Table 4.
Bacterial species identified
| ID | Species | No. of contigs | Total aligned length | Total no. of associated PE reads | Total no. of associated SE reads | Sum of PE and SE reads | MCRPM |
|---|---|---|---|---|---|---|---|
| BBC ctl | (sum/372) | ||||||
| Acinetobacter johnsonii XBB1 | 17 | 5,428 | 69 | 30 | 99 | 0.27 | |
| Bacillus cereus | 2 | 708 | 6 | 35 | 41 | 0.11 | |
| Mycobacterium sp. | 4 | 2,124 | 73 | 70 | 143 | 0.38 | |
| Ralstonia mannitolilytica | 4 | 1,227 | 31 | 12 | 43 | 0.12 | |
| EJC ctl | (sum/389) | ||||||
| Acinetobacter haemolyticus | 12 | 4,345 | 59 | 30 | 89 | 0.23 | |
| Acinetobacter johnsonii XBB1 | 231 | 99,403 | 1,719 | 616 | 2,335 | 6.00 | |
| Acinetobacter junii | 4 | 1,948 | 30 | 7 | 37 | 0.10 | |
| Acinetobacter lwoffii | 17 | 6,186 | 87 | 31 | 118 | 0.30 | |
| Acinetobacter schindleri | 4 | 1,770 | 43 | 16 | 59 | 0.15 | |
| Bacillus cereus | 4 | 1,314 | 31 | 51 | 82 | 0.21 | |
| Corynebacterium pseudotuberculosis | 2 | 588 | 2 | 48 | 50 | 0.13 | |
| Methylobacterium populi | 18 | 5,102 | 54 | 18 | 72 | 0.19 | |
| Mycobacterium abscessus | 4 | 2,238 | 53 | 14 | 67 | 0.17 | |
| Mycobacterium avium | 8 | 2,751 | 30 | 15 | 45 | 0.12 | |
| Mycobacterium sp. | 8 | 2,620 | 36 | 63 | 99 | 0.25 | |
| Mycoplasma mycoides | 1 | 276 | 17 | 28 | 45 | 0.12 | |
| Porphyrobacter sp. | 7 | 2,478 | 20 | 34 | 54 | 0.14 | |
| Ralstonia mannitolilytica | 8 | 2,899 | 37 | 40 | 77 | 0.20 | |
| Sphingomonas sp. | 11 | 3,533 | 27 | 28 | 55 | 0.14 | |
| BC 0145 | (sum/375) | ||||||
| Pannonibacter phragmitetus | 714 | 230,779 | 1,999 | 1,309 | 3,308 | 8.82 | |
| Pseudomonas aeruginosa | 2 | 1,824 | 254 | 78 | 332 | 0.89 | |
| Pseudomonas alcaliphila | 6 | 5,093 | 896 | 170 | 1,066 | 2.84 | |
| Pseudomonas mendocina ymp | 1,675 | 2,678,493 | 918,733 | 109,787 | 1,028,520 | 2,742.72 | |
| Pseudomonas sp. | 3 | 1,195 | 41 | 36 | 77 | 0.21 | |
| Pseudomonas stutzeri | 3 | 1,717 | 220 | 21 | 241 | 0.64 | |
| Rhizobium sp. | 34 | 12,418 | 144 | 65 | 209 | 0.56 | |
| BC 0190 | (sum/426) | ||||||
| Acinetobacter baumannii | 2 | 1,078 | 29 | 17 | 46 | 0.11 | |
| Acinetobacter johnsonii XBB1 | 71 | 24,930 | 366 | 168 | 534 | 1.25 | |
| Bacillus cereus | 4 | 1,172 | 24 | 76 | 100 | 0.23 | |
| Methylobacterium populi | 38 | 10,970 | 123 | 72 | 195 | 0.46 | |
| Mycobacterium abscessus | 5 | 2,599 | 67 | 28 | 95 | 0.22 | |
| Mycobacterium sp. | 7 | 2,432 | 52 | 88 | 140 | 0.33 | |
| Porphyrobacter sp. | 6 | 2,195 | 38 | 31 | 69 | 0.16 | |
| Ralstonia mannitolilytica | 7 | 2,370 | 19 | 53 | 72 | 0.17 | |
| Sphingomonas sp. | 17 | 5,030 | 63 | 44 | 107 | 0.25 | |
| CGBC 025 | (sum/579) | ||||||
| Acinetobacter baumannii | 24 | 6,818 | 118 | 48 | 166 | 0.29 | |
| Bradyrhizobium sp. | 7 | 2,059 | 41 | 16 | 57 | 0.10 | |
| Enterobacter cloacae | 8 | 3,140 | 108 | 33 | 141 | 0.24 | |
| Sphingobium japonicum | 8 | 5,088 | 262 | 43 | 305 | 0.53 | |
| Sphingomonas melonis | 336 | 157,346 | 5,397 | 2,503 | 7,900 | 13.64 | |
| Sphingomonas panacis | 4 | 1,261 | 36 | 30 | 66 | 0.11 | |
| Sphingomonas sp. | 51 | 21,410 | 720 | 271 | 991 | 1.71 |
Only microbial species with MCRPM ≥ 0.1 are listed. Those with MCRPM ≥ 1 are listed in bold.
Ctl control; MCRPM, microbial cfDNA per million quality PE reads; sp. (same as spp.), species with unspecified species name