Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 3 | 1 | 4 | 5.10 |
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. |
|---|---|---|---|---|---|---|---|---|
| PFOHNOAK_1 | 3447562 | 3448611 | clbA | ARO:3002814 | clbA | 97.42 | 100.00 | 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. |
|---|---|---|---|---|---|---|---|
| PFOHNOAK_1 | 3447576 | 3448611 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 87.64 | 98.67 | KR610408 |
| PFOHNOAK_1 | 1367114 | 1368490 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 86.87 | 99.93 | 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. |
|---|---|---|---|---|---|---|---|---|
| PFOHNOAK_1 | 3447568 | 3448611 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 97.70 | 99.71 | WP_012116915.1 |
| PFOHNOAK_1 | 1367114 | 1368484 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 86.65 | 99.78 | WP_003242953.1 |
| PFOHNOAK_1 | 1355982 | 1356500 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 80.35 | 100.00 | WP_003242546.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| PFOHNOAK_1 | 478344 | 479525 | capB | 0.0 | Capsule | Immune modulation | 82.38 | 99.66 | NP_391471 |
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 |
|---|---|---|---|---|---|---|---|---|
| PFOHNOAK_1 | 3848997 | 3847861 | tufA | 0.0 | elongation factor Tu | 86.54 | 95.69 | AHM69299 |
| PFOHNOAK_1 | 3963780 | 3962911 | pdxS | 2.15e-150 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| PFOHNOAK_1 | 2287691 | 2286915 | CodY | 4.71e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| PFOHNOAK_1 | 838166 | 839038 | lipA (SAUSA300_0829) | 1.28e-161 | lipoic acid synthetase | 80.82 | 95.41 | ABD22039 |
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 |
|---|---|---|---|
| PFOHNOAK_1 | 0.0 | 1.0 | 0.0 |
| PFOHNOAK_2 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| PFOHNOAK_1 | 2661262 | 2687206 | False | Myoviridae | VOG0136, VOG0753, VOG4705, VOG3390, VOG4612, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189 |
| PFOHNOAK_1 | 3294867 | 3327028 | False | Siphoviridae | VOG4666, VOG3490, VOG3477, VOG9953, VOG4707, VOG0641, VOG5535, VOG3390, VOG4599, VOG4605, VOG4545, VOG1323, VOG0725, VOG0799, VOG0724, VOG5660, VOG0816, VOG4623, VOG0815, VOG1125, VOG4553, VOG4555, VOG4564, VOG0720, VOG0796, VOG4972, VOG5447, VOG4376, VOG10116, VOG0044, VOG0102, VOG0397, VOG8569, VOG5969 |
| PFOHNOAK_1 | 3328601 | 3382609 | False | Siphoviridae | VOG0536, VOG0044, VOG0189, VOG9093, VOG0186, VOG8233, VOG4552, VOG0650, VOG11075, VOG9667, VOG1561, VOG4602, VOG0275, VOG3490, VOG3477, VOG9953, VOG4707, VOG0641, VOG5535, VOG3390, VOG4599, VOG4605, VOG4545, VOG1323, VOG0725, VOG0799, VOG0724, VOG5660, VOG0816, VOG4623, VOG0815, VOG1125, VOG4553, VOG4555, VOG4564, VOG0720, VOG0796, VOG4972, VOG5447, VOG4376, VOG10116, VOG0044, VOG0102, VOG0397, VOG8569, VOG5969, VOG0536, VOG0044, VOG0189, VOG9093, VOG0186, VOG8233, VOG4552, VOG0650, VOG11075, VOG9667, VOG1561, VOG4602, VOG0275 |
Phigaro v2.4.0 (Database: Jan. 2024 release)