Probiotic potential risk score
| ARGs (CARD) | VFs (VFDB) | PGs (PHI-base) | PPRS |
|---|---|---|---|
| 8 | 10 | 9 | 15.65 |
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:3003324 | Bacillus subtilis mprF | 99.77 | 100.00 | Bsub_mprF | AL009126.3 |
| ARO:3003007 | bmr | 99.23 | 100.00 | bmr | M33768.1 |
| ARO:3003063 | ykkC | 99.11 | 100.00 | ykkC | AL009126.1 |
| ARO:3002813 | lmrB | 98.95 | 100.00 | lmrB | JYFL01000006.1 |
| ARO:3004476 | vmlR | 98.18 | 100.18 | vmlR | NC_000964.3 |
| ARO:3003064 | ykkD | 98.10 | 100.00 | ykkD | AL009126.1 |
| ARO:3003059 | tmrB | 97.46 | 100.00 | tmrB | AL009126.3 |
| ARO:3004541 | mphK | 97.06 | 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. |
|---|---|---|---|---|
| mph(K) | 97.50 | 100.00 | 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. |
|---|---|---|---|---|---|
| vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.18 | 100.00 | WP_003234144.1 |
| mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.06 | 100.00 | WP_003246254.1 |
| satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.75 | 100.00 | WP_003242546.1 |
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. |
|---|---|---|---|---|---|---|---|
| VFG016299 | capB | 99.66 | 100.00 | 0.0 | Capsule | Immune modulation | NP_391471 |
| VFG016291 | capA | 99.12 | 100.00 | 0.0 | Capsule | Immune modulation | NP_391469 |
| VFG049999 | dhbA | 98.98 | 100.00 | 0.0 | Bacillibactin | Nutritional/Metabolic factor | NP_391080 |
| VFG016295 | capC | 98.92 | 82.67 | 0.0 | Capsule | Immune modulation | NP_391470 |
| VFG016303 | dep/capD | 98.81 | 100.00 | 0.0 | Capsule | Immune modulation | NP_389723 |
| VFG050032 | dhbB | 98.79 | 78.91 | 0.0 | Bacillibactin | Nutritional/Metabolic factor | NP_391077 |
| VFG050010 | dhbC | 98.41 | 100.00 | 0.0 | Bacillibactin | Nutritional/Metabolic factor | NP_391079 |
| VFG050043 | dhbF | 97.98 | 100.00 | 0.0 | Bacillibactin | Nutritional/Metabolic factor | NP_391076 |
| VFG016234 | hlyIII | 97.82 | 100.00 | 0.0 | Hemolysin III | Exotoxin | NP_390062 |
| VFG050021 | dhbE | 97.28 | 99.94 | 0.0 | Bacillibactin | Nutritional/Metabolic factor | NP_391078 |
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 | 85.79 | 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 | 5.62e-148 | Nutrient-responsive regulator | ACJ80679 |
| P63786 | ClpP | 81.05 | 96.94 | 1.60e-114 | Part of proteolytic complex | BAB94595 |
| Q9RGX0 | spxA1 | 83.97 | 99.24 | 9.09e-83 | Redox-responsive transcription factor | AAF21893 |
| Q724L7 | SpoVG | 82.72 | 78.64 | 2.34e-47 | RNA-Binding Protein | AAT02994 |
| P0A355 | CspA | 89.39 | 98.51 | 3.67e-39 | Cold shock protein | CAA62903 |
| Q92AD0 | CspD | 81.54 | 97.01 | 2.01e-36 | Cold shock protein | CAC99957 |
| P0A357 | CspB | 83.08 | 97.01 | 2.95e-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 |
|---|---|---|---|---|---|
| JACAAP010000001.1 | 54394 | 76948 | False | Siphoviridae | VOG7718, VOG3390, VOG4705, VOG5008, VOG8610, VOG7930, VOG0275, VOG9312, VOG4910, VOG3389, VOG5042, VOG9712, VOG4660, VOG8440 |
| JACAAP010000002.1 | 273201 | 304926 | False | Siphoviridae | VOG4574, VOG0641, VOG4705, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG4553, VOG4568, VOG4556, VOG4581, VOG4841, VOG0198, VOG1884, VOG0025, VOG0025, VOG9600, VOG11060, VOG4552, VOG0737, VOG0181 |
| JACAAP010000002.1 | 769711 | 796326 | False | Myoviridae | VOG0753, VOG4705, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG9315, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667, VOG4602 |
| JACAAP010000002.1 | 869219 | 888346 | False | Siphoviridae | VOG5535, VOG4599, VOG4605, VOG9745, VOG0701, VOG10044, VOG6548, VOG0697, VOG0696, VOG0695, VOG2621, VOG4572, VOG9317, VOG0692, VOG0691, VOG10227, VOG0796, VOG0052 |
| JACAAP010000002.1 | 891570 | 902716 | False | Siphoviridae | VOG0536, VOG0044, VOG0189, VOG4566, VOG1309, VOG4600, VOG0125, VOG1878, VOG4552, VOG8241, VOG4603, VOG6495, VOG4662, VOG4602, VOG0275 |
Phigaro v2.3.0 (Database: Aug. 2017 release)