Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 4 | 2 | 6 | 7.48 |
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. |
|---|---|---|---|---|---|---|---|---|
| OGMIPIDP_4 | 48106 | 49152 | 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. |
|---|---|---|---|---|---|---|---|
| OGMIPIDP_4 | 48109 | 49152 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.90 | 99.33 | KR610408 |
| OGMIPIDP_3 | 144406 | 145782 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 87.15 | 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. |
|---|---|---|---|---|---|---|---|---|
| OGMIPIDP_4 | 48109 | 49152 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 92.24 | 99.71 | WP_012116915.1 |
| OGMIPIDP_3 | 144412 | 145782 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 86.43 | 99.78 | WP_003242953.1 |
| OGMIPIDP_4 | 50903 | 51421 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 82.66 | 100.00 | WP_003242546.1 |
| OGMIPIDP_13 | 206958 | 209555 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| OGMIPIDP_6 | 497670 | 498851 | capB | 0.0 | Capsule | Immune modulation | 81.87 | 99.66 | NP_391471 |
| OGMIPIDP_6 | 497206 | 497655 | 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 |
|---|---|---|---|---|---|---|---|---|
| OGMIPIDP_18 | 27598 | 26462 | tufA | 0.0 | elongation factor Tu | 86.54 | 95.69 | AHM69299 |
| OGMIPIDP_17 | 4317 | 5186 | pdxS | 6.50e-153 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| OGMIPIDP_5 | 126534 | 125758 | CodY | 6.80e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| OGMIPIDP_1 | 288833 | 289225 | spxA1 | 4.31e-70 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| OGMIPIDP_4 | 65648 | 65451 | CspA | 3.19e-32 | cold shock protein | 92.42 | 100.00 | CAA62903 |
| OGMIPIDP_10 | 164741 | 164547 | CspD | 6.92e-28 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| OGMIPIDP_10 | 164741 | 164544 | CspB | 1.44e-27 | cold shock protein | 80.30 | 100.00 | CAD00094 |
| OGMIPIDP_4 | 65648 | 65454 | 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 |
|---|---|---|---|
| OGMIPIDP_1 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_2 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_3 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_4 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_5 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_6 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_7 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_8 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_9 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_10 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_12 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_13 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_14 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_15 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_16 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_17 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_18 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_19 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_20 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_21 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_22 | 0.0 | 1.0 | 0.0 |
| OGMIPIDP_23 | 1.0 | 0.0 | 1.0 |
| OGMIPIDP_26 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| OGMIPIDP_1 | 3086 | 28318 | False | Siphoviridae | VOG6581, VOG6517, VOG6242, VOG0198, VOG0275, VOG7884, VOG0531, VOG0519, VOG4544, VOG4556, VOG4556, VOG4573, VOG4553, VOG3435, VOG0204, VOG4589, VOG0704, VOG0539, VOG4586, VOG0541, VOG6163, VOG0801, VOG4619, VOG4660, VOG4612, VOG3390, VOG4705, VOG0641 |
| OGMIPIDP_3 | 66609 | 94528 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG0979, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG6480, VOG4688, VOG4773, VOG10227, VOG0796, VOG10057 |
| OGMIPIDP_3 | 98327 | 103846 | False | Siphoviridae | VOG4693, VOG0189, VOG11060, VOG1309, VOG4600, VOG4603 |
| OGMIPIDP_5 | 34171 | 58497 | False | Siphoviridae | VOG5534, VOG7718, VOG3390, VOG5008, VOG8610, VOG7930, VOG0275, VOG1637, VOG9312, VOG4910, VOG3389, VOG5042, VOG9712, VOG4660, VOG10230, VOG8537 |
| OGMIPIDP_5 | 450237 | 478503 | False | Myoviridae | VOG0753, VOG4705, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG9667, VOG4602 |
| OGMIPIDP_9 | 5999 | 30627 | False | Siphoviridae | VOG5447, VOG4972, VOG4681, VOG0796, VOG10227, VOG0720, VOG0720, VOG4564, VOG6778, VOG4555, VOG1329, VOG2621, VOG5872, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG0725, VOG4545, VOG4605, VOG4599, VOG3390, VOG5535, VOG0753, VOG0136 |
| OGMIPIDP_20 | 3522 | 10432 | False | Unknown | VOG1309, VOG4600, VOG4552, VOG0650, VOG11075, VOG9667, VOG8483 |
Phigaro v2.4.0 (Database: Jan. 2024 release)