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Table 1 Assemblage information of four MTA MAGs and reference genomes

From: Novel insights into the Thaumarchaeota in the deepest oceans: their metabolism and potential adaptation mechanisms

  Completeness Contamination Strain heterogeneity Size (Mbp) Contigs GC (%) Sequencing coverages Sampling spot (and depth) Note
Metagenomic assembled “bins”
 MTA1 100 0 0 1.28 7 33.2 97 × Mariana Trench 4000–10,500 m (predominantly 8000 m) Predominant phylotype in hadal zone, alpha AOA
 MTA4 24.84 0.49 0 0.42 159 34.6 Mariana Trench 2000–10,500 m (predominantly 2000 m) Member of the gamma AOA
 MTA5 82.94 1.94 0 1.59 380 34.9 10 × Mariana Trench 2000 m amoA gene phylogenetically clustered with thermophilic Thaumarchaeota
 MTA6 98.22 0 0 1.07 39 33.4 5 × Mariana Trench 2000 m Nearly identical to CN25
 Merged bin of DMGI ~ 400 32.1 400 × Mariana Trench 2000–10,500 m (predominantly 2000 m) Highly merged bin of gamma AOA
Other representative SAGs (partial)
 PRT-SC01 32.69 1.94 33.33 0.61 140 33.1 Puerto Rico Trench, Atlantic 8000 m Predominant phylotype in hadal zone; alpha AOA
 AAA282-K18 77.99 0 0 1.04 40 33.4 Dark ocean depth > 200 m Similar to MTA1 and PRT-SC01 alpha AOA
 AB-629-I23 95.87 9.47 0 1.31 133 35.7 Dark ocean depth > 200 m Member of the gamma AOA
 AAA007-O23 96.84 0 0 1.09 4 35.6 Mesopelagic zone (200–1000 m) Member of the gamma AOA
 AAA799-D07 41.18 1.46 0 0.44    Red sea brine pool 2000 m Member of the gamma AOA
 AAA799-E16 85.11 2.59 75.00 1.45    Red sea brine pool 2000 m Closed related to Nitrosopumilus maritimus SCM1
 AAA799-N04 84.47 0.24 0 1.33    Red sea brine pool 2000 m Closed related to Nitrosopumilus maritimus SCM1
Pure culture strains    
 SCM1 100 1.94 0 1.65 1 34.2 Seawater aquarium Type strain
Enrichment strains
 CN25 100 2.91 0 1.23 1 33.2 Open ocean 25 m Streamlined, similar size to MTA1
 SPOT01 100 0.97 0 1.36 1 31.4 San Pedro Ocean Time-Series site 75 m Streamlined, similar size to MTA1
 D3C 99.51 0 0 1.71 1 33.8 Northern Adriatic seawater off Piran depth 0.5 m  
 NF5 100 0 0 1.8 1 33.4 Northern Adriatic Seawater off Piran depth 0.5 m  
 BG20 99.03 5.83 83.33 1.85 343 32.5 Low-salinity sediments of the San Francisco Bay estuary  
 SFB1 98.06 0 0 1.77 1 32.6 Low-salinity sediments of the San Francisco Bay estuary  
 AR2 97.09 0 0 1.69 1 33.6 Sediments from Svalbard in the Arctic Circle  
 AR1 94.66 0 0 1.64 1 34.2 Sediments from Svalbard in the Arctic Circle  
 BD31 92.39 1.94 0 1.57 171 33.8 Coastal/estuarine sediments in San Francisco Bay 1 cm sediments  
  1. Qualities of these assemblies were examined by CheckM based on 145 single-copy markers for Thaumarchaeota. For SAGs and MAGs completeness > 90%, contamination < 5%, containing all the rRNA and tRNA genes are considered to be high quality [32]. Currently in deep-sea AOA only MTA1 meet these standards (several SAGs or MAGs lack rRNA or tRNA genes, although their completeness is high enough)