Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 8 | 18.25 |
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. |
|---|---|---|---|---|---|---|---|---|
| OAFPNKEJ_4 | 607255 | 608109 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| OAFPNKEJ_6 | 592839 | 593177 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| OAFPNKEJ_6 | 592522 | 592839 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| OAFPNKEJ_4 | 588566 | 589768 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| OAFPNKEJ_4 | 367161 | 368330 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| OAFPNKEJ_5 | 344774 | 345694 | mphK | ARO:3004541 | mphK | 99.02 | 100.00 | CP010314.1 |
| OAFPNKEJ_5 | 331437 | 332876 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.42 | JYFL01000006.1 |
| OAFPNKEJ_5 | 281721 | 282314 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| OAFPNKEJ_1 | 261501 | 264071 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| OAFPNKEJ_5 | 29303 | 30946 | vmlR | ARO:3004476 | vmlR | 98.90 | 100.00 | NC_000964.3 |
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. |
|---|---|---|---|---|---|---|---|
| OAFPNKEJ_2 | 862758 | 864134 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 99.49 | 100.00 | D12567 |
| OAFPNKEJ_4 | 607257 | 608109 | aadK | Streptomycin | 99.30 | 99.77 | M26879 |
| OAFPNKEJ_5 | 344774 | 345694 | mph(K) | Spiramycin, Telithromycin | 98.05 | 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. |
|---|---|---|---|---|---|---|---|---|
| OAFPNKEJ_2 | 862761 | 864134 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 99.34 | 100.00 | WP_063856081.1 |
| OAFPNKEJ_5 | 344777 | 345694 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.02 | 100.00 | WP_003246254.1 |
| OAFPNKEJ_5 | 29303 | 30943 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.90 | 100.00 | WP_003234144.1 |
| OAFPNKEJ_4 | 607258 | 608109 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| OAFPNKEJ_2 | 860237 | 860755 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| OAFPNKEJ_4 | 59764 | 62361 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.17 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| OAFPNKEJ_8 | 113107 | 113892 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| OAFPNKEJ_8 | 109271 | 110209 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| OAFPNKEJ_8 | 102117 | 109251 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.61 | 99.97 | NP_391076 |
| OAFPNKEJ_2 | 354731 | 355912 | capB | 0.0 | Capsule | Immune modulation | 99.58 | 100.00 | NP_391471 |
| OAFPNKEJ_2 | 353106 | 354248 | capA | 0.0 | Capsule | Immune modulation | 99.39 | 100.00 | NP_391469 |
| OAFPNKEJ_4 | 167765 | 168406 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.38 | 100.00 | NP_390062 |
| OAFPNKEJ_2 | 354267 | 354716 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| OAFPNKEJ_8 | 111885 | 113081 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391079 |
| OAFPNKEJ_4 | 9771 | 11534 | dep/capD | 0.0 | Capsule | Immune modulation | 98.87 | 100.00 | NP_389723 |
| OAFPNKEJ_8 | 110237 | 111856 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.33 | 100.00 | NP_391078 |
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 |
|---|---|---|---|---|---|---|---|---|
| OAFPNKEJ_7 | 28060 | 26924 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| OAFPNKEJ_13 | 11326 | 10457 | pdxS | 1.13e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| OAFPNKEJ_6 | 282664 | 281888 | CodY | 6.10e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| OAFPNKEJ_2 | 192558 | 193127 | ClpP | 5.40e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| OAFPNKEJ_6 | 742962 | 742570 | spxA1 | 4.80e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| OAFPNKEJ_6 | 742962 | 742570 | spx | 2.86e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| OAFPNKEJ_12 | 20720 | 20962 | SpoVG | 7.53e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| OAFPNKEJ_5 | 79317 | 79120 | CspA | 1.88e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| OAFPNKEJ_9 | 33099 | 32905 | CspB | 2.45e-27 | cold shock protein | 83.08 | 98.48 | CAD00094 |
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 |
|---|---|---|---|
| OAFPNKEJ_1 | 0.0 | 1.0 | 0.0 |
| OAFPNKEJ_2 | 0.0 | 1.0 | 0.0 |
| OAFPNKEJ_4 | 0.0 | 1.0 | 0.0 |
| OAFPNKEJ_5 | 0.0 | 1.0 | 0.0 |
| OAFPNKEJ_6 | 0.0 | 1.0 | 0.0 |
| OAFPNKEJ_7 | 0.0 | 1.0 | 0.0 |
| OAFPNKEJ_8 | 0.0 | 1.0 | 0.0 |
| OAFPNKEJ_9 | 0.0 | 1.0 | 0.0 |
| OAFPNKEJ_10 | 0.0 | 1.0 | 0.0 |
| OAFPNKEJ_12 | 0.0 | 1.0 | 0.0 |
| OAFPNKEJ_13 | 0.0 | 1.0 | 0.0 |
| OAFPNKEJ_14 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| OAFPNKEJ_4 | 538867 | 568903 | False | Myoviridae | VOG7718, VOG4862, VOG4691, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG10227, VOG0796, VOG4673, VOG9587, VOG4693, VOG0189, VOG11060, VOG1309, VOG4600 |
| OAFPNKEJ_6 | 622978 | 649108 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
Phigaro v2.4.0 (Database: Jan. 2024 release)