Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 4 | 2 | 7 | 8.31 |
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. |
|---|---|---|---|---|---|---|---|---|
| ONJNAMNJ_55 | 48015 | 49061 | 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. |
|---|---|---|---|---|---|---|---|
| ONJNAMNJ_55 | 48018 | 49061 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.90 | 99.33 | KR610408 |
| ONJNAMNJ_33 | 164282 | 165658 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 87.36 | 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. |
|---|---|---|---|---|---|---|---|---|
| ONJNAMNJ_55 | 48018 | 49061 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 92.24 | 99.71 | WP_012116915.1 |
| ONJNAMNJ_33 | 164282 | 165652 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 87.09 | 99.78 | WP_003242953.1 |
| ONJNAMNJ_55 | 50812 | 51330 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 82.66 | 100.00 | WP_003242546.1 |
| ONJNAMNJ_11 | 903828 | 906425 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.06 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| ONJNAMNJ_22 | 376505 | 377686 | capB | 0.0 | Capsule | Immune modulation | 81.87 | 99.66 | NP_391471 |
| ONJNAMNJ_22 | 377701 | 378150 | capC | 3.25e-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 |
|---|---|---|---|---|---|---|---|---|
| ONJNAMNJ_1 | 31774 | 32910 | tufA | 0.0 | elongation factor Tu | 86.54 | 95.69 | AHM69299 |
| ONJNAMNJ_4 | 4361 | 5230 | pdxS | 6.40e-153 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| ONJNAMNJ_11 | 702703 | 703479 | CodY | 8.76e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| ONJNAMNJ_11 | 260550 | 260942 | spxA1 | 1.38e-69 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| ONJNAMNJ_51 | 336 | 1 | STM14_RS15265 | 2.68e-64 | formate hydrogenlyase maturation protein | 92.86 | 71.79 | ACY89853 |
| ONJNAMNJ_55 | 65563 | 65366 | CspA | 3.19e-32 | cold shock protein | 92.42 | 100.00 | CAA62903 |
| ONJNAMNJ_33 | 505159 | 504965 | CspD | 1.57e-27 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| ONJNAMNJ_33 | 505159 | 504962 | CspB | 3.25e-27 | cold shock protein | 80.30 | 100.00 | CAD00094 |
| ONJNAMNJ_55 | 65563 | 65369 | CspR | 1.58e-26 | 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 |
|---|---|---|---|
| ONJNAMNJ_1 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_2 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_3 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_4 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_5 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_6 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_7 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_8 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_9 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_10 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_11 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_13 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_14 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_22 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_33 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_44 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_55 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_66 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_67 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_68 | 0.0 | 1.0 | 0.0 |
| ONJNAMNJ_69 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| ONJNAMNJ_3 | 3 | 29073 | False | Siphoviridae | VOG0796, VOG10227, VOG0720, VOG4564, VOG6778, VOG4555, VOG1329, VOG2621, VOG5872, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG0725, VOG4545, VOG4605, VOG4599, VOG3390, VOG5535, VOG0641, VOG10230, VOG10380, VOG6422, VOG3490, VOG0275, VOG4602, VOG8483, VOG9667, VOG11075, VOG0650 |
| ONJNAMNJ_11 | 352450 | 379006 | False | Myoviridae | VOG9667, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG7895 |
| ONJNAMNJ_33 | 3215 | 24852 | False | Myoviridae | VOG4555, VOG4572, VOG1643, VOG4564, VOG4623, VOG1353, VOG1881, VOG1883, VOG1352, VOG4699, VOG6163, VOG1956, VOG1433, VOG1348, VOG0573, VOG4550, VOG4691, VOG4845, VOG7718, VOG3390, VOG7895, VOG0753, VOG0136, VOG10230, VOG2703 |
Phigaro v2.4.0 (Database: Jan. 2024 release)