Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 10 | 18.55 |
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. |
|---|---|---|---|---|---|---|---|---|
| PMOLAALB_444 | 463685 | 464887 | blt | ARO:3003006 | blt | 98.50 | 100.00 | L32599.1 |
| PMOLAALB_444 | 436535 | 437389 | aadK | ARO:3002627 | aadK | 97.54 | 100.00 | AL009126.1 |
| PMOLAALB_777 | 256129 | 258699 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| PMOLAALB_222 | 162147 | 162485 | ykkC | ARO:3003063 | ykkC | 99.11 | 100.00 | AL009126.1 |
| PMOLAALB_222 | 161830 | 162147 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| PMOLAALB_333 | 156490 | 157659 | bmr | ARO:3003007 | bmr | 98.97 | 100.00 | M33768.1 |
| PMOLAALB_665 | 152741 | 153334 | tmrB | ARO:3003059 | tmrB | 97.46 | 100.00 | AL009126.3 |
| PMOLAALB_665 | 102237 | 103670 | lmrB | ARO:3002813 | lmrB | 99.79 | 100.00 | JYFL01000006.1 |
| PMOLAALB_665 | 89477 | 90397 | mphK | ARO:3004541 | mphK | 96.08 | 100.00 | CP010314.1 |
| PMOLAALB_868 | 59159 | 60787 | vmlR | ARO:3004476 | vmlR | 95.56 | 99.09 | 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. |
|---|---|---|---|---|---|---|---|
| PMOLAALB_444 | 436535 | 437389 | aadK | Streptomycin | 98.48 | 100.00 | M26879 |
| PMOLAALB_665 | 89477 | 90397 | mph(K) | Spiramycin, Telithromycin | 96.31 | 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. |
|---|---|---|---|---|---|---|---|---|
| PMOLAALB_444 | 436535 | 437386 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.54 | 100.00 | WP_003229862.1 |
| PMOLAALB_665 | 89477 | 90394 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 96.08 | 100.00 | WP_003246254.1 |
| PMOLAALB_868 | 59165 | 60787 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 95.56 | 98.90 | WP_003234144.1 |
| PMOLAALB_111 | 1022256 | 1022774 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.75 | 100.00 | WP_003242546.1 |
| PMOLAALB_333 | 447990 | 450587 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| PMOLAALB_111 | 530152 | 531333 | capB | 0.0 | Capsule | Immune modulation | 99.49 | 100.00 | NP_391471 |
| PMOLAALB_111 | 529688 | 530137 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| PMOLAALB_111 | 528527 | 529669 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| PMOLAALB_111 | 113197 | 113982 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.98 | 100.00 | NP_391080 |
| PMOLAALB_333 | 356577 | 357218 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 98.91 | 100.00 | NP_390062 |
| PMOLAALB_111 | 109361 | 110299 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.72 | 100.00 | NP_391077 |
| PMOLAALB_111 | 111975 | 113171 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.41 | 100.00 | NP_391079 |
| PMOLAALB_111 | 102205 | 109341 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.39 | 100.00 | NP_391076 |
| PMOLAALB_333 | 494079 | 495842 | dep/capD | 0.0 | Capsule | Immune modulation | 97.96 | 100.00 | NP_389723 |
| PMOLAALB_111 | 110327 | 111946 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.47 | 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 |
|---|---|---|---|---|---|---|---|---|
| PMOLAALB_11 | 28066 | 26930 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| PMOLAALB_33 | 4493 | 5362 | pdxS | 6.93e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| PMOLAALB_555 | 150787 | 151563 | CodY | 3.02e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| PMOLAALB_111 | 373451 | 374020 | ClpP | 6.43e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| PMOLAALB_222 | 313303 | 312911 | spxA1 | 3.75e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| PMOLAALB_222 | 313303 | 312911 | spx | 2.23e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| PMOLAALB_517 | 214 | 17 | eha | 1.34e-40 | hemolysin activator protein | 92.42 | 100.00 | AFS33086 |
| PMOLAALB_22 | 34712 | 34470 | SpoVG | 7.52e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| PMOLAALB_868 | 9397 | 9594 | CspA | 3.86e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| PMOLAALB_333 | 344614 | 344420 | CspD | 3.10e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| PMOLAALB_222 | 555760 | 555954 | CspB | 5.40e-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. |
|---|---|---|---|---|---|---|
| PMOLAALB_77 | 3254 | 3440 | Col(SD853) | 187 / 194 | 84.49 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| PMOLAALB_11 | 0.0 | 1.0 | 0.0 |
| PMOLAALB_22 | 0.0 | 1.0 | 0.0 |
| PMOLAALB_33 | 0.0 | 1.0 | 0.0 |
| PMOLAALB_44 | 0.0 | 1.0 | 0.0 |
| PMOLAALB_55 | 0.0 | 1.0 | 0.0 |
| PMOLAALB_66 | 0.0 | 1.0 | 0.0 |
| PMOLAALB_77 | 1.0 | 0.0 | 1.0 |
| PMOLAALB_88 | 0.0 | 1.0 | 0.0 |
| PMOLAALB_99 | 0.0 | 1.0 | 0.0 |
| PMOLAALB_110 | 1.0 | 0.0 | 1.0 |
| PMOLAALB_111 | 0.0 | 1.0 | 0.0 |
| PMOLAALB_122 | 1.0 | 0.0 | 1.0 |
| PMOLAALB_177 | 1.0 | 0.0 | 1.0 |
| PMOLAALB_222 | 0.0 | 1.0 | 0.0 |
| PMOLAALB_333 | 0.0 | 1.0 | 0.0 |
| PMOLAALB_444 | 0.0 | 1.0 | 0.0 |
| PMOLAALB_555 | 0.0 | 1.0 | 0.0 |
| PMOLAALB_665 | 0.0 | 1.0 | 0.0 |
| PMOLAALB_777 | 0.0 | 1.0 | 0.0 |
| PMOLAALB_868 | 0.0 | 1.0 | 0.0 |
| PMOLAALB_879 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| PMOLAALB_222 | 191997 | 219816 | False | Myoviridae | VOG0753, VOG4705, VOG3390, 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)