| Literature DB >> 36101331 |
Meiting Shi1, Xiaofeng Yang1, Yuzhen Ding1, Lu Sun1, Ping Zhang1, Mengyuan Liu1, Xiaoxue Han1, Zhengrui Huang1, Ruiman Li1.
Abstract
Preeclampsia (PE) is the leading cause of maternal and fetal mortality and morbidity. Early and accurate diagnosis is critical to reduce mortality. Placental oxidative stress has been identified as a major pathway to the development of PE. Ferroptosis, a new form of regulated cell death, is associated with iron metabolism and oxidative stress, and has been suspected to play a role in the pathophysiology of PE, although the mechanism is yet to be elucidated. The identification of potential ferroptosis-related biomarkers is of great significance for the early diagnosis and treatment of PE. A gene expression dataset of peripheral blood samples was downloaded from the Gene Expression Omnibus (GEO) dataset. Differentially expressed genes (DEGs) were filtrated with the R package "limma". Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses of the DEGs were then conducted. Ferroptosis-related DEGs were screened by overlapping the ferroptosis-related genes with DEGs. The protein-protein interaction (PPI) network was used to identify the key ferroptosis-related DEGs. Enzyme-linked immunosorbent assay (ELISA) was used to validate changes in the selected key ferroptosis-related DEGs. The correlations between the key genes and clinical and pathological characteristics were analyzed. Finally, the diagnostic value of these key genes for PE was confirmed by a receiver operating characteristic (ROC) curve. A total of 5913 DEGs were identified and 45 ferroptosis-related DEGs were obtained. Besides, ferroptosis-related pathways were enriched by KEGG using DEGs. The PPI network showed that p53 and c-Jun were the critical hub genes. ELISA showed that p53 in the serum of PE patients was higher than that of the control group, while c-Jun was lower than that of the control group. Analysis of the clinicopathological features showed that p53 and c-Jun were correlated with the PE characteristics. Finally, based on the area under curve (AUC) values, c-Jun had the superior diagnostic power (AUC = 0.87, p < 0.001), followed by p53 (AUC = 0.75, p < 0.001). Our study identified that two key genes, p53 and c-Jun, might be potential diagnostic biomarkers of PE.Entities:
Keywords: bioinformatics; diagnosis; ferroptosis; preeclampsia
Year: 2022 PMID: 36101331 PMCID: PMC9311911 DOI: 10.3390/biology11070950
Source DB: PubMed Journal: Biology (Basel) ISSN: 2079-7737
Demographic characteristics of the participants in this study.
| Variable | Control Group ( | PE Group ( | |
|---|---|---|---|
| Maternal age, y | 29 (26–33) | 29 (27–33) | 0.819 |
| Body mass index, kg/m2 | 21 (19–22) | 22 (20–25) | 0.006 |
| Parity, | 0.355 | ||
| Primipara | 32 (53) | 38 (63) | |
| Multipara | 28 (47) | 22 (37) | |
| History of the PE, | 3 (5) | 4 (7) | 1.000 |
| Chronic hypertension, | 0 (0) | 2 (3) | 0.496 |
| PGDM, | 2 (3) | 2 (3) | 1.000 |
| Antiphospholipid syndrome, | 1 (2) | 2 (3) | 1.000 |
| Preexisting kidney disease, | 0 (0) | 2 (3) | 0.496 |
| Familiar risk, | 1 (2) | 3 (5) | 0.619 |
| Systolic pressure, mmHg | 117 (112–126) | 161 (146−170) | <0.001 |
| Diastolic pressure, mmHg | 75 (71–79) | 98 (92–114) | <0.001 |
| MAP, mmHg | 89 (86–93) | 119 (111–132) | <0.001 |
| 24-h proteinuria, g/24 h | 0.05 (0.04–0.12) | 1.33 (0.64–3.43) | <0.001 |
| Gestational age at birth, d | 266 (255–276) | 259 (244–267) | <0.001 |
| Fetal birth weight, g | 3194 (2949–3275) | 2900 (2200–3200) | 0.002 |
| RDS, | 1 (2) | 16 (27) | <0.001 |
| NICU, | 1 (2) | 16 (27) | <0.001 |
Data are presented as the median (interquartile range) and mean ± standard deviation unless indicated as n (%). PE = preeclampsia; PGDM = pre-gestational diabetes mellitus; MAP = mean artery pressure; RDS = respiratory distress syndrome; NICU = neonatal intensive care unit. A p value < 0.05 was considered significant.
Figure 1Workflow of searching hub genes in PE.
Figure 2Identification of DEGs in the blood samples. (A) The volcanic maps. Red dots represent upregulated genes; blue dots represent downregulated genes, and gray dots represent no significance genes. (B) Heatmap for hierarchical clustering of DEGs in the control group and PE group.
Top 30 upregulated genes of the DEGs.
| Gene Symbol | Log2FC | |
|---|---|---|
| MIR3939 | 0.681836871 | 0.0000000065 |
| LOC105376568 | 0.459679751 | 0.0000000968 |
| TTN-AS1 | 0.168772851 | 0.0000003906 |
| STK24 | 0.084107410 | 0.0000009831 |
| INPP5A | 0.119524431 | 0.0000014759 |
| HSPC102 | 0.532569188 | 0.0000016817 |
| SMPD4BP | 0.090404584 | 0.0000053122 |
| LRRC37A4P | 0.206650798 | 0.0000090054 |
| PDPR2P | 0.154363661 | 0.0000144329 |
| ASB8 | 0.103036862 | 0.0000148492 |
| GLYR1 | 0.119425589 | 0.0000221570 |
| SLC25A6P2 | 0.127278093 | 0.0000262861 |
| ERV3-1 | 0.320543342 | 0.0000268127 |
| TOR1A | 0.132429450 | 0.0000346933 |
| WHAMMP1 | 0.216623800 | 0.0000359022 |
| LRRC37A17P | 0.271869224 | 0.0000371765 |
| DHDDS-AS1 | 0.132565620 | 0.0000379569 |
| MAX | 0.080250037 | 0.0000396618 |
| SELP | 0.188509826 | 0.0000471182 |
| RPS2P7 | 0.148369736 | 0.0000508025 |
| NQO2 | 0.178847959 | 0.0000565570 |
| FAM153A | 0.129231134 | 0.0000603660 |
| TNFSF14 | 0.132533146 | 0.0000616615 |
| PDPR | 0.225867791 | 0.0000652686 |
| SLC4A10 | 0.146662353 | 0.0000768642 |
| TAB3 | 0.127250551 | 0.0000785952 |
| COLQ | 0.070045308 | 0.0000844558 |
| PDLIM1 | 0.149533133 | 0.0000849043 |
| OR6K3 | 0.172019882 | 0.0000919229 |
| NFE4 | 0.219922283 | 0.0000964147 |
Top 30 downregulated genes of the DEGs.
| Gene Symbol | Log2FC | |
|---|---|---|
| FAM171B | −0.214300119 | 0.0000007277 |
| FOSB | −0.100125939 | 0.0000011258 |
| FLT1 | −0.095896809 | 0.0000016907 |
| FN1 | −0.074430719 | 0.0000025301 |
| RIMKLB | −0.057612207 | 0.0000136380 |
| MATN2 | −0.067397889 | 0.0000264791 |
| GPC4 | −0.079923918 | 0.0000285482 |
| LOC101928855 | −0.099017279 | 0.0000309617 |
| LOC644090 | −0.085740243 | 0.0000373470 |
| CDCA7 | −0.056959849 | 0.0000398187 |
| LOC101059954 | −0.078430951 | 0.0000413221 |
| LINC02487 | −0.078594043 | 0.0000481066 |
| ELOC | −0.037768067 | 0.0000496455 |
| NHLH2 | −0.066026726 | 0.0000582698 |
| LOC100506489 | −0.064018314 | 0.0000697048 |
| LOC107986383 | −0.077890143 | 0.0000722787 |
| TUBB6 | −0.080615791 | 0.0000987167 |
| PRG1 | −0.162206377 | 0.0001033506 |
| LINC00309 | −0.054808819 | 0.0001114693 |
| TCN2 | −0.099952456 | 0.0001141195 |
| LOC112267901 | −0.132601517 | 0.0001190145 |
| SERINC2 | −0.106660347 | 0.0001205236 |
| IER5L-AS1 | −0.084976169 | 0.0001325151 |
| LOC284912 | −0.091842494 | 0.0001444731 |
| CHRNB3 | −0.058923918 | 0.0001519665 |
| NR4A2 | −0.063301192 | 0.0001692061 |
| YEATS4 | −0.196128294 | 0.0001758740 |
| LINC02953 | −0.069851232 | 0.0001776020 |
| LOC101928517 | −0.077337704 | 0.0001810568 |
| SNORD114-7 | −0.075879892 | 0.0001837738 |
Figure 3GO and KEGG enrichment analyses of the DEGs. (A) Bubble plots of the biological process of the GO analysis. (B) Bubble plots of the molecular function of the GO analysis. (C) Bubble plots of the cellular component of the GO analysis. (D) Circle plot and network visualizing the biological process of the GO analysis. (E) Circle plot and network visualizing the molecular function of the GO analysis. (F) Circle plot and network visualizing the cellular component of the GO analysis. (G) Bubble plot of the KEGG pathway enrichment of the DEGs. (H) Circle plot and network visualizing the KEGG pathway.
Figure 4Identification of the ferroptosis-related DEGs and the identification of candidate ferroptosis-related hub genes in the blood samples of PE. (A) Venn diagram of the ferroptosis-related DEGs. (B) Heatmap depicting the expression levels of the top 20 ferroptosis-related DEGs. (C) PPI network analysis of the ferroptosis-related DEGs. (D) Ten hub genes were selected by the CytoHubba plug-in in Cytoscape.
Intersection of the DEGs and ferroptosis-related genes.
| Gene Symbol | Log2FC | |
|---|---|---|
| CS | 0.088024037 | 0.0013860456 |
| GPX4 | 0.127606332 | 0.0033606329 |
| DPP4 | 0.115610006 | 0.0041819650 |
| ANO6 | 0.092445408 | 0.0056013748 |
| NCF2 | 0.102692749 | 0.0106923591 |
| OXSR1 | 0.073276793 | 0.0132039673 |
| RPL8 | 0.070519563 | 0.0163624365 |
| EIF2AK4 | 0.051333877 | 0.0219376884 |
| TP53 | 0.061276552 | 0.0227802882 |
| ALOX12 | 0.090642503 | 0.0238840276 |
| G6PD | 0.06437918 | 0.0245358858 |
| ELAVL1 | 0.047106006 | 0.0257012638 |
| BECN1 | 0.054079622 | 0.0360843333 |
| SLC7A5 | 0.141674054 | 0.0444067288 |
| KLHL24 | 0.05860919 | 0.0484929326 |
| SLC1A4 | −0.046713571 | 0.0025230647 |
| CDO1 | −0.042790266 | 0.0021886411 |
| ALOXE3 | −0.052995436 | 0.0044745713 |
| ANGPTL7 | −0.053769764 | 0.0069292813 |
| JUN | −0.049405558 | 0.0081302033 |
| SOCS1 | −0.087858572 | 0.0098413330 |
| NOX4 | −0.027259999 | 0.0153337346 |
| NOS2 | −0.039584599 | 0.0194259690 |
| CDKN2A | −0.033970203 | 0.0216855291 |
| TSC22D3 | −0.044797939 | 0.0219355680 |
| MUC1 | −0.045560811 | 0.0225179167 |
| AURKA | −0.051276727 | 0.0233380462 |
| CHAC1 | −0.050305866 | 0.0235809423 |
| NQO1 | −0.036099395 | 0.0257095124 |
| TP63 | −0.026632072 | 0.0308774916 |
| GPT2 | −0.043220744 | 0.0311273224 |
| AIFM2 | −0.036737201 | 0.0329521820 |
| MT3 | −0.04429197 | 0.0335564152 |
| ACSF2 | −0.028855554 | 0.0337071772 |
| EGFR | −0.032015545 | 0.0353011283 |
| GDF15 | −0.0688667 | 0.0360222189 |
| ALOX12B | −0.04162569 | 0.0379310322 |
| MIOX | −0.039351283 | 0.0409310117 |
| NNMT | −0.044199194 | 0.0411587687 |
| TF | −0.027938216 | 0.0417271472 |
| CEBPG | −0.039507462 | 0.0428706382 |
| RRM2 | −0.061984651 | 0.0429017623 |
| AKR1C1 | −0.044489901 | 0.0430243813 |
| PROM2 | −0.037538817 | 0.0459449958 |
| DDIT4 | −0.044721922 | 0.0483266707 |
Figure 5Experimental verification of the two hub genes, correlation analysis between the hub genes’ expression levels and clinical features, and the diagnostic accuracy analysis. (A,B) The concentration of p53 (A) and c-Jun (B) in serum. (C,D) Pearson correlation plots between MAP and p53 (C) and c-Jun (D). (E,F) The ROC curves were plotted to examine the diagnostic potential of p53 (E) and c-Jun (F). *** p < 0.001.