A meta-analysis of the effects of early life stress on the prefrontal cortex transcriptome suggests long-term effects on myelin

Duan, T. Q.; Hagenauer, M. H.; Flandreau, E. I.; Bader, A.; Nguyen, D. M.; Maras, P. M.; Merscher Sobriera De Lima, R.; Gyles, T.; Mclain, C.; Meaney, M. J.; Nestler, E. J.; Watson, S. J.; Akil, H.

doi:10.1101/2024.11.22.624315

bioRxiv · 10.1101/2024.11.22.624315

A meta-analysis of the effects of early life stress on the prefrontal cortex transcriptome suggests long-term effects on myelin

Duan, T. Q.·Hagenauer, M. H.·Flandreau, E. I.·Bader, A.·Nguyen, D. M.·Maras, P. M.·Merscher Sobriera De Lima, R.·Gyles, T.·Mclain, C.·Meaney, M. J.·Nestler, E. J.·Watson, S. J.·Akil, H.

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Abstract

BackgroundEarly life stress (ELS) refers to exposure to negative childhood experiences, such as neglect, disaster, and physical, mental, or emotional abuse. ELS can permanently alter the brain, leading to cognitive impairment, increased sensitivity to future stressors, and mental health risks. The prefrontal cortex (PFC) is a key brain region implicated in the effects of ELS. MethodsTo better understand the effects of ELS on the PFC, we ran a meta-analysis of publicly available transcriptional profiling datasets. We identified five datasets (GSE89692, GSE116416, GSE14720, GSE153043, GSE124387) that characterized the long-term effects of multi-day postnatal ELS paradigms (maternal separation, limited nesting/bedding) in male and female laboratory rodents (rats, mice). The outcome variable was gene expression in the PFC later in adulthood as measured by microarray or RNA-Seq. To conduct the meta-analysis, preprocessed gene expression data were extracted from the Gemma database. Following quality control, the final sample size was n=89: n=42 controls & n=47 ELS: GSE116416 n=23 (no outliers); GSE116416 n=44 (2 outliers); GSE14720 n=7 (no outliers); GSE153043 n=9 (1 outlier), and GSE124387 n=6 (no outliers). Differential expression was calculated using the limma pipeline followed by an empirical Bayes correction. For each gene, a random effects meta-analysis model was then fit to the ELS vs. Control effect sizes (Log2 Fold Changes) from each study. ResultsOur meta-analysis yielded stable estimates for 11,885 genes, identifying five genes with differential expression following ELS (false discovery rate< 0.05): transforming growth factor alpha (Tgfa), IQ motif containing GTPase activating protein 3 (Iqgap3), collagen, type XI, alpha 1 (Col11a1), claudin 11 (Cldn11) and myelin associated glycoprotein (Mag), all of which were downregulated. Broadly, gene sets associated with oligodendrocyte differentiation, myelination, and brain development were downregulated following ELS. In contrast, genes previously shown to be upregulated in Major Depressive Disorder patients were upregulated following ELS. ConclusionThese findings suggest that ELS during critical periods of development may produce long-term effects on the efficiency of transmission in the PFC and drive changes in gene expression similar to those underlying depression. Graphical Abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=101 SRC="FIGDIR/small/624315v1_ufig1.gif" ALT="Figure 1"> View larger version (22K): org.highwire.dtl.DTLVardef@1619926org.highwire.dtl.DTLVardef@8da510org.highwire.dtl.DTLVardef@14feffcorg.highwire.dtl.DTLVardef@114aae3_HPS_FORMAT_FIGEXP M_FIG C_FIG Key PointsO_LIEarly life stress (ELS) can have long-term effects on the prefrontal cortex (PFC) and its related cognitive and emotional functions. C_LIO_LITo elucidate these long-term effects, we conducted a meta-analysis of five publicly available PFC transcriptional profiling datasets from adult rodents that had previously experienced ELS. C_LIO_LIThis meta-analysis revealed a consistent downregulation of myelin-related genes in the PFC following ELS, and an upregulation of genes related to Major Depressive Disorder. C_LI Plain Language SummaryEarly life stress refers to exposure to negative childhood experiences, such as neglect, disaster, and physical, mental, or emotional abuse. Early life stress can permanently alter the brain, including the prefrontal cortex, which can lead to cognitive and emotional dysfunction that lasts into adulthood. We performed a meta-analysis using five public datasets to identify consistent long-term effects of early life stress on gene expression (mRNA) in the prefrontal cortex of adult rodents. In these studies, rodents that had experienced early life stress consistently showed a decreased amount of mRNA for genes related to myelin. Myelin is the fatty layer that insulates the axons of neurons, allowing them to transmit electrical signals more efficiently. These gene expression changes may suggest long-term effects of early life stress on the efficiency of prefrontal neurotransmission, disrupting cognitive and emotional processing.

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Duan, T. Q., Hagenauer, M. H., Flandreau, E. I., Bader, A., Nguyen, D. M., Maras, P. M., Merscher Sobriera De Lima, R., Gyles, T., Mclain, C., Meaney, M. J., Nestler, E. J., Watson, S. J., Akil, H.. 2024-11-24. A meta-analysis of the effects of early life stress on the prefrontal cortex transcriptome suggests long-term effects on myelin. https://doi.org/10.1101/2024.11.22.624315

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