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. |
|---|---|---|---|---|---|---|---|---|
| PLBLJLLE_5 | 346787 | 347707 | mphK | ARO:3004541 | mphK | 98.69 | 100.00 | CP010314.1 |
| PLBLJLLE_5 | 333453 | 334892 | lmrB | ARO:3002813 | lmrB | 99.79 | 100.42 | JYFL01000006.1 |
| PLBLJLLE_5 | 283798 | 284391 | tmrB | ARO:3003059 | tmrB | 97.46 | 100.00 | AL009126.3 |
| PLBLJLLE_3 | 225076 | 225414 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| PLBLJLLE_3 | 224759 | 225076 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| PLBLJLLE_2 | 156571 | 157740 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| PLBLJLLE_4 | 62664 | 63518 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| PLBLJLLE_4 | 43970 | 45172 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
| PLBLJLLE_5 | 29071 | 30714 | vmlR | ARO:3004476 | vmlR | 96.89 | 100.00 | NC_000964.3 |
| PLBLJLLE_6 | 27284 | 29854 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.53 | 100.00 | AL009126.3 |
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. |
|---|---|---|---|---|---|---|---|
| PLBLJLLE_1 | 38109 | 39485 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 99.35 | 100.00 | D12567 |
| PLBLJLLE_5 | 346787 | 347707 | mph(K) | Spiramycin, Telithromycin | 99.13 | 100.00 | NC_000964 |
| PLBLJLLE_4 | 62666 | 63518 | aadK | Streptomycin | 98.83 | 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. |
|---|---|---|---|---|---|---|---|---|
| PLBLJLLE_1 | 38109 | 39482 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 99.34 | 100.00 | WP_063856081.1 |
| PLBLJLLE_5 | 346790 | 347707 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.69 | 100.00 | WP_003246254.1 |
| PLBLJLLE_4 | 62667 | 63518 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| PLBLJLLE_5 | 29071 | 30711 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 96.89 | 100.00 | WP_003234144.1 |
| PLBLJLLE_1 | 41343 | 41861 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 94.22 | 100.00 | WP_003242546.1 |
| PLBLJLLE_2 | 460969 | 463566 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.60 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| PLBLJLLE_2 | 513637 | 515400 | dep/capD | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_389723 |
| PLBLJLLE_2 | 359902 | 360543 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.84 | 100.00 | NP_390062 |
| PLBLJLLE_1 | 527417 | 528598 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| PLBLJLLE_1 | 529081 | 530223 | capA | 0.0 | Capsule | Immune modulation | 99.65 | 100.00 | NP_391469 |
| PLBLJLLE_1 | 946734 | 953870 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.48 | 100.00 | NP_391076 |
| PLBLJLLE_1 | 945776 | 946714 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.47 | 100.00 | NP_391077 |
| PLBLJLLE_1 | 942093 | 942878 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| PLBLJLLE_1 | 528613 | 529062 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| PLBLJLLE_1 | 942904 | 944100 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.83 | 100.00 | NP_391079 |
| PLBLJLLE_1 | 944129 | 945748 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.27 | 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 |
|---|---|---|---|---|---|---|---|---|
| PLBLJLLE_7 | 31790 | 32926 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| PLBLJLLE_9 | 11260 | 10391 | pdxS | 1.11e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| PLBLJLLE_2 | 832491 | 831715 | CodY | 7.50e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| PLBLJLLE_1 | 690906 | 690337 | ClpP | 6.35e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| PLBLJLLE_3 | 373555 | 373163 | spxA1 | 4.14e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| PLBLJLLE_3 | 373555 | 373163 | spx | 2.47e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| PLBLJLLE_8 | 34738 | 34496 | SpoVG | 7.51e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| PLBLJLLE_5 | 83649 | 83452 | CspA | 1.93e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| PLBLJLLE_3 | 616791 | 616985 | CspB | 5.97e-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 |
|---|---|---|---|
| PLBLJLLE_1 | 0.0 | 1.0 | 0.0 |
| PLBLJLLE_2 | 0.0 | 1.0 | 0.0 |
| PLBLJLLE_3 | 0.0 | 1.0 | 0.0 |
| PLBLJLLE_4 | 0.0 | 1.0 | 0.0 |
| PLBLJLLE_5 | 0.0 | 1.0 | 0.0 |
| PLBLJLLE_6 | 0.0 | 1.0 | 0.0 |
| PLBLJLLE_7 | 0.0 | 1.0 | 0.0 |
| PLBLJLLE_8 | 0.0 | 1.0 | 0.0 |
| PLBLJLLE_9 | 0.0 | 1.0 | 0.0 |
| PLBLJLLE_10 | 1.0 | 0.0 | 1.0 |
| PLBLJLLE_12 | 1.0 | 0.0 | 1.0 |
| PLBLJLLE_14 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| PLBLJLLE_3 | 256360 | 282069 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490 |
Phigaro v2.4.0 (Database: Jan. 2024 release)