TABLE 3.
Proteome analysis
| Strain | Proteome methoda | Total protein loaded (mg) | No. of proteins identifiedb | Avg sequence coverage (%) |
|---|---|---|---|---|
| FUR2 | 1D 5 m/z | 5.0 | 490 | 19.78 |
| 2D 1 m/z | 0.5 | 765 | 17.95 | |
| 2D 2 m/z | 1.0 | 807 | 18.39 | |
| 1D 5 m/z | 5.0 | 555 | 21.90 | |
| WT | 2D 1 m/z | 0.5 | 611 | 18.13 |
| 2D 2 m/z | 1.0 | 673 | 18.20 | |
| Total | NAe | 1,104c | 19.06d |
Three different methods were used to analyze the proteomes of the fur deletion mutant (FUR2) and wild-type S. oneidensis strains: (i) 5 m/z refers to a five-part 1D-LC-MS/MS experiment, which involved five injections with four segmented m/z ranges and one full m/z range; (ii) 1 m/z refers to a single 2D-LC-MS/MS experiment that involved one injection and 11 subsequent salt steps analyzed by MS; (iii) 2 m/z refers to two 2D LC-MS/MS experiments, which included two injections each with 8 subsequent salt steps analyzed by MS over two m/z ranges.
At least one peptide per protein was detected with Xcorrs of at least 1.8 (+1), 2.5 (+2), and 3.5 (+3).
Sum of the numbers of nonredundant proteins identified for both WT and FUR2 samples.
Average sequence coverage per protein detected.
NA, not available.