Table 3. Assembly statistics, taxonomy, completeness, contamination and coverage of genome bins.
The taxonomic label (CM taxon), genome completeness (CM compl.) and contamination level (CM contam.) were computed with CheckM. Sequencing coverage (med) was computed with BBMap, while bin length was extracted from QUAST output. Length (%) represents the proportion of assembled data in a bin with respect to the total amount of data of the corresponding metagenome. In the Nature column, cyanobacterial bins are denoted by C, microbiome bins by M, unclassified bins by U and nobins by No. Genome bins used in phylogenetic inference are marked by an asterisk (*) and discarded bins by a dash (−). NA, not applicable.
| Strain | MetaBAT setting | Bin | CM taxon | Nature | No. of scaffolds | Length (%) | Coverage (med) | CM compl. | CM contam. |
|---|---|---|---|---|---|---|---|---|---|
| ULC335 | Veryspecific | 1 | Cyanobacteria* | C | 238 | 20.84 | 10.90 | 98.91 | 0.51 |
| 2 | Flavobacteriaceae* | M | 67 | 13.73 | 11.12 | 99.29 | 0.12 | ||
| 3 | Bacteroidetes* | M | 576 | 12.83 | 4.46 | 65.45 | 0.49 | ||
| 4 | Alphaproteobacteria* | M | 271 | 4.79 | 4.13 | 32.28 | 0 | ||
| 0 | Nobin | No | 23 056 | 47.81 | 1.88 | na | na | ||
| ULC007 | Superspecific | 1 | Cyanobacteria* | C | 84 | 91.14 | 26.62 | 98.11 | 0 |
| 2 | Unclassified | U | 12 | 4.95 | 72.12 | 0 | 0 | ||
| 0 | Nobin | No | 358 | 3.91 | 1.48 | na | na | ||
| ULC027 | Verysensitive | 1 | Cyanobacteria* | C | 439 | 21.40 | 6.27 | 90.43 | 0.27 |
| 2 | Alphaproteobacteria* | M | 190 | 16.16 | 7.71 | 95.02 | 1.16 | ||
| 3 | Sphingomonadales* | M | 293 | 12.03 | 6.18 | 60.21 | 2.35 | ||
| 4 | Unclassified | U | 164 | 4.16 | 5.09 | 4.17 | 0 | ||
| 0 | Nobin | No | 24 364 | 46.24 | 1.89 | na | na | ||
| ULC041 | Verysensitive | 1 | Cyanobacteria* | C | 287 | 84.76 | 31.38 | 96.2 | 1.63 |
| 2 | Unclassified | U | 24 | 9.36 | 44.33 | 0 | 0 | ||
| 0 | Nobin | No | 441 | 5.88 | 3.97 | na | na | ||
| ULC065 | Veryspecific | 1 | Cyanobacteria* | C | 95 | 22.36 | 38.37 | 99.09 | 0.27 |
| 2 | Xanthomonadaceae* | M | 332 | 19.33 | 6.19 | 83.73 | 1.23 | ||
| 0 | Nobin | No | 20 555 | 58.31 | 1.73 | na | na | ||
| ULC066 | Superspecific | 1 | Cyanobacteria* | C | 67 | 28.81 | 21.86 | 98.82 | 0.47 |
| 2 | Bacteroidetes* | M | 401 | 13.94 | 4.93 | 76.91 | 1.23 | ||
| 3 | Betaproteobacteria− | M | 152 | 2.86 | 3.48 | 15.86 | 0 | ||
| 0 | Nobin | No | 24 558 | 54.38 | 1.69 | na | na | ||
| ULC068 | Superspecific | 1 | Cyanobacteria* | C | 60 | 57.04 | 29.34 | 97.09 | 0.71 |
| 2 | Unclassified | U | 3 | 2.56 | 22.60 | 0 | 0 | ||
| 0 | Nobin | No | 10 385 | 40.41 | 1.42 | na | na | ||
| ULC073 | Verysensitive | 1 | Cyanobacteria* | C | 476 | 22.70 | 10.74 | 92.03 | 1.42 |
| 2 | Betaproteobacteria* | M | 65 | 16.26 | 7.99 | 97.92 | 0.67 | ||
| 3 | Sphingomonadales* | M | 603 | 15.78 | 4.94 | 70.57 | 5.3 | ||
| 4 | Bacteria− | M | 156 | 2.79 | 4.39 | 10.71 | 0 | ||
| 5 | Unclassified | U | 26 | 1.40 | 15.02 | 0 | 0 | ||
| 6 | Unclassified | U | 29 | 1.38 | 6.45 | 0 | 0 | ||
| 0 | Nobin | No | 16 790 | 39.68 | 1.94 | na | na | ||
| ULC077 | Veryspecific | 1 | Cyanobacteria* | C | 407 | 47.37 | 15.08 | 97.64 | 0.47 |
| 0 | Nobin | No | 14 903 | 52.63 | 1.83 | na | na | ||
| ULC082 | Veryspecific | 1 | Cyanobacteria* | C | 124 | 11.49 | 19.85 | 97.74 | 0.27 |
| 2 | Bacteria* | M | 529 | 9.77 | 4.50 | 62.77 | 7.54 | ||
| 3 | Bacteria* | M | 542 | 8.16 | 3.88 | 46.21 | 9.28 | ||
| 4 | Bacteria− | M | 120 | 1.72 | 4.73 | 11.13 | 0 | ||
| 5 | Unclassified | U | 74 | 1.67 | 4.57 | 0 | 0 | ||
| 0 | Nobin | No | 30 077 | 67.18 | 2.15 | na | na | ||
| ULC084 | Superspecific | 1 | Betaproteobacteria* | M | 232 | 23.15 | 5.67 | 93.61 | 1.73 |
| 2 | Alphaproteobacteria* | M | 222 | 22.39 | 6.65 | 92.46 | 1.38 | ||
| 3 | Cyanobacteria* | C | 116 | 21.88 | 20.78 | 98.55 | 0 | ||
| 0 | Nobin | No | 10 835 | 32.58 | 1.59 | na | na | ||
| ULC129 | Verysensitive | 1 | Cyanobacteria* | C | 299 | 38.35 | 18.46 | 98.64 | 0.77 |
| 0 | Nobin | No | 21 968 | 61.65 | 1.62 | na | na | ||
| ULC146 | Superspecific | 1 | Burkholderiales* | M | 177 | 16.18 | 10.96 | 96.57 | 0.93 |
| 2 | Flavobacteriaceae* | M | 285 | 12.91 | 6.27 | 94.94 | 0.35 | ||
| 3 | Sphingomonadales* | M | 74 | 11.54 | 14.23 | 88.9 | 1.39 | ||
| 4 | Betaproteobacteria* | M | 98 | 10.85 | 7.64 | 97.46 | 1.09 | ||
| 5 | Alphaproteobacteria* | M | 350 | 7.56 | 6.25 | 75.87 | 0.32 | ||
| 6 | Bacteria− | M | 243 | 3.11 | 4.68 | 10.82 | 0 | ||
| 7 | Unclassified | U | 21 | 1.86 | 12.53 | 8.33 | 0 | ||
| 0 | Nobin | No | 28 569 | 35.99 | 1.72 | na | na | ||
| ULC165 | Verysensitive | 1 | Xanthomonadaceae* | M | 53 | 15.37 | 24.76 | 99.54 | 0.8 |
| 2 | Alphaproteobacteria* | M | 167 | 14.52 | 7.75 | 96.29 | 1.22 | ||
| 3 | Burkholderiales* | M | 473 | 10.01 | 4.40 | 41.41 | 0.47 | ||
| 4 | Bacteria* | C | 356 | 6.30 | 3.90 | 24.14 | 1.72 | ||
| 0 | Nobin | No | 19 409 | 53.79 | 2.08 | na | na | ||
| ULC179 | Superspecific | 1 | Alphaproteobacteria* | M | 247 | 18.89 | 16.30 | 98.54 | 60.19 |
| 2 | Rhizobiales* | M | 261 | 16.95 | 8.86 | 94.78 | 0.94 | ||
| 3 | Alphaproteobacteria* | M | 111 | 13.62 | 21.92 | 98.73 | 0.22 | ||
| 4 | Cytophagales* | M | 718 | 13.40 | 4.60 | 67.06 | 0.3 | ||
| 5 | Alphaproteobacteria* | M | 68 | 4.70 | 16.67 | 35.78 | 0 | ||
| 6 | Rhizobiales* | M | 170 | 2.16 | 4.18 | 12.58 | 0 | ||
| 7 | Unclassified | U | 16 | 1.69 | 41.33 | 0 | 0 | ||
| 0 | Nobin | No | 13 101 | 28.59 | 1.94 | na | na | ||
| ULC186 | Verysensitive | 1 | Cyanobacteria* | C | 412 | 67.38 | 21.10 | 93.18 | 1.64 |
| 0 | Nobin | No | 6559 | 32.62 | 1.52 | na | na | ||
| ULC187 | Veryspecific | 1 | Cyanobacteria* | C | 62 | 62.18 | 33.11 | 99.29 | 0.47 |
| 0 | Nobin | No | 8482 | 37.82 | 1.43 | na | na |