Table 1.
Summary of samples used in this study
| Sample | Sample type | Date collected | Latitude | Longitude | Data type | ENA accession | Total reads | Total ARG reads | % ARG reads |
|---|---|---|---|---|---|---|---|---|---|
| AH:M:1 | hospital effluent | 02.05.2013 | 52.174343 | 0.139346 | metagenome | ERS1019923 | 64 659 230 | 97 698 | 0.1511 |
| AH:M:2 | hospital effluent | 04.08.2014 | 52.174343 | 0.139346 | metagenome | ERS1019924 | 52 355 416 | 122 164 | 0.2333 |
| AH:M:3 | hospital effluent | 15.09.2014 | 52.174343 | 0.139346 | metagenome | ERS1019925 | 109 795 652 | 207 767 | 0.1892 |
| AH:M:4 | hospital effluent | 29.09.2014 | 52.174343 | 0.139346 | metagenome | ERS1019926 | 61 573 380 | 125 019 | 0.203 |
| AH:M:5 | hospital effluent | 27.10.2014 | 52.174343 | 0.139346 | metagenome | ERS1019927 | 50 845 128 | 25 987 | 0.0511 |
| AH:M:6 | hospital effluent | 24.11.2014 | 52.174343 | 0.139346 | metagenome | ERS1019928 | 53 928 494 | 28 629 | 0.0531 |
| DF:M:1 | farm effluent | 02.05.2013 | 52.22259 | 0.02603 | metagenome | ERS1019955 | 66 120 642 | 2317 | 0.0035 |
| DF:M:2 | farm effluent | 06.08.2014 | 52.22259 | 0.02603 | metagenome | ERS1019956 | 184 149 408 | 13 094 | 0.0071 |
| DF:M:3 | farm effluent | 15.09.2014 | 52.22259 | 0.02603 | metagenome | ERS1019957 | 262 823 622 | 29 006 | 0.011 |
| DF:M:4 | farm effluent | 29.09.2014 | 52.22259 | 0.02603 | metagenome | ERS1019958 | 58 179 398 | 31 518 | 0.0542 |
| DF:M:5 | farm effluent | 27.10.2014 | 52.22259 | 0.02603 | metagenome | ERS1019959 | 53 192 154 | 6999 | 0.0132 |
| DF:M:6 | farm effluent | 24.11.2014 | 52.22259 | 0.02603 | metagenome | ERS1020022 | 49 5 16 248 | 4072 | 0.0082 |
| AS:M:1 | river source water | 02.05.2013 | 52.0421 | 0.1497 | metagenome | ERS1019949 | 54 799 282 | 181 | 0.0003 |
| AS:M:2 | river source water | 04.08.2014 | 52.0421 | 0.1497 | metagenome | ERS1019950 | 150 787 198 | 7226 | 0.0048 |
| AS:M:3 | river source water | 15.09.2014 | 52.0421 | 0.1497 | metagenome | ERS1019951 | 128 125 534 | 1199 | 0.0009 |
| AS:M:4 | river source water | 29.09.2014 | 52.0421 | 0.1497 | failed sequencing | – | – | – | – |
| AS:M:5 | river source water | 27.10.2014 | 52.0421 | 0.1497 | failed sequencing | – | – | – | – |
| AS:M:6 | river source water | 24.11.2014 | 52.0421 | 0.1497 | failed sequencing | – | – | – | – |
| AH:T:1 | hospital effluent | 02.05.2013 | 52.174343 | 0.139346 | metatranscriptome | ERS1027345 | 152 298 536 | 308 848 | 0.2028 |
| AH:T:2 | hospital effluent | 04.08.2014 | 52.174343 | 0.139346 | failed sequencing | – | – | – | – |
| AH:T:3 | hospital effluent | 15.09.2014 | 52.174343 | 0.139346 | failed sequencing | – | – | – | – |
| AH:T:4 | hospital effluent | 29.09.2014 | 52.174343 | 0.139346 | metatranscriptome | ERS1027346 | 74 411 930 | 948 890 | 1.2752 |
| AH:T:5 | hospital effluent | 27.10.2014 | 52.174343 | 0.139346 | metatranscriptome | ERS1027347 | 61 143 518 | 23 765 | 0.0389 |
| AH:T:6 | hospital effluent | 24.11.2014 | 52.174343 | 0.139346 | metatranscriptome | ERS1027348 | 51 640 378 | 40 379 | 0.0782 |
| DF:T:1 | farm effluent | 02.05.2013 | 52.22259 | 0.02603 | metatranscriptome | ERS1027349 | 123 559 962 | 8017 | 0.0065 |
| DF:T:2 | farm effluent | 04.08.2014 | 52.22259 | 0.02603 | failed sequencing | – | – | – | – |
| DF:T:3 | farm effluent | 15.09.2014 | 52.22259 | 0.02603 | failed sequencing | – | – | – | – |
| DF:T:4 | farm effluent | 29.09.2014 | 52.22259 | 0.02603 | metatranscriptome | ERS1027350 | 49 293 728 | 4447 | 0.009 |
| DF:T:5 | farm effluent | 27.10.2014 | 52.22259 | 0.02603 | metatranscriptome | ERS1027351 | 64 102 402 | 7057 | 0.011 |
| DF:T:6 | farm effluent | 24.11.2014 | 52.22259 | 0.02603 | metatranscriptome | ERS1027352 | 64 850 756 | 1022 | 0.0016 |
AH, hospital effluent (Addenbrooke’s Hospital/Cambridge University Hospitals); DF, farm effluent (University of Cambridge dairy farm); AS, river source water (Ashwell Spring).