Table IV. Proteomics discoveries are validated in the literature. Quantification via MSE-based proteomics shows agreement with several previously reported responses of Chlamydomonas to various metal-deficiency growth conditions.
| Model IDa | Gene name | Description | Experimental conditionb | Δc | Evidenced | Reference | ||
|---|---|---|---|---|---|---|---|---|
| Cu | R | D | – | |||||
| Cre03.g182551 | PCY1 | Plastocyanin | 1271 ± 200 | n.d. | – | ↓ | IB | 23 |
| Cre16.g651050 | CYC6 | Cytochrome c6 | n.d. | 283 ± 41 | – | ↑ | IB, RNA-Seq | 13, 23 |
| Cre02.g085450 | CPX1 | Coprogen III oxidase | 94 ± 43 | 940 ± 136 | – | ↑ | IB, RNA-Seq | 13, 44 |
| Cre09.g393150 | FOX1 | Ferroxidase | 13 ± 5 | n.d. | – | ↓ | IB | 44, 48 |
| Cre17.g700950 | FDX5 | Ferredoxin 5 | n.d. | 7 ± 2 | – | ↑ | IB, RNA-Seq | 13, 15 |
| Zn | R | D | L | |||||
| Cre04.g223100 | CAH1 | Carbonic anhydrase | 171 ± 81 | n.d. | n.m. | ↓ | qPCR | Unpublished data |
| 117458 | ZCP1 | COG0523 domain | n.d. | 1588 ± 226 | n.m. | ↑ | qPCR | 21 |
| Fe | R | D | L | |||||
| Cre09.g387800 | FER1 | Pre-apoferritin | 22 ± 2 | 68 ± 15 | 53 ± 11 | ↑ | IB, qPCR | 16 |
| Cre12.g546550 | FEA1 | Fe-assimilating protein | 124 ± 21 | 735 ± 34 | 1356 ± 115 | ↑ | IB, qPCR | 14 |
| Cre12.g546600 | FEA2 | Fe-assimilating protein | n.d. | 97 ± 16 | 512 ± 77 | ↑ | IB, qPCR | 14 |
| Cre14.g626700 | PETF | Ferredoxin | 87 ± 35 | 30 ± 27 | n.d. | ↓ | IB, qPCR | 15 |
| Cre06.g306350 | FDX3 | Ferredoxin 3 | n.d. | n.d. | 45 ± 7 | ↑ | IB | 15 |
| Cre09.g393150 | FOX1 | Ferroxidase | n.d. | 11 ± 1 | 25 ± 21 | ↑ | IB | 48 |
| Cre16.g676150 | MSD3 | Mn superoxide dismutase | n.d. | 10 ± 3 | 73 ± 21 | ↑ | A, IB, qPCR | 19, 20 |
| Cre06.g257601 | PRX1 | 2-Cys peroxiredoxin | 839 ± 77 | 834 ± 70 | 1042 ± 54 | ↑ | SILAC, IB | 17 |
| Mn | R | D | L | |||||
| Cre02.g096150 | MSD1 | Mn superoxide dismutase | 48 ± 48 | n.d. | n.d. | ↓ | A, qPCR | 20 |
| Cre16.g676150 | MSD3 | Mn superoxide dismutase | n.d. | n.d. | 27 ± 3 | ↑ | qPCR | 20 |
| Cre02.g132800 | PSBO | Oxygen-evolving enhancer protein 1 | 1056 ± 276 | 1235 ± 298 | 1730 ± 447 | ↑ | IB | 20 |
| Cre12.g550850 | PSBP1 | Oxygen-evolving enhancer protein 2 | 1589 ± 176 | 2296 ± 259 | 2013 ± 817 | ↑ | IB | 20 |
| Cre08.g372450 | PSBQ | Oxygen evolving enhancer protein 3 | 655 ± 120 | 807 ± 281 | 788 ± 360 | ↑ | IB | 20 |
Protein abundance is reported in the “Experimental Condition” column in zmol/cell.
n.d., not detected; n.m., not measured; ↓, decrease; ↑, increase; IB, immunoblot; A, activity; SILAC, stable isotope labeling of amino acids in cell culture.
a Reported by Augustus 10.2 identifiers or, if an Augustus 10.2 model does not exist, by FM3.1 identifiers.
b R, metal replete; D, metal deficient; L, metal limited.
c Response reported as the change observed in the micronutrient-deficient condition relative to the replete status.
d Type of evidence available.