Probiotic potential risk score
| ARGs (CARD) | VFs (VFDB) | PGs (PHI-base) | PPRS |
|---|---|---|---|
| 7 | 10 | 8 | 14.59 |
PPRS is classified as low-risk (≤4), medium-risk (4-6), and high-risk (≥6).
Antibiotic resistance genes
Comprehensive Antibiotic Resistance Database (CARD)
| ARO accession | ARO name | Identity | Coverage | CARD name | Accession no. |
|---|---|---|---|---|---|
| ARO:3006902 | BSU-1 | 98.88 | 100.00 | BSU-1 | NG_050942.1 |
| ARO:3002813 | lmrB | 97.69 | 100.00 | lmrB | JYFL01000006.1 |
| ARO:3003324 | Bacillus subtilis mprF | 96.50 | 100.00 | Bsub_mprF | AL009126.3 |
| ARO:3003064 | ykkD | 96.19 | 100.00 | ykkD | AL009126.1 |
| ARO:3004476 | vmlR | 92.98 | 98.90 | vmlR | NC_000964.3 |
| ARO:3003059 | tmrB | 88.32 | 101.02 | tmrB | AL009126.3 |
| ARO:3004541 | mphK | 81.05 | 100.00 | mphK | CP010314.1 |
RGI v6.0.0 (Database: CARD Variants v4.0.0, Jul. 2022 release)
ResFinder
| Resistance gene | Identity | Coverage | Phenotype | Accession no. |
|---|---|---|---|---|
| tet(L) | 89.18 | 100.00 | Tetracycline resistance | X08034 |
| mph(K) | 84.72 | 99.78 | Warning: gene is missing from Notes file. Please inform curator. | NC_000964 |
ResFinder v4.0 (Database: resfinder_db, May 2022 release)
AMRFinderPlus
| Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|
| blaBSU | BSU family class D beta-lactamase | BLASTX | 98.88 | 100.00 | WP_003235647.1 |
| vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 92.98 | 98.90 | WP_003234144.1 |
| tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 88.18 | 99.78 | WP_003242953.1 |
| satA | streptothricin N-acetyltransferase SatA | BLASTX | 82.08 | 100.00 | WP_003242546.1 |
| rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.86 | 100.00 | WP_087347987.1 |
| mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 81.05 | 100.00 | WP_003246254.1 |
AMRFinderPlus v3.10.42 (Database: Oct. 2022 release)
Virulence factors
Virulence Factor Database (VFDB)
| Gene ID | Gene name | Identity | Coverage | e-value | VF name | VF category | Accession no. |
|---|---|---|---|---|---|---|---|
| VFG016295 | capC | 97.33 | 100.00 | 0.0 | Capsule | Immune modulation | NP_391470 |
| VFG016299 | capB | 97.29 | 100.00 | 0.0 | Capsule | Immune modulation | NP_391471 |
| VFG016291 | capA | 94.75 | 100.00 | 0.0 | Capsule | Immune modulation | NP_391469 |
| VFG016303 | dep/capD | 93.93 | 100.00 | 0.0 | Capsule | Immune modulation | NP_389723 |
| VFG049999 | dhbA | 93.89 | 100.00 | 0.0 | Bacillibactin | Nutritional/Metabolic factor | NP_391080 |
| VFG016234 | hlyIII | 92.59 | 98.44 | 0.0 | Hemolysin III | Exotoxin | NP_390062 |
| VFG050021 | dhbE | 92.04 | 99.94 | 0.0 | Bacillibactin | Nutritional/Metabolic factor | NP_391078 |
| VFG050043 | dhbF | 91.99 | 100.01 | 0.0 | Bacillibactin | Nutritional/Metabolic factor | NP_391076 |
| VFG050032 | dhbB | 91.16 | 99.79 | 0.0 | Bacillibactin | Nutritional/Metabolic factor | NP_391077 |
| VFG050010 | dhbC | 90.98 | 100.00 | 0.0 | Bacillibactin | Nutritional/Metabolic factor | NP_391079 |
BLASTN v2.8.1+ (Database: VFDB, Jun. 2022 release)
VirulenceFinder
| Database | Virulence factor | Identity | Coverage | Protein function | Accession no. |
|---|---|---|---|---|---|
| No hit found | |||||
VirulenceFinder v2.0.3 (Database: virulencefinder_db, Dec. 2022 release)
Pathogenic genes
PHI-base
| Protein ID | Gene name | Identity | Coverage | e-value | Function | Gene ID |
|---|---|---|---|---|---|---|
| W8TRT9 | tufA | 86.04 | 99.24 | 0.0 | Elongation factor Tu | AHM69299 |
| B3GXB6 | pdxS | 83.79 | 97.97 | 0.0 | Encodes the putative pyridoxal 5-phosphate synthase subunit PdxS | ACE61268 |
| B7HLG1 | CodY | 81.08 | 99.62 | 5.00e-148 | Nutrient-responsive regulator | ACJ80679 |
| Q9RGX0 | spxA1 | 83.97 | 99.24 | 2.92e-83 | Redox-responsive transcription factor | AAF21893 |
| Q724L7 | SpoVG | 82.72 | 78.64 | 2.45e-47 | RNA-Binding Protein | AAT02994 |
| P0A355 | CspA | 92.42 | 98.51 | 1.99e-40 | Cold shock protein | CAA62903 |
| Q92AD0 | CspD | 80.00 | 97.01 | 1.17e-35 | Cold shock protein | CAC99957 |
| P0A357 | CspB | 83.08 | 97.01 | 3.10e-34 | Cold shock protein | CAD00094 |
BLASTP v2.8.1+ (Database: PHI-base v4.14, Nov. 2022 release)
Plasmid
PlasmidFinder
| Plasmid | Identity | Query / Template | Accession no. |
|---|---|---|---|
| No hit found | |||
PlasmidFinder 2.0.1 (Database: plasmidfinder_db, Jan. 2023 release)
Prophage
Phigaro
| Scaffold | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| PXUR01000001.1 | 321738 | 330581 | False | Siphoviridae | VOG7255, VOG5753, VOG10937, VOG6497, VOG0026, VOG5543, VOG8453, VOG1093, VOG10126, VOG3212, VOG1838, VOG4730 |
| PXUR01000001.1 | 334289 | 378063 | False | Siphoviridae | VOG0085, VOG4561, VOG4724, VOG5883, VOG1298, VOG0020, VOG4567, VOG9755, VOG4799, VOG0018, VOG10500, VOG8420, VOG0048, VOG0101, VOG2215, VOG0274, VOG9437, VOG4841, VOG4581, VOG4544, VOG4556, VOG4573, VOG4553, VOG5601, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG6163, VOG0801, VOG4619, VOG4660, VOG4612, VOG3390, VOG4705, VOG0753, VOG4824, VOG0602, VOG8440, VOG6116, VOG0705, VOG7531 |
| PXUR01000001.1 | 443312 | 470291 | False | Myoviridae | VOG9667, VOG10994, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
| PXUR01000006.1 | 291240 | 314571 | False | Siphoviridae | VOG0198, VOG0796, VOG10227, VOG0720, VOG4564, VOG6778, VOG4555, VOG4553, VOG1125, VOG0815, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG2621, VOG0725, VOG4545, VOG4605, VOG4599, VOG5535, VOG0753, VOG0136 |
Phigaro v2.3.0 (Database: Aug. 2017 release)