Table 1 Metadata of different environmental samples obtained from public databases
Sample | Biomes | Sampling location/region | Description | Database | Accession number | Total number of reads | DNA extraction kit/method | Sequencing platform | Reference |
|---|---|---|---|---|---|---|---|---|---|
ARP 1 ARP 2 ARP 3 | Amazon River plume | Western tropical North Atlantic Ocean | Samples were collected at Amazon River plume | NCBI_SRA | SRR1185414 SRR1186214 SRR1199271 | 1,724,868 1,304,682 1,277,913 | Method proposed by [54] | Illumina Genome Analyzer IIx | |
KR 1 KR 2 KR 3 | Kalamas River | Epirus region of Greece | Samples were collected from the Kalamas River | NCBI_SRA | SRR3098756 SRR3098759 SRR3098769 | 10,792,071 7,698,589 5,351,255 | Mo Bio Power Soil Kit (Mo Bio Inc. Carlsbad, CA, USA) | Illumina HiSeq 2500 | [57] |
DF 1 DF 2 DF 3 | Dairy farm effluent | Cambridge, UK | Samples were collected from the effluent lagoon of a dairy farm | EMBL-EBI | ERR1193297 ERR1193298 ERR1193301 | 23,154,788 82,819,396 26,421,627 | Meta-G-Nome DNA Isolation Kit, Epicentre) | Illumina HiSeq 2000 | [19] |
HE 1 HE 2 HE 3 | Hospital effluent | Cambridge, UK | Samples were collected from the combined wastewater effluents of the main wards of university hospital | EMBL-EBI | ERR1191817 ERR1191818 ERR1191819 | 30,295,299 22,689,323 50,303,545 | |||
CR 1 CR 2 CR 3 | Cam River | Cambridge, UK | Samples were collected within the River Cam catchment | EMBL-EBI | ERR1193292 ERR1193293 ERR1193294 | 17,899,008 68,902,092 43,078,304 | |||
HE 4 | Hospital effluent | Singapore | Sample was collected from general ward | NCBI-SRA | SRR5997540 | 2,257,389 | PowerWater DNA Isolation Kit (Mo Bio Lab, Inc, CA) | Illumina HiSeq 2500 | [58] |
HE 5 HE 6 | Hospital effluent | Singapore | Samples were collected from clinical isolation ward | NCBI-SRA | SRR5997541 SRR5997548 | 1,927,227 2,090,859 |