Table 1.
cydAA’ is expressed in many environments. ProteinGene expression is estimated based on read counts in metatranscriptomes.
| Genome_ID | Genome_Name | Locus_Tag | Reads | Best BLAST Hit NCBI | Organism | IMG Study ID | References for IMG study iD |
|---|---|---|---|---|---|---|---|
| 3300003719 | Ferric microbial mat communities from Yellowstone National Park, Wyoming, USA - One Hundred Spring Plain (OSP_B) (Metagenome Metatranscriptome) (*) (MER-FS) (assembled) | Ga0040881_1063211 | 246 | ESQ23817.1 | Acidilobus sp. OSP8 | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) |
| Ga0040881_1110491, Ga0099831_11874701 |
106 42 |
AMD31390.1 | Acidilobus sp. 7A | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| Ga0040881_1111231 | 27 | WP_081246098.1 | Thermoproteus sp. CP80 | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| Ga0040881_1134581 | 25 | WP_066793619.1 | Caldivirga sp. MU80 | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| Ga0040881_1142191, Ga0040881_1205091 |
2174 12 |
NAY81522.1 | Thaumarchaeota archaeon | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| Ga0040881_1202971 | 5 | KUO89797.1 | Caldivirga sp. CIS_19 | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| Ga0040881_1228021, Ga0040881_1244931 |
8 5 |
KUO80886.1 | Vulcanisaeta sp. JCHS 4 | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| 3300003723 | Hypersaline microbial mat communities from Yellowstone National Park, Wyoming, USA - Beowulf (BE_B) (Metagenome Metatranscriptome) (*) (MER-FS) (assembled) | Ga0040873_1002501 | 4784 | AMD31390.1 | Acidilobus sp. 7A | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) |
| Ga0040873_1003761 | 1921 | EQB65596.1 | Thermoplasmatales archaeon I-plasma | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| Ga0040873_1011521 | 2174 | KUO93148.1 | Thermocladium sp. ECH_B | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| Ga0040873_1013971 | 707 | PMP91269.1 | Caldisphaera sp. | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| Ga0040873_1028371 | 244 | NAY81522.1 | Thaumarchaeota archaeon | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| 3300003709 | Hypersaline microbial mat communities from Yellowstone National Park, Wyoming, USA - Grendel (GRN_C) (Metagenome Metatranscriptome) (*) (MER-FS) (assembled) | Ga0040875_1014081 | 163 | AMD31390.1 | Acidilobus sp. 7A | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) |
| Ga0040875_1034841 | 11 | KUO93148.1 | Thermocladium sp. ECH_B | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| 3300007166 | Iron oxide microbial mat communities from Yellowstone National Park, Wyoming, USA - BED_top_diel_T=1 metaT (Metagenome Metatranscriptome) (*) (MER-FS) (assembled) | Ga0099835_1035811 | 192 | NAY81522.1 | Thaumarchaeota archaeon | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) |
| Ga0099835_1427011, Ga0099835_1431661 |
4 3 |
KUO93148.1 | Thermocladium sp. ECH_B | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| Ga0099835_1456681 | 2 | PMP93815.1 | Nitrosphaera sp. | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| Ga0099835_1510461 | 17 | KUO89797.1 | Caldivirga sp. CIS_19 | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| 3300007164 | Iron oxide microbial mat communities from Yellowstone National Park, Wyoming, USA - BED_top_diel_T=3 metaT (Metagenome Metatranscriptome) (*) (MER-FS) (assembled) | Ga0099836_1305913 | 60 | NAY81522.1 | Thaumarchaeota archaeon | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) |
| Ga0099836_1428691 | 2 | WP_066793619.1 | Caldivirga sp. MU80 | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| Ga0099836_1428931, Ga0099836_1472421 |
3 3 |
KUO93148.1 | Thermocladium sp. ECH_B | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| 3300007168 | Iron oxide microbial mat communities from Yellowstone National Park, Wyoming, USA - BED_top_diel_T=7 metaT (Metagenome Metatranscriptome) (*) (MER-FS) (assembled) | Ga0099838_1606901 | 3 | KUO93148.1 | Thermocladium sp. ECH_B | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) |
| Ga0099838_1754862 | 40 | NAY81522.1 | Thaumarchaeota archaeon | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| 3300007161 | Iron oxide microbial mat communities from Yellowstone National Park, Wyoming, USA - BED_top_diel_T=8 metaT (Metagenome Metatranscriptome) (*) (MER-FS) (assembled) | Ga0099839_1320821 | 2 | NAZ28310.1 | Caldivirga sp. | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) |
| Ga0099839_1444841, Ga0099839_1444842, Ga0099839_1513781 |
19 4 |
NAY81522.1 | Thaumarchaeota archaeon | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| 3300007574 | Iron oxide microbial mat communities from Yellowstone National Park, Wyoming, USA - ECH_B_top_diel_T=1 metaT (Metagenome Metatranscriptome) (*) (MER-FS) (assembled) | Ga0099840_1194611, Ga0099840_1228901 | 6 | KUO93148.1 | Thermocladium sp. ECH_B | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) |
| Ga0099840_1208591, Ga0099840_1293341 Ga0099840_1307751, |
29 27 7 |
NAY81522.1 | Thaumarchaeota archaeon | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| Ga0099840_1212061 | 16 | AMD31390.1 | Acidilobus sp. 7A | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| 3300007486 | Iron oxide microbial mat communities from Yellowstone National Park, Wyoming, USA - ECH_B_top_diel_T=5 metaT (Metagenome Metatranscriptome) (*) (MER-FS) (assembled) | Ga0099841_1138611 | 5 | WP_117355195.1 | Acidilobus sp. 7A | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) |
| Ga0099841_1140711, Ga0099841_1141101 |
23 12 |
NAY81522.1 | Thaumarchaeota archaeon | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| Ga0099841_1256151 | 7 | NAZ28310.1 | Caldivirga sp. | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| Ga0099841_1293981 | 15 | KUO93148.1 | Thermocladium sp. ECH_B | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| 3300007575 | Iron oxide microbial mat communities from Yellowstone National Park, Wyoming, USA - ECH_C_top_diel_T=7 metaT (Metagenome Metatranscriptome) (*) (MER-FS) (assembled) | Ga0099844_1215141, Ga0099844_1308701 |
10 10 |
NAY81522.1 | Thaumarchaeota archaeon | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) |
| 3300021851 | Metatranscriptome of extremophilic microbial mat communities from Yellowstone National Park, Wyoming, USA - CONBC_RNA (Metagenome Metatranscriptome) (*) (MER-FS) (assembled) | Ga0187838_10229991 | 154 | WP_014289867.1 | Pyrobaculum ferrireducens | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) |
| Ga0187838_11515921 | 155 | KUK06933.1 | Archaeoglobus fulgidus | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) | ||
| 3300037625 | Metatranscriptome of soil microbial communities from Old Woman Creek estuary, Ohio, United States - Aug_M1_C1_D5_B (Metagenome Metatranscriptome) (*) (MER-FS) (assembled) | Ga0401895_061319_2_361 | – | HGD34321.1 | Candidatus Korarchaetoa archaeon | Study ID: Gs0135942 | Data used with permission from PI |
| 3300003730 | Thermal spring microbial communities from Beowulf Spring, Yellowstone National Park, Wyoming, USA - Beowulf (BE_D) (Metagenome Metatranscriptome) (*) (MER-FS) (assembled) | Ga0040879_1097101 | 63 | NAY81522.1 | Thaumarchaeota archaeon | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) |
| Ga0040879_1273451 | 7 | NAZ28310.1 | Caldivirga sp. | Study ID: Gs0067861 | D’haeseleer, P. et al. Stand. Genome Sci. (2017) |
Expression of cydAA’ in the environment estimated using publicly available metatranscriptomes. cydA homologs from the metatranscriptomic data available on the IMG website were extracted using a BLASTP cutoff of 1e-5. The short fragments found in metatranscriptomic data were matched with the full corresponding protein sequence based on the best hit in the NCBI database.