| Literature DB >> 35770250 |
Jacob K Player1, Sean M Riordan1, R Scott Duncan1, Peter Koulen1,2.
Abstract
Introduction: Glaucoma is the second leading cause of blindness worldwide and despite its prevalence, there are still many unanswered questions related to its pathogenesis. There is evidence that oxidative stress and inflammation play a major role in disease progression. Glaucoma patients from several studies showed altered gene expression in leukocytes, revealing the possibility of using peripheral biomarkers to diagnose or stage glaucoma. The fact that glaucoma is associated with gene expression changes in tissues distant from the retina underscores the possible involvement of systemic oxidative stress and inflammation as potential contributing or compounding factors in glaucoma.Entities:
Keywords: expression analysis; in silico analysis; inflammation; peripheral blood mononuclear cells
Year: 2022 PMID: 35770250 PMCID: PMC9236525 DOI: 10.2147/OPTH.S364739
Source DB: PubMed Journal: Clin Ophthalmol ISSN: 1177-5467
Glaucoma Biomarker Gene Catalogue
| Biomarker Gene | Literature Reference | Change in Expression (↑↓)/Seq. Variant (*)/Autoantibody Target (#) | Cell/Tissue Type |
|---|---|---|---|
| Golubnitschaja & Flammer 2007 | ↑ | Blood, aqueous humor | |
| Tezel et al, 2012 | ↑, # | Retina | |
| Nath et al, 2017 | ↑ | Leukocytes | |
| Tezel et al, 2012 | # | Serum | |
| Golubnitschaja & Flammer, 2007 | ↑ | Leukocytes | |
| Bhattacharya et al, 2013 | * | Review | |
| Ghaffariyeh et al, 2011 | ↓ | Serum | |
| Tezel et al, 2012 | # | Serum | |
| Beutgen et al, 2019 | ↓ | Serum | |
| Nath et al, 2017 | ↓ | Plasma | |
| Bhattacharya et al, 2013 | * | Review | |
| Bhattacharya et al, 2013 | * | Review | |
| Tezel et al, 2012 | ↑, # | Serum | |
| Golubnitschaja & Flammer, 2007 | ↑ | Leukocytes | |
| Bhattacharya et al, 2013 | * | Blood | |
| Schmelter et al, 2017 | * | Blood | |
| Schmelter et al, 2017 | * | Blood | |
| Schmelter et al, 2017 | * | Blood | |
| Fourgeux et al, 2009 | * | Blood | |
| Tezel et al, 2012 | # | Serum | |
| Tezel et al, 2012 | ↑,# | Serum | |
| Beutgen et al, 2019 | # | Serum | |
| Sun et al, 2020 | ↑ | Aqueous humor | |
| Nath et al, 2017 | ↑ | Plasma | |
| Bhattacharya et al, 2013 | * | Review | |
| Nath et al, 2017 | ↓ | Aqueous humor, Serum | |
| Beutgen et al, 2019 | # | Serum | |
| Beutgen et al, 2019 | # | Serum | |
| Tezel et al, 2012 | # | Serum | |
| Nath et al, 2017 | ↑ | Blood | |
| Golubnitschaja & Flammer, 2007 | ↑ | Leukocytes | |
| Bhattacharya et al, 2013 | * | Review | |
| Nath et al, 2017 | ↑ | Plasma | |
| Golubnitschaja & Flammer, 2007 | ↑ | Leukocytes | |
| Golubnitschaja & Flammer, 2007 | ↑ | Leukocytes | |
| Tezel et al, 2012 | # | Serum | |
| Tezel et al, 2012 | # | Serum | |
| Tezel et al, 2012 | # | Serum | |
| Golubnitschaja & Flammer, 2007 | ↑ | Leukocytes | |
| Beutgen et al, 2019 | ↑, # | Serum | |
| Bhattacharya et al, 2013 | * | Review | |
| Nath et al, 2017 | ↓ | Aqueous humor, Serum | |
| Nath et al, 2017 | ↓ | Serum | |
| Golubnitschaja & Flammer, 2007 | – | Leukocytes | |
| Bhattacharya et al, 2013 | * | n/a | |
| Beutgen et al, 2019 | # | Serum | |
| Sun et al, 2020 | ↑ | Aqueous humor | |
| Beutgen et al, 2019 | # | Serum | |
| Golubnitschaja & Flammer, 2007 | ↑ | Leukocytes | |
| Golubnitschaja & Flammer, 2007 | ↓ | Leukocytes |
Notes: Two reviews and 9 original research articles were used to identify potential glaucoma biomarkers. Column two indicates the reference for each gene identified in a study of human glaucoma patients. Column three indicates additional information from the study as follows: upregulated with glaucoma (↑), downregulated with glaucoma (↓), presence of a sequence variant (*), targeted by autoantibodies (#). Column four indicates the type of sample collected for each study or if the reference was from a review article. Please note that the majority of these samples were not collected from eye tissue.
(VL-) Log2 Fold-Changes in Poly I:C-Responsive Glaucoma Biomarker Genes
| Gene Symbol | Protein | Cell Population | FDR | Avg VL- Log2 FC |
|---|---|---|---|---|
| Glutathione peroxidase 1 | PBMC | 3.54E-17 | −2.32 | |
| Growth arrest-specific protein 7 | PBMC | 6.53E-21 | −2.08 | |
| Matrix metalloproteinase-9 | PBMC | 9.35E-04 | −1.66 | |
| Phospholipid-transporting ATPase ABCA1 | PBMC | 1.45E-03 | −1.34 | |
| Phospholipid hydroperoxide glutathione peroxidase | PBMC | 1.61E-12 | −1.17 | |
| Glutathione peroxidase 3 | PBMC | 2.79E-13 | −1.08 | |
| Phospholipid hydroperoxide glutathione peroxidase | PBMC | 8.93E-13 | −1.05 | |
| Growth arrest-specific protein 7 | Macrophage | 1.77E-05 | −0.74 | |
| Catalase | PBMC | 2.49E-11 | −0.66 | |
| Catalase | PBMC | 2.05E-07 | −0.54 | |
| Neural cell adhesion molecule 1 | PBMC | 4.14E-08 | 0.48 | |
| Nuclear factor NF-kappa-B p105 subunit | PBMC | 7.18E-11 | 0.55 | |
| Tyrosine-protein kinase ITK/TSK | PBMC | 1.69E-06 | 0.76 | |
| Heat shock 70 kDa protein 1B | PBMC | 5.71E-07 | 0.78 | |
| 60 kDa heat shock protein, mitochondrial | PBMC | 1.57E-09 | 0.88 | |
| Endothelin-1 | PBMC | 3.10E-10 | 1.13 | |
| Heat shock 70 kDa protein 1B | Macrophage | 6.21E-10 | 1.29 |
Notes: List of genes identified as having a significant (<0.05) P-value in the (VL-) and (VL+) groups. Criteria for selection included being present on the list of genes from Table 1 and having a P-value < 0.05.
Abbreviation: PBMC, peripheral blood mononuclear cells.
Comparison of the Fold-Changes from the (VL-) and (VL+) Groups
| Gene Symbol | Protein | Cell Population | Avg VL- Log2 FC | Avg VL+ Log2 FC | Δ Log2 FC | P-value |
|---|---|---|---|---|---|---|
| Endothelin-1 | PBMC | 1.13 | 1.98 | −0.86 | 0.0009 | |
| Catalase | PBMC | −0.66 | −1.3 | 0.64 | 0.001 | |
| Phospholipid-transporting ATPase ABCA1 | PBMC | −1.34 | −0.5 | −0.85 | 0.0276 | |
| Catalase | PBMC | −0.54 | −0.85 | 0.31 | 0.0307 | |
| Neural cell adhesion molecule 1 | PBMC | 0.48 | 0.79 | −0.31 | 0.0329 | |
| Glutathione peroxidase 1 | PBMC | −2.32 | −2 | −0.32 | 0.0377 |
Notes: List of genes identified as having a significant difference in expression between the (VL-) and (VL+) groups. Criteria for selection included being present on the list of genes from Table 1 and having a P-value < 0.05.
Abbreviations: FC, fold change; PBMC, peripheral blood mononuclear cells.
Figure 1Regions of the eye expressing glaucoma biomarker genes found to be responsive to Poly(I:C) challenge in peripheral blood samples. Regions of the eye are listed along with the encoded proteins likely to affect them from the differentially expressed genes identified in Table 2. Differentially expressed genes were detected using microarray analysis of PBMCs taken from human blood samples of patients infected with HCV and then challenged with poly(I:C). Red indicates decreased PBMC gene expression compared to baseline in response to poly(I:C) challenge, while green indicates increased expression compared to baseline. Please note that the expression levels were not found in the regions indicated in the figure and do not represent them. That is beyond the scope of the current study. The regional classifications demonstrate areas where glaucoma-related immune response genes/proteins may be investigated in future studies.