Identification of a diagnostic model and molecular subtypes of major depressive disorder based on endoplasmic reticulum stress-related genes

Abstract

SubjectMajor depressive disorder (MDD) negatively affects patients’ behaviours and daily lives. Due to the high heterogeneity and complex pathological features of MDD, its diagnosis remains challenging. Evidence suggests that endoplasmic reticulum stress (ERS) is involved in the pathogenesis of MDD; however, relevant diagnostic markers have not been well studied. This study aimed to screen for ERS genes with potential diagnostic value in MDD.MethodsGene expression data on MDD samples were downloaded from the GEO database, and ERS-related genes were obtained from the GeneCards and MSigDB databases. Differentially expressed genes (DEGs) in MDD patients and healthy subjects were identified and then integrated with ERS genes. ERS diagnostic model and nomogram were developed based on biomarkers screened using the LASSO method. The diagnostic performance of this model was evaluated. ERS-associated subtypes were identified. CIBERSORT and GSEA were used to explore the differences between the different subtypes. Finally, WGCNA was performed to identify hub genes related to the subtypes.ResultsA diagnostic model was developed based on seven ERS genes: KCNE1, PDIA4, STAU1, TMED4, MGST1, RCN1, and SHC1. The validation analysis showed that this model had a good diagnostic performance. KCNE1 expression was positively correlated with M0 macrophages and negatively correlated with resting CD4+ memory T cells. Two subtypes (SubA and SubB) were identified, and these two subtypes showed different ER score. The SubB group showed higher immune infiltration than the SubA group. Finally, NCF4, NCF2, CSF3R, and FPR2 were identified as hub genes associated with ERS molecular subtypes.ConclusionOur current study provides novel diagnostic biomarkers for MDD from an ERS perspective, and these findings further facilitate the use of precision medicine in MDD.

The role of immune inflammatory response and inflammatory infiltrates in major depression disorder and atopic dermatitis: new insights from machine learning

“…The increase in eosinophils may be related to the inflammation and allergic characteristics of AD because they typically participate in allergic reactions and tissue inflammation(Naito & Kumanogoh, 2023). Interestingly, research has also found significant immune infiltration in MDD(S. Huang, Li, Shen, Liang, & Li, 2023). These findings provide a foundation and reference for future exploration of the association between AD and MDD.…”

Laboratory markers of depression: literature review

“…Следующей потенциальной группой биомаркеров для диагностики депрессии являются продукты синтеза генов KCNE1, PDIA4, STAU1, TMED4, MGST1, RCN1 и SHC1, связанных со стрессом эндоплазматического ретикулума (англ. endoplasmic reticulum stress; ERS) [17]. Представленные выше гены необходимы для нормального функционирования органеллы, так KCNE1 отвечает за формирование K + -каналов и формирование мембранного потенциала, KCNE1 модулирует нейрофизиологические механизмы восстановления после стресса -оказывает терапевтический эффект при депрессии.…”

“…Представленные выше гены необходимы для нормального функционирования органеллы, так KCNE1 отвечает за формирование K + -каналов и формирование мембранного потенциала, KCNE1 модулирует нейрофизиологические механизмы восстановления после стресса -оказывает терапевтический эффект при депрессии. В исследовании [17] уровень активности данного биомаркера значимо коррелировал с количеством CD4+ T-клеток памяти и макрофагов фенотипа M0. Также имеется связь между генетическими факторами и активацией иммунной системы, которая зачастую приводит к оксидативному стрессу, митохондриальной дисфункции, нейродегенерации, апоптозу нервных клеток [18].…”