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. |
|---|---|---|---|---|---|---|---|---|
| PMNALKBO_1 | 2458743 | 2459597 | aadK | ARO:3002627 | aadK | 97.89 | 100.00 | AL009126.1 |
| PMNALKBO_1 | 2429161 | 2430363 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| PMNALKBO_1 | 2244392 | 2245561 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| PMNALKBO_1 | 1186624 | 1186941 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| PMNALKBO_1 | 1186286 | 1186624 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| PMNALKBO_1 | 720807 | 723377 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.53 | 100.00 | AL009126.3 |
| PMNALKBO_1 | 434142 | 435770 | vmlR | ARO:3004476 | vmlR | 98.15 | 99.09 | NC_000964.3 |
| PMNALKBO_1 | 177390 | 177983 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| PMNALKBO_1 | 126844 | 128277 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.00 | JYFL01000006.1 |
| PMNALKBO_1 | 114029 | 114949 | mphK | ARO:3004541 | mphK | 99.01 | 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. |
|---|---|---|---|---|---|---|---|
| PMNALKBO_1 | 114029 | 114949 | mph(K) | Spiramycin, Telithromycin | 99.02 | 100.00 | NC_000964 |
| PMNALKBO_1 | 2458743 | 2459597 | aadK | Streptomycin | 98.60 | 100.00 | M26879 |
| PMNALKBO_1 | 3929424 | 3930800 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.47 | 100.00 | D12567 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| PMNALKBO_1 | 114029 | 114937 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.01 | 99.02 | WP_003246254.1 |
| PMNALKBO_1 | 3929427 | 3930800 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.69 | 100.00 | WP_063856081.1 |
| PMNALKBO_1 | 434145 | 435770 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.15 | 98.90 | WP_003234144.1 |
| PMNALKBO_1 | 2458746 | 2459597 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.89 | 100.00 | WP_003229862.1 |
| PMNALKBO_1 | 3926874 | 3927392 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.75 | 100.00 | WP_003242546.1 |
| PMNALKBO_1 | 1945467 | 1948064 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| PMNALKBO_1 | 3016274 | 3017059 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.87 | 100.00 | NP_391080 |
| PMNALKBO_1 | 3428166 | 3429347 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| PMNALKBO_1 | 3012438 | 3013376 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| PMNALKBO_1 | 2044215 | 2044856 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 100.00 | NP_390062 |
| PMNALKBO_1 | 3426541 | 3427683 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| PMNALKBO_1 | 3005282 | 3012418 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.27 | 100.00 | NP_391076 |
| PMNALKBO_1 | 3427702 | 3428151 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| PMNALKBO_1 | 3015052 | 3016248 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.00 | 100.00 | NP_391079 |
| PMNALKBO_1 | 1896168 | 1897931 | dep/capD | 0.0 | Capsule | Immune modulation | 98.75 | 100.00 | NP_389723 |
| PMNALKBO_1 | 3013404 | 3015023 | 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 |
|---|---|---|---|---|---|---|---|---|
| PMNALKBO_1 | 4090070 | 4091206 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| PMNALKBO_1 | 3976338 | 3977207 | pdxS | 3.06e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| PMNALKBO_1 | 1500090 | 1500866 | CodY | 3.34e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| PMNALKBO_1 | 3271437 | 3272006 | ClpP | 2.48e-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 |
|---|---|---|---|
| PMNALKBO_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 |
|---|---|---|---|---|---|
| PMNALKBO_1 | 1128849 | 1156418 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
| PMNALKBO_1 | 1692386 | 1728071 | False | Siphoviridae | VOG0181, VOG1638, VOG0535, VOG1936, VOG4606, VOG2752, VOG5607, VOG0044, VOG0198, VOG0083, VOG4841, VOG4581, VOG1886, VOG4556, VOG4568, VOG4553, VOG5361, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG5910, VOG6163, VOG0801, VOG4619, VOG4626, VOG3390, VOG4705, VOG4612, VOG3390, VOG4705, VOG0641, VOG4574 |
| PMNALKBO_1 | 1859809 | 1883612 | False | Siphoviridae | VOG4707, VOG0641, VOG4705, VOG3390, VOG4612, VOG4626, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG4553, VOG4568, VOG4556, VOG4544, VOG4581, VOG4841, VOG0275, VOG0198 |
Phigaro v2.4.0 (Database: Jan. 2024 release)