Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 4 | 16.88 |
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. |
|---|---|---|---|---|---|---|---|---|
| LEBFBLPE_1 | 2705244 | 2706098 | aadK | ARO:3002627 | aadK | 97.54 | 100.00 | AL009126.1 |
| LEBFBLPE_1 | 2686063 | 2687265 | blt | ARO:3003006 | blt | 98.75 | 100.00 | L32599.1 |
| LEBFBLPE_1 | 2459334 | 2460503 | bmr | ARO:3003007 | bmr | 99.23 | 100.00 | M33768.1 |
| LEBFBLPE_1 | 1349636 | 1349953 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| LEBFBLPE_1 | 1349298 | 1349636 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| LEBFBLPE_1 | 886212 | 888782 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| LEBFBLPE_1 | 589133 | 590776 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.00 | NC_000964.3 |
| LEBFBLPE_1 | 338938 | 339531 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| LEBFBLPE_1 | 288381 | 289814 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.00 | JYFL01000006.1 |
| LEBFBLPE_1 | 275566 | 276486 | mphK | ARO:3004541 | mphK | 98.69 | 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. |
|---|---|---|---|---|---|---|---|
| LEBFBLPE_1 | 4217474 | 4218850 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 99.93 | 100.00 | X08034 |
| LEBFBLPE_1 | 275566 | 276486 | mph(K) | Spiramycin, Telithromycin | 99.13 | 100.00 | NC_000964 |
| LEBFBLPE_1 | 2705246 | 2706098 | aadK | Streptomycin | 98.12 | 99.77 | M26879 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| LEBFBLPE_1 | 4217477 | 4218850 | tet(L) | tetracycline efflux MFS transporter Tet(L) | EXACTX | 100.00 | 100.00 | WP_003242953.1 |
| LEBFBLPE_1 | 275566 | 276483 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.69 | 100.00 | WP_003246254.1 |
| LEBFBLPE_1 | 589136 | 590776 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| LEBFBLPE_1 | 2705247 | 2706098 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.54 | 100.00 | WP_003229862.1 |
| LEBFBLPE_1 | 4215003 | 4215521 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| LEBFBLPE_1 | 2161612 | 2164209 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| LEBFBLPE_1 | 3741561 | 3742742 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| LEBFBLPE_1 | 2260213 | 2260854 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 100.00 | NP_390062 |
| LEBFBLPE_1 | 3316748 | 3323884 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.47 | 100.00 | NP_391076 |
| LEBFBLPE_1 | 3327740 | 3328525 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| LEBFBLPE_1 | 3323904 | 3324842 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391077 |
| LEBFBLPE_1 | 3326518 | 3327714 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.17 | 100.00 | NP_391079 |
| LEBFBLPE_1 | 2114646 | 2116409 | dep/capD | 0.0 | Capsule | Immune modulation | 99.15 | 100.00 | NP_389723 |
| LEBFBLPE_1 | 3324870 | 3326489 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.07 | 100.00 | NP_391078 |
| LEBFBLPE_1 | 3739936 | 3741078 | capA | 0.0 | Capsule | Immune modulation | 98.95 | 100.00 | NP_391469 |
| LEBFBLPE_1 | 3741097 | 3741546 | capC | 0.0 | Capsule | Immune modulation | 98.67 | 100.00 | 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 |
|---|---|---|---|---|---|---|---|---|
| LEBFBLPE_1 | 133009 | 134145 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| LEBFBLPE_1 | 19278 | 20147 | pdxS | 3.15e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| LEBFBLPE_1 | 1659448 | 1660224 | CodY | 3.44e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| LEBFBLPE_1 | 3580735 | 3581304 | ClpP | 2.55e-98 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
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 |
|---|---|---|---|
| LEBFBLPE_1 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| LEBFBLPE_1 | 1291918 | 1319814 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705 |
| LEBFBLPE_1 | 1855449 | 1876301 | False | Unknown | VOG0054, VOG8537, VOG10230, VOG7900, VOG9712, VOG5042, VOG3389, VOG4910, VOG9312, VOG0275, VOG7930, VOG8610, VOG4705 |
| LEBFBLPE_1 | 1883044 | 1890983 | False | Myoviridae | VOG10940, VOG5721, VOG5779, VOG5722, VOG4570 |
| LEBFBLPE_1 | 2637529 | 2667378 | False | Myoviridae | VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG9315, VOG0796, VOG4673, VOG4693, VOG0189, VOG11060, VOG1309 |
| LEBFBLPE_1 | 2899196 | 2923085 | False | Myoviridae | VOG0221, VOG6116, VOG9203, VOG10500, VOG4574, VOG0136, VOG0753, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG4550, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG4553, VOG4555 |
Phigaro v2.4.0 (Database: Jan. 2024 release)