Table 1.
The new extended OAS cluster co-expression gene network from ATTED-II
| Gene name | AGI code | No. of genes connected | GO terms | Reference |
|---|---|---|---|---|
| FAD binding barberine | AT4G20820 | 2 | Sulfur metabolism | Depuydt and Vandepoele (2021) |
| SDI2 | AT1G04770 | 8 | Sulfur metabolism | Maruyama-Nakashita et al. (2005) |
| SULTR4;2 | AT3G12520 | 7 | Sulfur metabolism | Kataoka et al. (2004) |
| APR3 | AT4G21990 | 7 | Sulfur metabolism | Bick and Leustek. (1998) |
| LSU1 | AT3G49580 | 6 | Sulfur metabolism | Maruyama-Nakashita et al. (2005); Sirko et al. (2015) |
| LSU3 | AT3G49570 | 4 | Sulfur metabolism | Depuydt and Vandepoele (2021) |
| APR2 | AT1G62180 | 4 | Sulfur metabolism | Setya et al. (1996) |
| LSU2 | AT5G24660 | 3 | Sulfur metabolism | Sirko et al. (2015) |
| APR1 | AT4G04610 | 3 | Sulfur metabolism | Setya et al. (1996); Bick et al. (1998); Koprivova et al. (2000) |
| SULTR1;2 | AT1G78000 | 3 | Sulfur metabolism | Rouached et al. (2005, 2008) |
| ChaC-like/GGCT2;1 | AT5G26220 | 7 | Sulfur metabolism, glutathione process | Paulose et al. (2013) |
| SERAT3;2 | AT4G35640 | 4 | Sulfur metabolism, cysteine | Kawashima et al. (2005) |
| SDI1 | AT5G48850 | 16 | Sulfur metabolism, carbon metabolism, transcription | Maruyama-Nakashita et al. (2005) |
| SHM7 | AT1G36370 | 12 | Sulfur metabolism, carbon metabolism, methionine process | Huang et al. (2016) |
| NmrA-like protein | AT1G75280 | 3 | Response to oxidative stress biosynthesis | Babiychuk et al. (1995) |
| PQ loop repeat family protein | AT5G40670 | 3 | cysteine biosynthesis | Gaudet et al. (2011) |
| BGLU28 | AT2G44460 | 3 | Carbon metabolism, glucosinolate hydrolysis | Gaudet et al. (2011) |
| Pyridoxal phosphate (PLP) protein | AT1G77670 | 3 | Carbon metabolism, transaminase activity | Depuydt and Vandepoele (2021) |
| PYD4 | AT3G08860 | 3 | Response to nitrogen, transaminase activity | Zrenner et al. (2009) |
| SIP1;2 | AT5G18290 | 3 | Transporter activity | Ishikawa et al. (2005) |
| Transmembrane amino acid protein | AT3G56200 | 3 | Amino acid transporter activity | Gaudet et al. (2011) |
| hypothetical protein | AT2G32487 | 2 | Response to ABA | Depuydt and Vandepoele (2021) |
Summarizing table demonstrating information about the extended OAS cluster co-expression gene network from ATTED-II. The table provides information about the number of the genes to which each gene is connected in the network depicted in Fig. 2. SDI1 shows the highest connectivity between the network, connected with 16 genes out 22. This means that SDI1 is co-expressed with most of the genes existing in the network, throughout many transcriptomic experiments in A. thaliana. Additionally, information is provided about the GO terms of each gene. Most of the genes are involved in sulfur metabolism and sulfur response (SULTR, SERAT3;2, LSU, SDI, APR). Additionally, a few seem to be involved in carbon metabolism or GSL regulation (BGLU28), cysteine biosynthesis (PQ loop repeat family protein), oxidative stress (NmrA-like protein), or ABA response (hypothetical protein).