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. 2023 Aug 28;15(16):8026-8043.
doi: 10.18632/aging.204947. Epub 2023 Aug 28.

NDUFB11 and NDUFS3 play a role in atherosclerosis and chronic stress

Yin Yang  1 , Jing-Hui Li  1 , Bo-Chen Yao  1 , Qing-Liang Chen  1 , Nan Jiang  1 , Lian-Qun Wang  1 , Zhi-Gang Guo  1
Affiliations

NDUFB11 and NDUFS3 play a role in atherosclerosis and chronic stress

Yin Yang et al. Aging (Albany NY). .

Abstract

Objective: Atherosclerosis is characterized by the formation of fibrofatty plaques in the intima of arteries, resulting in thickening of the vessel wall and narrowing of the lumen. Chronic stress refers to individuals in a state of long-term chronic stress. However, the relationship between NDUFB11 and NDUFS3 and atherosclerosis and chronic stress is unclear.

Method: The atherosclerosis with chronic stress group data file was used. DEGs were screened and WGCNA was performed. Construction and analysis of PPI Network. Functional enrichment analysis, GSEA, gene expression heatmap, immune infiltration analysis and mRNA analysis were performed. CTD was used to find diseases most related to core genes. WB was performed. TargetScan was used to screen miRNAs of DEGs.

Results: 1708 DEGs were identified. According to GO analysis, they were mainly enriched in catabolic processes, organic acid metabolism processes, carboxylic acid metabolism processes. KEGG analysis showed that they were mainly enriched in metabolic pathways, fatty acid metabolism, pentose phosphate pathway, glycolysis / gluconeogenesis, fructose and mannose metabolism. Gene expression heatmap showed that the core genes (NDUFB11, NDUFS3) were lowly expressed in samples of those with atherosclerosis accompanied by chronic stress and highly expressed in the normal samples. NDUFB11 and NDUFS3 were associated with necrosis, hyperplasia, inflammation, renal disease, weight loss, memory impairment, and cognitive impairment. WB showed that the expression level of NDUFS3 in atherosclerosis and chronic stress was lower than that in control group.

Conclusions: NDUFB11 and NDUFS3 are underexpressed in atherosclerosis and chronic stress; the lower NDUFB11 and NDUFS3 levels, the worse the prognosis.

Keywords: NDUFB11; NDUFS3; atherosclerosis; bioinformatics; chronic stress.

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Conflict of interest statement

CONFLICTS OF INTEREST: The authors have no conflicts of interest to declare.

Figures

Figure 1
Figure 1
Analysis of differentially expressed genes. 1708 DEGs were identified.
Figure 2
Figure 2
Functional enrichment analysis. (A–D) DEGs (E–H) GSEA.
Figure 3
Figure 3
Metascape enrichment analysis. (A) Purine nucleotide metabolic process, monocarboxylate metabolic process, amino acid metabolism were found in GO enrichment items in the enrichment items of metascape (B) output the enrichment network colored by enrichment terms (C) output the enrichment network colored by p-value.
Figure 4
Figure 4
Metascape enrichment analysis. Visualize the association and confidence representing each enrichment item. (A) Protein-protein interact by the Metascape. (B) The significant modules.
Figure 5
Figure 5
WGCNA. (A) β=6, 0.70 (B) β=6, 163.48 (C) A hierarchical clustering tree of all genes was constructed, and 3 significant modules were generated (D) Interactions between these modules were then analyzed (E) Generated a module to phenotype correlation Heatmap (F) GS to MM correlation scatter plot of the associated hub genes.
Figure 6
Figure 6
Construction and analysis of protein-protein interaction (PPI) networks. (A) The PPI network (B) DMNC algorithm was adopted to identify the core genes (C) MCC algorithm was adopted to identify the core genes (D) Venn diagram.
Figure 7
Figure 7
Gene expression heatmap. Visualized the expression Heatmap of the core genes in the samples.
Figure 8
Figure 8
Immune infiltration analysis. (A) Obtained the proportion results of immune cells from the full gene expression matrix (B) the immune cell expression Heatmap in the dataset (C) performed the correlation analysis on infiltrated immune cells, resulting in a plot of co expression patterns among immune cell components.
Figure 9
Figure 9
The mRNA analysis. Performed KEGG analysis on these differentially expressed genes to obtain relevant enrichment items.
Figure 10
Figure 10
The mRNA analysis (A) PPI network (B, C) using two algorithms (MCC, MNC) to identify hub genes (D) Venn diagram to obtain a Union.
Figure 11
Figure 11
CTD analysis. The core genes NDUFB11 and NDUFS3 were found to be associated with necrosis, hyperplasia, inflammation, renal disease, weight loss, memory impairment, and cognitive impairment.
Figure 12
Figure 12
The expression level of NDUFS3 in the atherosclerosis and chronic stress groups was lower than that in the control group.
See this image and copyright information in PMC

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