Table 2.
Normalized mean relative expression of selected prostaglandin-synthetic and receptor-associated genes in rat ONH and retina. Illumina sequence data for ONH are based on Deseq2-normalized (log2-fold relative levels) expressed in ONH RNA from individual naïve, mean naïve (n = 5), rAION-vehicle-induced and rAION-PGJ2-treated animals, using a cutoff of <3.4. Normalization is based on Trimmed Mean Values (TMM) and normalized by EdgeR-cpm function with a cutoff of 2. Naïve retina (retina-N) and ischemic retina (retina-Isch) are from [19] and expressed in counts per million (CPM). The ratio of expression in ischemic retina/sham retina values are shown in the last column. The main CNS-expressed form of prostaglandin D2 synthetic gene (PTGDS) which gives rise to PGJ2 is expressed at extremely high levels in ONH, and in moderately high levels in retina, while the gene for microsomal PGE2 synthesis (PTGES2) was higher in ONH than cytosolic PGE2 synthesis (PTGES3), while this pattern was reversed in retina. There was no ONH expression of synthetic genes for either PGF2 or PGI (prostacyclin). Genes for downstream prostaglandin H synthesis from arachidonic acid (COX1/PTGS1 and COX2/PTGS2) were expressed at moderately high levels in ONH, but at extremely low levels in the retina in both naïve and ischemic conditions. NF: not found.
| Gene Symbol | Gene Name | ONH-1 | ONH-2 | ONH-3 | ONH-4 | ONH-5 | Mean Naïve | Veh-rAION | PGJ2-rAION | Veh/Naïve | Veh/PGJ2 | Ret-Sham (CPM) | Ret-Isch (CPM) | Ret-Isch/Ret-Sham |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Ptgds | prostaglandin D2 synthase | 15.98822 | 16.79986 | 18.33136 | 16.76294 | 17.63618 | 17.54915 | 17.10371 | 16.80383 | 1.02604 | 1.04435 | 323.16894 | 255.03599 | 0.78917 |
| Hpgds | hematopoietic prostaglandin D synthase | 5.56447 | 5.58306 | 6.58374 | 5.64267 | 5.48511 | 6.28145 | 5.77181 | 5.81564 | 1.08830 | 1.08010 | 0.85582 | 0.67756 | 0.79171 |
| Ptges | prostaglandin E synthase | 7.02457 | 6.58184 | 7.60527 | 6.82481 | 7.68730 | 7.14567 | 7.14476 | 7.08125 | 1.00013 | 1.00910 | 1.25531 | 18.48897 | 14.72862 |
| Ptges2 | prostaglandin E synthase 2 | 9.96166 | 9.70580 | 9.48162 | 9.83855 | 8.73850 | 9.24443 | 9.54522 | 9.58994 | 0.96849 | 0.96397 | 33.61580 | 37.41490 | 1.11302 |
| Ptges3 | prostaglandin E synthase 3-cytosolic | 7.67189 | 7.46936 | 8.18863 | 7.39734 | 8.40670 | 7.97795 | 7.82678 | 8.16406 | 1.01931 | 0.97720 | 404.75993 | 371.05767 | 0.91674 |
| Ptges3l1 | prostaglandin E synthase 3-like 1 | 8.35512 | 7.86037 | 7.92716 | 7.59559 | 7.68333 | 7.47952 | 7.88431 | 7.20205 | 0.94866 | 1.03853 | 34.94840 | 27.50432 | 0.78700 |
| Ptges3l | prostaglandin E synthase 3 like | 7.67189 | 7.46936 | 8.18863 | 7.39734 | 8.40670 | 7.97795 | 7.82678 | 8.16406 | 1.01931 | 0.97720 | NF | NF | NF |
| Ptgs1/Cox1 | prostaglandin-endoperoxide synthase 1 | 9.76256 | 9.44712 | 11.15517 | 9.28240 | 9.87118 | 10.00541 | 9.90368 | 9.79640 | 1.01027 | 1.02134 | 0.45581 | 5.75307 | 12.62153 |
| Ptgs2/Cox2 | prostaglandin-endoperoxide synthase 2 | 7.22716 | 7.34416 | 7.54500 | 8.28609 | 9.78677 | 9.66859 | 8.03784 | 9.10447 | 1.20288 | 1.06196 | 0.45155 | 1.88256 | 4.16913 |
| Ptgfr | prostaglandin F receptor | 12.25038 | 12.60656 | 11.73813 | 12.51715 | 12.54528 | 13.07791 | 12.33150 | 13.09570 | 1.06053 | 0.99864 | 0 | 1.99707 | 0 |
| Ptgr2 | prostaglandin reductase 2 | 12.75745 | 12.36159 | 12.25462 | 12.05000 | 11.79029 | 11.52081 | 12.24279 | 11.10647 | 0.94103 | 1.03731 | 5.63482 | 41.96967 | 7.44827 |
| Ptgdrl | prostaglandin D2 receptor-like | 6.14142 | 6.50112 | 7.51399 | 6.14764 | 7.29350 | 6.94778 | 6.71953 | 6.65179 | 1.03397 | 1.04450 | NF | NF | NF |
| Ptgdr2 | prostaglandin D2 receptor 2 | 5.32453 | 5.97640 | 6.11997 | 6.27199 | 7.58084 | 6.83036 | 6.25474 | 7.13510 | 1.09203 | 0.95729 | NF | NF | NF |
| Ptger1 | prostaglandin E receptor 1 | 5.67510 | 6.13244 | 6.52818 | 6.95166 | 6.01387 | 6.94449 | 6.26025 | 6.78540 | 1.10930 | 1.02344 | 0 | 0.29343 | 0 |
| Ptger2 | prostaglandin E receptor 2 | 5.93095 | 5.54944 | 7.38904 | 5.90408 | 7.01148 | 6.93787 | 6.35700 | 6.28318 | 1.09137 | 1.10420 | 0 | 0 | 0 |
| Ptger3 | prostaglandin E receptor 3 | 5.56447 | 5.12102 | 6.11997 | 4.69013 | 3.66247 | 5.58335 | 5.03161 | 5.72828 | 1.10965 | 0.97470 | NF | NF | NF |
| Ptger4 | prostaglandin E receptor 4 | 5.67510 | 5.04621 | 3.66247 | 5.83632 | 5.36677 | 6.78596 | 5.11737 | 6.81983 | 1.32606 | 0.99503 | 0 | 0.207717 | 0 |
| Ptgfrn | prostaglandin F2 receptor inhibitor | 5.56447 | 5.12102 | 6.11997 | 4.69013 | 3.66247 | 5.58335 | 5.03161 | 5.72828 | 1.10965 | 0.97470 | 73.28975 | 66.36605 | 0.90553 |
| Ptgir | prostaglandin I2 receptor | 5.85502 | 6.32898 | 5.98393 | 6.38106 | 7.36330 | 7.69776 | 6.38246 | 7.76910 | 1.20608 | 0.99082 | 0 | 0.88028 | 0 |
| Ptgr1 | prostaglandin reductase 1 | 8.21237 | 8.89242 | 9.85389 | 7.87723 | 9.15406 | 8.89142 | 8.79800 | 8.93364 | 1.01062 | 0.99527 | 32.70928 | 36.26502 | 1.10871 |