Table 2.
Gene abundances involved in the microbial sulfur cycle in the six metagenomes of the Yap Trench.
| Pathway | Gene | Gene description | Gene abundance (RPKM) | |||||
|---|---|---|---|---|---|---|---|---|
| Yap-D109-4435 | Yap-MC02-4568 | Yap-D113-6578 | Yap-CTD02-5000 | Yap-CTD03-5700 | Yap-CTD02-6000 | |||
| Dissimilatory sulfate reduction | asrA | Anaerobic sulfite reductase [iron-sulfur] | 0.0 | 0.0 | 4.2 | 0.0 | 92.0 | 0.0 |
| asrB | 1824.1 | 2183.4 | 4204.5 | 1073.2 | 1210.0 | 2775.1 | ||
| asrC | 67.1 | 84.2 | 198.2 | 71.6 | 0.0 | 0.0 | ||
| dsrAB | Dissimilatory (bi)sulfite reductase [siroheme] | 0.0 | 106.3 | 0.0 | 0.0 | 7.2 | 0.0 | |
| Assimilatory sulfate reduction | cysH | Phosphoadenosine phosphosulfate reductase | 2285.2 | 2720.8 | 2976.2 | 2195.5 | 1584.8 | 3012.4 |
| cysJ | Sulfite reductase (NADPH) flavoprotein alpha-component | 22.3 | 108.1 | 50.4 | 1674.9 | 1057.3 | 1386.1 | |
| cysNC | Bifunctional enzyme CysN/CysC | 5467.3 | 5079.2 | 6626.5 | 5198.5 | 3047.1 | 7206.2 | |
| sir | Sulfite reductase [cytochrome] | 4116.6 | 7740.4 | 3260.6 | 5028.9 | 5238.9 | 5489.2 | |
| fsr | F420-dependent sulfite reductase [siroheme] | 9.2 | 0.0 | 20.2 | 0.0 | 0.0 | 0.0 | |
| Sulfur oxidation | soxC | Sulfur-oxidizing multienzyme complex, subunits CD; Sulfanesulfur dehydrogenase [molybdenum/cytochrome] | 157.0 | 1245.5 | 385.6 | 112.8 | 177.7 | 129.1 |
| soxD | 179.7 | 1123.1 | 254.1 | 563.4 | 584.5 | 2855.1 | ||
| fccA | Flavocytochrome c/sulfide dehydrogenases [flavoprotein/cytochrome] | 43.1 | 181.0 | 32.3 | 30.8 | 590.9 | 164.0 | |
| fccB | 581.8 | 492.6 | 492.3 | 776.0 | 1336.2 | 251.9 | ||
| soeC | Sulfite oxidizing enzyme [molybdenum] | 7.4 | 64.3 | 6.8 | 0.0 | 21.7 | 4.8 | |
| Inorganic sulfur transformations | psrA | Polysulfide reductase [molybdenum] | 213.6 | 1117.5 | 642.3 | 1087.9 | 2234.7 | 788.0 |
| psrB | 0.0 | 134.2 | 0.0 | 104.0 | 110.2 | 80.4 | ||
| psrC | 440.2 | 955.3 | 766.1 | 496.8 | 314.9 | 169.1 | ||
| sudA | Sulfhydrogenase/hydrogenase II (a.k.a. Sulfide dehydrogenase) [flavoprotein] | 5512.8 | 8030.0 | 6505.1 | 7095.9 | 6203.9 | 10437.1 | |
| tsdA | Thiosulfate dehydrogenase [diheme cytochrome] | 16.6 | 0.0 | 13.8 | 30.3 | 59.8 | 160.3 | |
| ttrA | Tetrathionate reductase [molybdenum] | 10.6 | 68.6 | 95.6 | 291.6 | 193.6 | 116.8 | |
| ttrB | 557.2 | 2229.2 | 1297.7 | 3246.4 | 2588.4 | 1615.3 | ||
| ttrC | 0.0 | 0.0 | 0.0 | 257.7 | 167.2 | 97.6 | ||
| doxD | Thiosulphate-quinone oxidoreductase | 259.8 | 974.6 | 297.2 | 555.8 | 851.7 | 656.4 | |
| hydA | Sulfhydrogenase/hydrogenase I [flavoprotein] | 15.7 | 0.0 | 0.0 | 0.0 | 97.4 | 0.0 | |
| hydD | 0.0 | 0.0 | 0.0 | 0.0 | 113.1 | 0.0 | ||
| phsA | Thiosulfate reductase [molybdenum] | 26.3 | 221.5 | 90.8 | 337.7 | 195.1 | 114.6 | |
| phsB | 0.0 | 11.5 | 17.1 | 436.1 | 316.4 | 195.2 | ||
| phsC | 0.0 | 0.0 | 0.0 | 416.5 | 296.0 | 179.5 | ||
| rdlA | Rhodanese-like protein [rhodanase] | 7.6 | 60.3 | 42.8 | 335.8 | 195.9 | 255.6 | |
| tetH | Tetrathionate hydrolase | 0.0 | 11.3 | 0.0 | 0.0 | 0.0 | 0.0 | |
| Organic sulfur transformations | atsA | Arylsulfohydrolase | 360.3 | 2764.2 | 892.8 | 510.0 | 844.2 | 276.2 |
| atsK | Alkylsulfodioxygenase [dioxygenase] | 4.7 | 55.2 | 52.4 | 194.0 | 97.3 | 100.5 | |
| cuyA | Cysteate sulfo-lyase | 200.0 | 954.1 | 380.7 | 825.1 | 579.4 | 258.4 | |
| FGly | Formylglycine-dependent sulfhydrolase, sulfatase [formylglycine] | 258.3 | 500.4 | 357.1 | 35.2 | 118.5 | 36.9 | |
| sdsA1 | Alkylsulfohydrolase | 115.3 | 895.0 | 117.1 | 663.0 | 789.7 | 365.7 | |
| suyA | Sulfolactate sulfo-lyase | 7.7 | 87.7 | 23.5 | 137.6 | 63.2 | 60.9 | |
| suyB | 74.1 | 101.0 | 46.2 | 272.2 | 118.9 | 123.8 | ||
| tauD | Taurine dioxygenase | 37.0 | 352.7 | 125.8 | 1103.7 | 620.7 | 377.4 | |
| xsc | Sulfoacetaldehyde acetyltransferase | 505.2 | 638.5 | 799.3 | 573.7 | 249.8 | 330.5 | |