TABLE 1:
The molecular interactions in our proposed nutrient signaling model.
| Variable | Regulators | Targets |
|---|---|---|
| Carbon | Model input | Cyr1, Ras |
| Glutamineext | Model input | Glutamine |
| NH4 | Model input | Glutamine |
| Proline | Model input | Glutamine |
| Glutamine | Glutamineext, NH4, proline | TORC1, EGOC |
| Ras | Glucose ( Colombo et al., 2004), PKA ( Jian et al., 2010) | Cyr1 |
| Cyr1 | Ras, glucose ( Mbonyi et al., 1988) | cAMP |
| cAMP | Cyr1, PDE ( Ma et al., 1999) | PKA |
| PKA | cAMP ( Colombo, 1998), Sch9 ( Zhang and Gao, 2012) | Gis1, Dot6, Sak1, PDE, Mig1, Tps1, trehalase, Ras |
| PDE | PKA ( Colombo, 1998) | cAMP |
| EGOC | Glutamine, N sources, EGOGAP ( Stracka et al., 2014) | TORC1 |
| EGOGAP | Glutamine, TORC1 ( Hatakeyama and Virgilio, 2016) | EGOC |
| TORC1 | Glutamine, EGOC, EGOGAP, Snf1 ( Hallett et al., 2014) | Sch9, Gln3, Rtg1/3 |
| Sch9 | TORC1 ( Urban et al., 2007) | PKA, Dot6, Gis1, Gcn2 |
| Sak1 | PKA ( Nicastro et al., 2015b) | Snf1 |
| Snf1 | Sak1, carbon ( Nicastro et al., 2015a) | Mig1, Gln3, Cyr1 |
| Gis1 | PKA, Sch9 ( Pedruzzi et al., 2000) | Post–diauxic shift genes |
| Mig1 | Snf1 ( Welkenhuysen et al., 2017), PKA (via Reg1/Glc7) ( Castermans et al., 2012) | Fermentation |
| Gln3 | Snf1, TORC1 ( Bertram et al., 2002) | NCR genes |
| Rtg1/3 | TORC1 ( Crespo et al., 2002) | Retrograde genes |
| Gcn2 | Sch9 ( Cherkasova and Hinnebusch, 2003), Snf1 ( Cherkasova et al., 2010) | Gcn4 |
| Gcn4 | tRNA, Gcn2, glutamine ( Hinnebusch, 2005) | Amino acid biosynthesis genes |
| Dot6 | Sch9, PKA ( Virgilio and Loewith, 2006a) | RIBI |
| Tps1 | PKA ( Hirimburegama et al., 1992) | Model output |
| Nth1 | PKA ( Hirimburegama et al., 1992) | Model output |
| Rib | Dot6 ( Chaillot et al., 2019) | Model output |
For each model variable, the corresponding upstream regulators and downstream targets are listed.