| Literature DB >> 32484805 |
Yan Liu1, Zhennan Xu1, Tao Jin1, Ke Xu1, Mingfa Liu1, Haixiong Xu1.
Abstract
BACKGROUND The extent of glioma resection influences the overall survival (OS) and progression-free survival (PFS). Ferroptosis is a newly recognized type of cell death, which may be associated with low-grade glioma border detection and OS. This study is assessed an optimized ferroptosis gene panel for glioma treatment. MATERIAL AND METHODS We obtained 45 reports on ferroptosis-related proteins in PubMed and conducted a statistical test of the patients' overall survival (OS) in the TCGA GBMLGG and CGGA databases. The statistically significant genes were screened for an optimal panel, followed by GO and KEGG analysis and evaluated its correlation with known prognostic factors of glioma, including IDH1 mutation, methylated MGMT, tumor purity, 1p/19q LOH, and methionine cycle. RESULTS Eight genes panel (ALOX5, CISD1, FTL, CD44, FANCD2, NFE2L2, SLC1A5, and GOT1) were highly related to OS (P<0.001) and PFS (P<0.001) of low-grade glioma (LGG) patients, out of which 6 genes (ALOX5, CISD1, CD44, FTL, FANCD2, and SLC1A5) were correlated with IDH1_p.R132H (P<0.001) and 5 genes (ALOX5, CD44, FTL, NFE2L2, SLC1A5) showed a correlation with tumor purity (P<0.001). Five genes (ALOX5, CD44, CISD1, FTL, and SLC1A5) were associated with methylated MGMT (P<0.001), out of which 6 genes (ALOX5, CD44, FANCD2, NFE2L2, SLC1A5, and GOT1) had significantly different expression in healthy brain tissue vs. glioma (P<0.001). CONCLUSIONS Our panel of 8 ferroptosis genes showed a significant correlation with the diagnostic and prognostic factors of low-grade glioma and can be applied in neuroradiology and surgery.Entities:
Mesh:
Substances:
Year: 2020 PMID: 32484805 PMCID: PMC7291787 DOI: 10.12659/MSM.921947
Source DB: PubMed Journal: Med Sci Monit ISSN: 1234-1010
Clinical information from TCGA GBMLGG and CGGA datasets. All the cases had complete data on OS and age.
| TCGA | CGGA | |||
|---|---|---|---|---|
| GBM | LGG | GBM | LGG | |
| Male | 363 | 284 | 138 | 110 |
| Female | 230 | 230 | 99 | 70 |
| Average age (yr) | 58 | 43 | 49 | 39 |
| Median OS (d) | 369 | 678 | 378 | 1326 |
Eighteen ferroptosis-related proteins associated with the overall survival in one or several grades of glioma, out of which 3 genes (ALOX5, CISD1, FTL) were tightly associated with overall survival in low-grade glioma (LGG). The statistical analysis was based on a non-parametric test.
| Gene symbol | Protein name | Subcellular | TCGA GBMLGG | CGGA ALL Grade | TCGA GBM | CGGA GBM | TCGA LGG | CGGA Grade II |
|---|---|---|---|---|---|---|---|---|
| ACSF2 | Medium-chain acyl-CoA ligase ACSF2 | Mitochondrion | 1 | 0 | 0 | 0 | 1 | 0 |
| ACSL4 | Long-chain-fatty-acid-CoA ligase 4 | Plasma membrane, Endoplasmic reticulum, Peroxisome, Mitochondrion | 1 | 0 | 0 | 0 | 0 | 0 |
| AKR1C1 | Aldo-keto reductase family 1 member C1 | Cytoplasm | 1 | 1 | 0 | 0 | 1 | 0 |
| ALOX12 | Arachidonate 12-lipoxygenase, 12S-type | Cytosol | 0 | 0 | 0 | 0 | 0 | 0 |
| ALOX12B | Arachidonate 12-lipoxygenase, 12R-type | Cytoplasm | 1 | 1 | 0 | 0 | 0 | 0 |
| ALOX15 | Arachidonate 15-lipoxygenase | Plasma membrane, Cytosol | 0 | 0 | 0 | 0 | 0 | 0 |
| ALOX15B | Arachidonate 15-lipoxygenase B | Nucleus, Plasma membrane, Cytoskeleton, Cytosol | 1 | 0 | 0 | 0 | 1 | 1 |
| ALOX5 | Arachidonate 5-lipoxygenase | Nucleus | 1 | 1 | 0 | 0 | 1 | 1 |
| ALOXE3 | Hydroperoxide isomerase ALOXE3 | Cytoplasm | 1 | 1 | 0 | 0 | 0 | 0 |
| ATP5G3 | ATP synthase F(0) complex subunit C3 | Mitochondrion | 1 | 0 | 0 | 0 | 0 | 0 |
| CARS | Cysteine--tRNA ligase | Cytoplasm | 0 | 0 | 0 | 0 | 0 | 0 |
| CBS | Cystathionine beta-synthase | Nucleus, Cytoplasm | 0 | 1 | 0 | 0 | 0 | 0 |
| CD44 | CD44 antigen | Cell membrane | 1 | 1 | 0 | 0 | 1 | 0 |
| CHAC1 | Glutathione-specific gamma-glutamylcyclotransferase 1 | Golgi apparatus, Cytosol | 1 | 0 | 0 | 0 | 0 | 0 |
| CISD1 | CDGSH iron-sulfur domain-containing protein 1 | Mitochondrion | 1 | 1 | 0 | 0 | 1 | 1 |
| CS | Citrate synthase | Mitochondrion | 0 | NA | 0 | 0 | 0 | NA |
| DPP4 | Dipeptidyl peptidase 4 | Extracellular region or secreted, Plasma membrane | 1 | 1 | 0 | 0 | 1 | 0 |
| EMC2 | ER membrane protein complex subunit 2 | Nucleus | 1 | 0 | 0 | 0 | 0 | 0 |
| FANCD2 | Fanconi anemia group D2 protein | Nucleus | 1 | 1 | 0 | 0 | 1 | 0 |
| FPN1/SLC40A1 | Solute carrier family 40 member 1 | Plasma membrane | 1 | 0 | 0 | 0 | 0 | 0 |
| FTH1 | Ferritin heavy chain | Cytosol, Extracellular region or secreted, Lysosome, Nucleus | 1 | 0 | 0 | 0 | 1 | 0 |
| FTL | Ferritin light chain | Cytosol, Extracellular region or secreted, Lysosome, Nucleus | 1 | 1 | 0 | 0 | 1 | 1 |
| GCLC | Glutamate--cysteine ligase catalytic subunit | Cytosol | 1 | 0 | 0 | 0 | 1 | 0 |
| GLS2 | Glutaminase liver isoform | Mitochondrion | 0 | 1 | 0 | 0 | 0 | 0 |
| GOT1 | Aspartate aminotransferase | Cytoplasm | 1 | 1 | 0 | 0 | 0 | 1 |
| GPX4 | Phospholipid hydroperoxide glutathione peroxidase | Mitochondrion | 1 | 0 | 0 | 0 | 0 | 0 |
| GSS | Glutathione synthetase | Cytosol, Extracellular region or secreted | 1 | 0 | 0 | 0 | 1 | 0 |
| HMGCR | 3-hydroxy-3-methylglutaryl-coenzyme A reductase | Endoplasmic reticulum | 0 | 0 | 0 | 0 | 0 | 0 |
| HSPB1 | Heat shock protein beta-1 | Nucleus, Cytoskeleton | 1 | 1 | 0 | 0 | 1 | 0 |
| HSPB5/CRYAB | Alpha-crystallin B chain | Nucleus | 1 | 1 | 0 | 0 | 1 | 0 |
| IREB2 | Iron-responsive element-binding protein 2 | Cytoplasm | 0 | 0 | 0 | 0 | 0 | 0 |
| LPCAT3 | Lysophospholipid acyltransferase 5 | Endoplasmic reticulum | 1 | 0 | 0 | 0 | 1 | 0 |
| MT1G | Metallothionein-1G | Nucleus | 0 | 0 | 0 | 0 | 0 | 0 |
| NCOA4 | Nuclear receptor coactivator 4 | Lysosome | 1 | 0 | 0 | 0 | 1 | 0 |
| NFE2L2 | Nuclear factor erythroid 2-related factor 2 | Nucleus, Cytosol | 1 | 0 | 0 | 0 | 0 | 0 |
| PTGS2 | Prostaglandin G/H synthase 2 | Endoplasmic reticulum | 1 | 1 | 0 | 0 | 1 | 0 |
| RPL8 | 60S ribosomal protein L8 | Cytoplasm | 0 | 0 | 0 | 0 | 0 | 0 |
| SAT1 | Diamine acetyltransferase 1 | Cytoplasm | 1 | 1 | 0 | 0 | 1 | 0 |
| SLC11A2 | Natural resistance-associated macrophage protein 2 | Plasma membrane, Endosome, Mitochondrion, Plasma membrane | 1 | 0 | 0 | 0 | 0 | 0 |
| SLC1A5 | Neutral amino acid transporter B(0) | Cell membrane | 1 | 1 | 0 | 0 | 1 | 0 |
| SLC3A2 | 4F2 cell-surface antigen heavy chain | Lysosome, Plasma membrane | 1 | 0 | 0 | 0 | 1 | 0 |
| SLC7A11 | Cystine/glutamate transporter | Membrane | 1 | 0 | 0 | 0 | 0 | 0 |
| SQS/FDFT1 | Squalene synthase | Endoplasmic reticulum | 1 | 1 | 0 | 0 | 0 | 0 |
| TFRC | Transferrin receptor protein 1 | Plasma membrane | 1 | 1 | 0 | 0 | 1 | 0 |
1 represents P<0.001 while 0 represents P>0.001.
Figure 1The affinity propagation algorithm of GO and KEGG indicated that the lipoxygenase pathway and carboxylic acid metabolic process (Exemplar) were the critical pathways of 45 proteins.
Five (ALOX5, CD44, FANCD2, NFE2L2, and SLC1A5) of 18 proteins showed a positive tendency with the pathological grade (p<0.001), and GOT1 showed a negative tendency with the pathological grade (p<0.001). Nine out of 18 proteins were highly expressed in astrocytoma (p<0.001), 3 out of 18 proteins were highly expressed in oligodendroglioma (p<0.001), and 6 out of 18 proteins were not correlated to the pathological types. Thirteen out of 18 proteins were associated with tumor purity (p<0.001). Expression conditions of the more extended OS group in 16 out of 18 proteins were the same as IDH1 and pR132H mutation group (p<0.001). Ten out of 18 proteins were significantly associated with the 1p/19q co-deletion (p<0.001).
| LGG | GBM | Histology | Tumor purity | IDH1_p.R132H (TCGA LGG) | Long OS | 1p/19q LOH | |
|---|---|---|---|---|---|---|---|
| AKR1C1 | NA | − | High | ||||
| ALOX12B | NA | NA | > | > | High(GBMLGG) | ||
| ALOX15B | NA | NA | > | Low | |||
| ALOX5 | + | ++ | > | > | Low | ||
| CD44 | + | ++ | > | > | Low | ||
| CISD1 | NA | NA | > | High | |||
| DPP4 | NA | NA | > | Low | |||
| FANCD2 | + | ++ | Low | ||||
| FTL | NA | ++ | > | > | Low | ||
| GOT1 | − | −− | > | High(GBMLGG) | |||
| HSPB1 | NA | + | > | Low | t | ||
| HSPB5/CRYAB | ++ | + | High | **(CODEL<NON–CODEL) | |||
| NFE2L2 | + | ++ | > | > | Low | **(CODEL<NON–CODEL) | |
| PTGS2 | NA | NA | > | Low(GBMLGG) | |||
| SAT1 | NA | + | > | > | Low | ||
| SLC1A5 | + | ++ | > | > | Low | ||
| SQS/FDFT1 | NA | NA | > | > | High(GBMLGG) | ||
| TFRC | NA | + | > | Low |
N – normal brain tissue from GTEx; NA – no alternation; +/++ – increase, −/−− – decrease; A – astrocytoma; OA: oligoastrocytoma; O – oligodendroglioma; wt – wild-type; mut – mutation; wt>/
p>0.1;
p<0.001.
Figure 2(A) 5 of 8 genes in the ptimazed panel including ALOX5, CD44, CISD1, FTL, SLC1A5 were significantly associated to the methylation state of MGMT. CISD1 shows a positive correlation (P<0.001) while the other four genes negative (P<0.001). (B) ALOX5, CD44, FTL, NFE2L2, SLCA5 were negative correlated to the tumor purity (P<0.001). (C) The optimazed panel was statistically associated to the 2 key enzymes of methionine cycle, MAT2A and SAHH (P<0.001).
Figure 3(A) The optimized panel was effective in predicting the OS and PFS of low-grade glioma (P<0.001). It was useless in predicting the OS of glioblastoma but might be potentially used for predicting the PFS of glioblastoma (P=0.017). (B): ALOX5, CD44, FANCD2, NFE2L2, and SLC1A5 were increased in glioma, especially in GBM (P<0.001), while GOT1 was decreased in glioma (P<0.001).