Table 1.
Tissues and experimental conditions of the ONT data used in this study. Conditions in red failed at some experimental point, hindering the sequencing of the corresponding samples.
| Tissue/ Standard |
Sp. | Samples | Libr. Strategy | Primers | Basecalling |
|---|---|---|---|---|---|
| Mock | MOCK | 1 | RAP; LIG | V3–V4; V1–V3; V1–V9 | FAST; HAC; SUP |
| CTRL+ | E. coli DH5α | 1 | |||
| Water | - | 12 | RAP; LIG | V1–V9 | |
| - | 3 | LIG | V3–V4; V1–V3; V1–V9 | ||
| Skin | ESB | 4 | RAP; LIG | V3–V4; V1–V3; V1–V9 | |
| Intestine | ESB | 4 | |||
| Faeces | GSB | 12 | LIG | V1–V9 |
RAP: 16S Barcoding Kit 24 V14; LIG: Native Barcoding Kit V14 after custom-amplicon generation; VX-X: Hypervariable regions overlapped with primer set; FAST: Fast-accuracy basecalling model; HAC: High-accuracy basecalling model; SUP: Super-accuracy basecalling model; MOCK: ZymoBIOMICS™ Microbial Community Standard II; CTRL+: pure isolate of E. coli DH5α; ESB: European sea bass; GSB: gilthead sea bream.