Table 2.
Datasets included in the database
| Dataset name | Dataset description | Expedition | NCBI ID | # Samples | Resources used |
|---|---|---|---|---|---|
| Chisholm HOT | Temporal sampling of marine metagenomes from Station ALOHA | HOT | 385855 | 68 | NCBI, BCO-DMO, R2D, CCHDO |
| DeLong HOT metagenomes | Temporal sampling of marine metagenomes from Station ALOHA | HOT | 16339 | 42 | NCBI, BCO-DMO, R2D, CCHDO, published papers |
| OSD2014 | Amplicon and metagenome samples from the 2014 Ocean Sampling Day event around the world | OSD | 276999 | 162 | NCBI, Pangea |
| HOT Delong metatranscriptome | Temporal sampling of marine metatranscriptomes from Station ALOHA | HOT | 16339 | 8 | NCBI, BCO-DMO, R2D, CCHDO, published paper |
| HOT ALOHA time/depth series | Temporal sampling of marine metagenomes from Station ALOHA collected from 2010 to 2016 | HOT | 352737 | 461 | NCBI, BCO-DMO, R2D, CCHDO, SAMOS, published paper |
| GOS expedition 2009–2011 | Samples from the Global Ocean Survey expedition (2009-2011). Include coastal sites in the Pacific and Atlantic Ocean, Mediterranean, Baltic and Black Sea as well as some large lakes. | GOS | 293636 | 68 | NCBI |
| AHX | Shotgun Sequencing of Tara Oceans DNA samples corresponding to size fractions for protist | Tara Oceans | 213098 | 651 | NCBI, Pangea |
| ANB | Shotgun Sequencing of Tara Oceans DNA samples corresponding to size fractions for large DNA viruses | Tara Oceans | 196958 | 75 | NCBI, Pangea |
| APX | Shotgun Sequencing of Tara Oceans DNA samples corresponding to size fractions for small DNA viruses | Tara Oceans | 214077 | 92 | NCBI, Pangea |
| APY | Shotgun Sequencing of Tara Oceans DNA samples corresponding to size fractions for prokaryotes | Tara Oceans | 196960 | 136 | NCBI, Pangea |
| ARC | Metatranscriptome sequencing from samples corresponding to size fractions for protists | Tara Oceans | 253559 | 23 | NCBI, Pangea |
| ARD_2 | Metatranscriptome sequencing from samples corresponding to size fractions for protists | Tara Oceans | 253564 | 450 | NCBI, Pangea |
| ARG | Amplicon sequencing of Tara Oceans DNA samples corresponding to size fractions for protists | Tara Oceans | 253565 | 883 | NCBI, Pangea |
| ARH | Amplicon sequencing of Tara Oceans RNA samples corresponding to size fractions for protists | Tara Oceans | 261507 | 14 | NCBI, Pangea |
| ARI | Amplicon sequencing of Tara Oceans DNA samples corresponding to size fractions for prokaryotes or protist | Tara Oceans | 213100 | 7 | NCBI, Pangea |
| AUZ | Amplicon sequencing of Tara Oceans DNA samples corresponding to size fractions for large DNA viruses | Tara Oceans | 253560 | 19 | NCBI, Pangea |
| BEZ | Metatranscriptome sequencing of Tara Oceans DNA samples corresponding to size fractions for prokaryotes | Tara Oceans | 253563 | 6 | NCBI, Pangea |
| BNA | Shotgun Sequencing of Tara Oceans Polar Circle DNA samples corresponding to size fractions for small DNA viruses | Tara Polar | 288560 | 41 | NCBI, Pangea |
| BATS_Chisholm | Temporal sampling of marine metagenomes from the Bermuda Atlantic Time series | BATS | 385855 | 62 | NCBI, BCO-DMO, R2R |
| C-DEBI mid-ocean ridge flank | Metagenomic samples from deep seawater microbial communities | C-DEBI | 268250 and 266365 | 20 | NCBI, BCO-DMO, published paper, R2R, SAMOS, WHOI, IEDA |
| Amazon Plume Metagenomes | Metagenomic samples from the Amazon river-sea continuum sampling effort. Samples from the Amazon Plume. | ANACONDAS | 237344 | 48 | NCBI, BCO-DMO, R2R, SAMOS, WHOI |
| Amazon River Metagenomes | Metagenomic samples from the Amazon river-sea continuum sampling effort. Samples from the Amazon river. | ANACONDAS | 237344 | 48 | NCBI |
| Amazon Plume Metatranscriptomes | Metatranscriptomic samples from the Amazon river-sea continuum sampling effort. Samples from the Amazon plume. | ANACONDAS | 237345 | 34 | NCBI, BCO-DMO, R2R, SAMOS, WHOI |
| Amazon River Metatranscriptomes | Metatranscriptomic samples from the Amazon river-sea continuum sampling effort. Samples from the Amazon river. | ANACONDAS | 237345 | 39 | NCBI |
| Amazon PolyA Metatranscriptomes | PolyA-enriched metatranscriptomes samples from the Amazon river-sea continuum sampling effort. | ANACONDAS | 237346 | 22 | NCBI, BCO-DMO, R2R, SAMOS, WHOI |