfite pyrosequencing.
- Linear mixed-effects models analyzed associations between SLC6A4 methylation and five defined psycho-behavioral clusters.
Main Results:
- Males showed significantly lower SLC6A4 methylation levels than females across all measured time points.
- Adolescent males with persistent externalizing problems exhibited notably lower SLC6A4 methylation compared to those with minimal problems.
Conclusions:
- SLC6A4 DNA methylation may serve as an epigenetic signature for externalizing behavioral problems in adolescent males.
- This is the first study to longitudinally track SLC6A4 methylation from early to mid-adolescence.
- Further research is needed to elucidate the interplay of environmental and genetic factors in adolescent behavioral development.
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