Probiotic potential risk score
| ARGs (CARD) | VFs (VFDB) | PGs (PHI-base) | PPRS |
|---|---|---|---|
| 1 | 2 | 7 | 7.35 |
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:3002814 | clbA | 92.77 | 99.71 | clbA | CP006845.1 |
RGI v6.0.0 (Database: CARD Variants v4.0.0, Jul. 2022 release)
ResFinder
| Resistance gene | Identity | Coverage | Phenotype | Accession no. |
|---|---|---|---|---|
| cfr(B) | 88.90 | 99.33 | Warning: gene is missing from Notes file. Please inform curator. | KR610408 |
| tet(L) | 87.36 | 100.00 | Tetracycline resistance | X08034 |
ResFinder v4.0 (Database: resfinder_db, May 2022 release)
AMRFinderPlus
| Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|
| clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 92.24 | 99.71 | WP_012116915.1 |
| tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 87.09 | 99.78 | WP_003242953.1 |
| satA | streptothricin N-acetyltransferase SatA | BLASTX | 82.66 | 100.00 | WP_003242546.1 |
| rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.06 | 100.00 | WP_087347987.1 |
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 | 81.87 | 99.66 | 0.0 | Capsule | Immune modulation | NP_391471 |
| VFG016295 | capC | 83.59 | 99.78 | 1.25e-118 | Capsule | Immune modulation | NP_391470 |
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 | 86.55 | 99.24 | 0.0 | Elongation factor Tu | AHM69299 |
| B3GXB6 | pdxS | 84.83 | 97.97 | 0.0 | Encodes the putative pyridoxal 5-phosphate synthase subunit PdxS | ACE61268 |
| B7HLG1 | CodY | 81.08 | 99.62 | 5.93e-148 | Nutrient-responsive regulator | ACJ80679 |
| Q9RGX0 | spxA1 | 83.21 | 99.24 | 2.04e-82 | Redox-responsive transcription factor | AAF21893 |
| P0A355 | CspA | 92.42 | 98.51 | 2.38e-40 | Cold shock protein | CAA62903 |
| Q92AD0 | CspD | 80.00 | 97.01 | 1.11e-35 | Cold shock protein | CAC99957 |
| P0A357 | CspB | 84.61 | 97.01 | 9.67e-35 | 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 |
|---|---|---|---|---|---|
| VRTU01000001.1 | 352437 | 377824 | False | Myoviridae | VOG9667, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718 |
| VRTU01000001.1 | 770791 | 794799 | False | Siphoviridae | VOG0054, VOG8537, VOG10230, VOG4660, VOG9712, VOG5042, VOG3389, VOG4910, VOG6163, VOG9312, VOG2090, VOG2091, VOG0275, VOG7930, VOG8610, VOG4705, VOG3390, VOG7718 |
| VRTU01000001.1 | 1020606 | 1057618 | False | Siphoviridae | VOG0275, VOG4602, VOG9667, VOG6495, VOG4552, VOG0650, VOG7438, VOG1047, VOG0021, VOG1565, VOG0026, VOG4609, VOG0327, VOG4548, VOG0198, VOG0531, VOG4581, VOG4544, VOG5051, VOG4556, VOG4568, VOG4553, VOG5361, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG6163, VOG0801, VOG4772, VOG4660, VOG4612, VOG3390, VOG7896, VOG0641 |
| VRTU01000002.1 | 610890 | 634227 | False | Siphoviridae | VOG2797, VOG0198, VOG0275, VOG1837, VOG4841, VOG0713, VOG4581, VOG1886, VOG3607, VOG4556, VOG4568, VOG4553, VOG5361, VOG0204, VOG1266, VOG9583, VOG0704, VOG4586, VOG0541, VOG5910, VOG0801, VOG4772, VOG4660, VOG4612, VOG3390 |
| VRTU01000002.1 | 798781 | 823834 | False | Siphoviridae | VOG6495, VOG1655, VOG10069, VOG8909, VOG4581, VOG4544, VOG4556, VOG4568, VOG4553, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG6163, VOG0801, VOG4619, VOG4660, VOG4612, VOG4705, VOG0753, VOG4574 |
| VRTU01000002.1 | 970617 | 999134 | False | Siphoviridae | VOG5327, VOG1183, VOG0275, VOG5023, VOG3699, VOG2613, VOG0692, VOG4555, VOG3676, VOG5361, VOG2565, VOG11074, VOG6163, VOG0801, VOG4619, VOG4660, VOG4612, VOG3390, VOG4705, VOG5221, VOG4824, VOG0602, VOG6116, VOG10051 |
| VRTU01000002.1 | 1023487 | 1045073 | False | Siphoviridae | VOG4841, VOG4556, VOG0531, VOG4581, VOG4544, VOG5051, VOG4556, VOG4568, VOG4553, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG5910, VOG6163, VOG0801, VOG4619, VOG4660, VOG4612, VOG3390, VOG4705, VOG0641 |
| VRTU01000005.1 | 13163 | 27120 | False | Siphoviridae | VOG4602, VOG8483, VOG9667, VOG11075, VOG0650, VOG4552, VOG4600, VOG1309, VOG9093, VOG0189, VOG0044, VOG0536, VOG1336, VOG4658, VOG8569, VOG0397, VOG6581 |
| VRTU01000005.1 | 29492 | 58559 | 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 v2.3.0 (Database: Aug. 2017 release)