Table 2. Distribution of the percentage of transcripts in each S cycling category, or collection of related pathways, that remained unclassified at the phylum-level.
| Sample/time point | No. S cycling reads | % of S cycling reads unclassified | % unclassified (phylum-level) in each S-cycling pathway | |||||
|---|---|---|---|---|---|---|---|---|
| Organic S metabolisma | Inorganic S assimilationb | Reductionc | Oxidationd | Disproportionatione | Transportf | |||
| 22:15 | 94 | 41.5 | 45.2 | 62.5 | 27.8 | 27.8 | 61.5 | 33.3 |
| 07:30 | 114 | 31.6 | 43.8 | 100.0 | 26.5 | 20.8 | 22.2 | 18.2 |
| 12:15 | 160 | 34.4 | 25.5 | 75.0 | 64.3 | 27.3 | 23.8 | 28.6 |
| Average | 35.8 | 38.1 | 79.2 | 39.5 | 25.3 | 35.9 | 26.7 | |
| StDev | 5.1 | 11.0 | 19.1 | 21.5 | 3.9 | 22.3 | 7.7 | |
Notes.
Organic S metabolisms pathways (and genes) include: alkanesulfonate utilization (alkanesulfonates binding protein); Organosulfatases (sulfatase); Taurine utilization (Gamma-glutamyl-transpeptidase, Taurine transport protein TauB, Taurine-pyruvate aminotransferase, and Taurine dioxygenase TauD); glutathione utilization (putative glutathione transporter).
Inorganic S assimilation pathways (and genes) include: inorganic S assimilation (3’(2’)5’-bisphosphate nucleotidase); sulfate activation to APS (assimilatory-type sulfate adenylyltransferase); APS activation for sulfonation (APS kinase); assimilatory sulfate reduction (assimilatory-type sulfite reductase).
Reduction pathways (and genes) include: DMSO degradation (DMSO reductase); dissimilatory sulfate reduction (dissimilatory-type sulfate adenylyltransferase, APS reductase, dissimilatory sulfite reductase); sulfur reduction I (H2:sulfur or NADH:sulfur oxidoreductase); Sulfur reduction II (polysulfide reductase), and tetrathionate reduction (tetrathionate reductase).
Oxidation pathways (and genes) include: sulfide oxidation I (sulfide:quinone oxidoreductase); sulfide oxidation II (flavocytochrome c sulfide dehydrogenase); sulfide oxidation III (reverse-type sulfite reductase); sulfite oxidation I (sulfite:cytochrome c oxidoreductase); sulfite oxidation II (reverse-type APS reductase), sulfite oxidation III (sulfite oxidase); possible sulfur/polysulfide oxidation (NADH oxidase/NADH:polysulfide oxidoreductase); thiosulfate/sulfur oxidation/Sox operon (SoxA, SoxB, SoxC, SoxD, SoxH, SoxX, SoxY).
Disproportionation pathways (and genes) include: thiosulfate disproportionation I,II, or III (rhodanese-like sulfurtransferase), thiosulfate disproportionation I or II (thiosulfate reductase); thiosulfate disproportionation II/cyanate pathway (rhodanese, cyanate hydratase).
Transport genes include: ABC-type nitrate/sulfonate/bicarbonate transporter; sulfate & thiosulfate binding protein CysP; sulfate & thiosulfate import protein CysA; sulfate & thiosulfate permease protein CysT; sulfate permease; Trk-type sulfate permease; sulfate transporter CysZ.