Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 4 | 2 | 6 | 7.48 |
PPRS is classified as low-risk (≤4), medium-risk (4-6), and high-risk (≥6).
Antibiotic resistance genes
Comprehensive Antibiotic Resistance Database (CARD)
| Query ID | Begin | End | ARO name | ARO accession | CARD name | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| NHLABDBP_1 | 82731 | 83777 | clbA | ARO:3002814 | clbA | 92.77 | 99.71 | CP006845.1 |
RGI v6.0.3 (Database: CARD Variants v4.0.2, Nov. 2023 release)
ResFinder
| Query ID | Begin | End | Resistance gene | Phenotype | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|
| NHLABDBP_1 | 82731 | 83774 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.90 | 99.33 | KR610408 |
| NHLABDBP_22 | 93279 | 94655 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 87.07 | 100.00 | X08034 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| NHLABDBP_1 | 82731 | 83774 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 92.24 | 99.71 | WP_012116915.1 |
| NHLABDBP_22 | 93285 | 94655 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 86.43 | 99.78 | WP_003242953.1 |
| NHLABDBP_1 | 80462 | 80980 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 82.66 | 100.00 | WP_003242546.1 |
| NHLABDBP_19 | 5287 | 7884 | rphC | rifamycin-inactivating phosphotransferase RphC | INTERNAL_STOP | 80.94 | 100.00 | WP_087347987.1 |
AMRFinderPlus v4.0.3 (Database: Oct. 2024 release)
Virulence factors
Virulence Factor Database (VFDB)
| Query ID | qstart | qend | Gene name | e-value | VF name | VF category | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|---|
| NHLABDBP_3 | 497816 | 498997 | capB | 0.0 | Capsule | Immune modulation | 81.87 | 99.66 | NP_391471 |
| NHLABDBP_3 | 497352 | 497801 | capC | 1.92e-114 | Capsule | Immune modulation | 83.59 | 99.78 | NP_391470 |
BLASTN v2.16.0 (Database: VFDB, Dec. 2024 release)
VirulenceFinder
| Query ID | Begin | End | Database | Virulence factor | Protein function | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| No hit found | ||||||||
VirulenceFinder v2.0. 4 (Database: virulencefinder_db, Feb . 2024 release)
Pathogenic genes
PHI-base
| Query ID | qstart | qend | Gene name | e-value | Function | Identity | Coverage | Gene ID |
|---|---|---|---|---|---|---|---|---|
| NHLABDBP_10 | 27835 | 26699 | tufA | 0.0 | elongation factor Tu | 86.54 | 95.69 | AHM69299 |
| NHLABDBP_16 | 4255 | 5124 | pdxS | 6.32e-153 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| NHLABDBP_19 | 209002 | 208226 | CodY | 7.56e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| NHLABDBP_19 | 653744 | 653352 | spxA1 | 1.19e-69 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| NHLABDBP_1 | 66240 | 66437 | CspA | 2.01e-32 | cold shock protein | 92.42 | 100.00 | CAA62903 |
| NHLABDBP_23 | 105027 | 105221 | CspD | 6.92e-28 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| NHLABDBP_23 | 105027 | 105224 | CspB | 1.44e-27 | cold shock protein | 80.30 | 100.00 | CAD00094 |
| NHLABDBP_1 | 66240 | 66434 | CspR | 9.99e-27 | cold shock protein | 80.00 | 98.48 | AAO82613 |
BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)
Plasmid
PlasmidFinder
| Query ID | Begin | End | Plasmid | Query / Template | Identity | Accession no. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| NHLABDBP_1 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_2 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_3 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_4 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_5 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_6 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_7 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_10 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_11 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_12 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_13 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_16 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_17 | 1.0 | 0.0 | 1.0 |
| NHLABDBP_19 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_20 | 1.0 | 0.0 | 1.0 |
| NHLABDBP_21 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_22 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_23 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_24 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_25 | 0.0 | 1.0 | 0.0 |
| NHLABDBP_26 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| NHLABDBP_19 | 532428 | 559509 | False | Myoviridae | VOG0136, VOG0753, VOG4705, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189 |
| NHLABDBP_25 | 13058 | 27015 | False | Siphoviridae | VOG4602, VOG8483, VOG9667, VOG11075, VOG0650, VOG4552, VOG4600, VOG1309, VOG9093, VOG0189, VOG0044, VOG0536, VOG1336, VOG4658, VOG8569, VOG0397, VOG6581 |
| NHLABDBP_25 | 29387 | 58454 | False | Siphoviridae | VOG5447, VOG4972, VOG4681, VOG0796, VOG10227, VOG0720, VOG4564, VOG6778, VOG4555, VOG1329, VOG2621, VOG5872, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG0725, VOG4545, VOG4605, VOG4599, VOG3390, VOG5535, VOG0753, VOG0136, VOG4574 |
Phigaro v2.4.0 (Database: Jan. 2024 release)