Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 7 | 17.83 |
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. |
|---|---|---|---|---|---|---|---|---|
| OIFGNGMM_10 | 568671 | 569525 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| OIFGNGMM_10 | 549882 | 551084 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| OIFGNGMM_11 | 425719 | 426036 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| OIFGNGMM_11 | 425381 | 425719 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| OIFGNGMM_10 | 357632 | 358801 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| OIFGNGMM_12 | 263893 | 266463 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| OIFGNGMM_13 | 187903 | 189549 | vmlR | ARO:3004476 | vmlR | 98.91 | 100.18 | NC_000964.3 |
| OIFGNGMM_14 | 155706 | 156299 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| OIFGNGMM_14 | 105150 | 106589 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.42 | JYFL01000006.1 |
| OIFGNGMM_14 | 92337 | 93257 | mphK | ARO:3004541 | mphK | 97.39 | 100.00 | CP010314.1 |
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. |
|---|---|---|---|---|---|---|---|
| OIFGNGMM_9 | 34673 | 36049 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 99.13 | 100.00 | D12567 |
| OIFGNGMM_10 | 568673 | 569525 | aadK | Streptomycin | 98.59 | 99.77 | M26879 |
| OIFGNGMM_14 | 92337 | 93257 | mph(K) | Spiramycin, Telithromycin | 96.96 | 100.00 | NC_000964 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| OIFGNGMM_9 | 34673 | 36046 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.91 | 100.00 | WP_063856081.1 |
| OIFGNGMM_13 | 187906 | 189549 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.91 | 100.00 | WP_003234144.1 |
| OIFGNGMM_10 | 568674 | 569525 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| OIFGNGMM_14 | 92337 | 93254 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.39 | 100.00 | WP_003246254.1 |
| OIFGNGMM_9 | 38061 | 38579 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| OIFGNGMM_10 | 59636 | 62233 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.71 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| OIFGNGMM_10 | 9587 | 11350 | dep/capD | 0.0 | Capsule | Immune modulation | 99.89 | 100.00 | NP_389723 |
| OIFGNGMM_10 | 154783 | 155424 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.84 | 100.00 | NP_390062 |
| OIFGNGMM_9 | 535463 | 536644 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| OIFGNGMM_9 | 941630 | 942415 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.62 | 100.00 | NP_391080 |
| OIFGNGMM_9 | 536659 | 537108 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| OIFGNGMM_9 | 537127 | 538269 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| OIFGNGMM_9 | 946271 | 953407 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.17 | 100.00 | NP_391076 |
| OIFGNGMM_9 | 942441 | 943637 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.91 | 100.00 | NP_391079 |
| OIFGNGMM_9 | 943666 | 945285 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.52 | 100.00 | NP_391078 |
| OIFGNGMM_9 | 945313 | 946251 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.30 | 100.00 | NP_391077 |
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 |
|---|---|---|---|---|---|---|---|---|
| OIFGNGMM_17 | 31799 | 32935 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| OIFGNGMM_2 | 11332 | 10463 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| OIFGNGMM_11 | 737436 | 738212 | CodY | 7.55e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| OIFGNGMM_9 | 691150 | 690581 | ClpP | 6.35e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| OIFGNGMM_11 | 276697 | 277089 | spxA1 | 5.94e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| OIFGNGMM_11 | 276697 | 277089 | spx | 3.54e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| OIFGNGMM_1 | 20641 | 20883 | SpoVG | 7.53e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| OIFGNGMM_13 | 139924 | 140121 | CspA | 9.45e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
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 |
|---|---|---|---|
| OIFGNGMM_1 | 0.0 | 1.0 | 0.0 |
| OIFGNGMM_2 | 0.0 | 1.0 | 0.0 |
| OIFGNGMM_3 | 0.0 | 1.0 | 0.0 |
| OIFGNGMM_4 | 0.0 | 1.0 | 0.0 |
| OIFGNGMM_5 | 0.0 | 1.0 | 0.0 |
| OIFGNGMM_6 | 0.0 | 1.0 | 0.0 |
| OIFGNGMM_9 | 0.0 | 1.0 | 0.0 |
| OIFGNGMM_10 | 0.0 | 1.0 | 0.0 |
| OIFGNGMM_11 | 0.0 | 1.0 | 0.0 |
| OIFGNGMM_12 | 0.0 | 1.0 | 0.0 |
| OIFGNGMM_13 | 0.0 | 1.0 | 0.0 |
| OIFGNGMM_14 | 0.0 | 1.0 | 0.0 |
| OIFGNGMM_15 | 0.0 | 1.0 | 0.0 |
| OIFGNGMM_16 | 1.0 | 0.0 | 1.0 |
| OIFGNGMM_17 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| OIFGNGMM_11 | 369559 | 395921 | False | Myoviridae | VOG4602, VOG9667, VOG10599, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG4612, VOG4705 |
| OIFGNGMM_16 | 10042 | 33778 | False | Siphoviridae | VOG0221, VOG4581, VOG4544, VOG4556, VOG4568, VOG4553, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG5852, VOG6163, VOG4605, VOG4599, VOG9244, VOG10944, VOG1024 |
Phigaro v2.4.0 (Database: Jan. 2024 release)