Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 9 | 18.03 |
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. |
|---|---|---|---|---|---|---|---|---|
| MDENPFBE_3 | 592070 | 592924 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| MDENPFBE_3 | 573791 | 574990 | blt | ARO:3003006 | blt | 98.75 | 99.75 | L32599.1 |
| MDENPFBE_2 | 511779 | 512117 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| MDENPFBE_2 | 511462 | 511779 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| MDENPFBE_3 | 390229 | 391398 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| MDENPFBE_5 | 139299 | 139892 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| MDENPFBE_5 | 88747 | 90186 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.42 | JYFL01000006.1 |
| MDENPFBE_5 | 75931 | 76851 | mphK | ARO:3004541 | mphK | 97.06 | 100.00 | CP010314.1 |
| MDENPFBE_6 | 27379 | 29949 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.53 | 100.00 | AL009126.3 |
| MDENPFBE_8 | 13432 | 15075 | vmlR | ARO:3004476 | vmlR | 97.07 | 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. |
|---|---|---|---|---|---|---|---|
| MDENPFBE_3 | 592070 | 592924 | aadK | Streptomycin | 98.60 | 100.00 | M26879 |
| MDENPFBE_5 | 75931 | 76851 | mph(K) | Spiramycin, Telithromycin | 97.07 | 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. |
|---|---|---|---|---|---|---|---|---|
| MDENPFBE_3 | 592073 | 592924 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| MDENPFBE_8 | 13432 | 15072 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 97.07 | 100.00 | WP_003234144.1 |
| MDENPFBE_5 | 75931 | 76848 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.06 | 100.00 | WP_003246254.1 |
| MDENPFBE_1 | 1044082 | 1044600 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 94.80 | 100.00 | WP_003242546.1 |
| MDENPFBE_3 | 55118 | 57715 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.40 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| MDENPFBE_1 | 545391 | 546572 | capB | 0.0 | Capsule | Immune modulation | 99.58 | 100.00 | NP_391471 |
| MDENPFBE_1 | 109125 | 110063 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391077 |
| MDENPFBE_3 | 8796 | 10559 | dep/capD | 0.0 | Capsule | Immune modulation | 99.26 | 100.00 | NP_389723 |
| MDENPFBE_1 | 112961 | 113746 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.11 | 100.00 | NP_391080 |
| MDENPFBE_3 | 156623 | 157264 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.06 | 100.00 | NP_390062 |
| MDENPFBE_1 | 543766 | 544908 | capA | 0.0 | Capsule | Immune modulation | 99.04 | 100.00 | NP_391469 |
| MDENPFBE_1 | 544927 | 545376 | capC | 0.0 | Capsule | Immune modulation | 98.67 | 100.00 | NP_391470 |
| MDENPFBE_1 | 101969 | 109105 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.32 | 100.00 | NP_391076 |
| MDENPFBE_1 | 110091 | 111710 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.84 | 100.00 | NP_391078 |
| MDENPFBE_1 | 111739 | 112935 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 96.66 | 100.00 | NP_391079 |
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 |
|---|---|---|---|---|---|---|---|---|
| MDENPFBE_11 | 31902 | 33038 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| MDENPFBE_19 | 4284 | 5153 | pdxS | 1.11e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| MDENPFBE_2 | 201141 | 200365 | CodY | 7.33e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| MDENPFBE_1 | 381494 | 382063 | ClpP | 6.50e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| MDENPFBE_2 | 671364 | 670972 | spxA1 | 5.03e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| MDENPFBE_2 | 671364 | 670972 | spx | 3.00e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| MDENPFBE_12 | 20533 | 20775 | SpoVG | 7.49e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| MDENPFBE_8 | 70744 | 70547 | CspA | 5.55e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| MDENPFBE_14 | 31744 | 31550 | CspB | 3.39e-28 | cold shock protein | 83.08 | 98.48 | CAD00094 |
| MDENPFBE_3 | 168495 | 168689 | CspD | 3.97e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
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 |
|---|---|---|---|
| MDENPFBE_1 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_2 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_3 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_4 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_5 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_6 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_7 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_8 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_9 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_10 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_11 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_12 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_13 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_14 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_15 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_16 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_17 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_18 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_19 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_20 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_21 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_23 | 1.0 | 0.0 | 1.0 |
| MDENPFBE_24 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_26 | 1.0 | 0.0 | 1.0 |
| MDENPFBE_27 | 1.0 | 0.0 | 1.0 |
| MDENPFBE_28 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_31 | 0.0 | 1.0 | 0.0 |
| MDENPFBE_32 | 1.0 | 0.0 | 1.0 |
| MDENPFBE_33 | 1.0 | 0.0 | 1.0 |
| MDENPFBE_34 | 1.0 | 0.0 | 1.0 |
| MDENPFBE_35 | 1.0 | 0.0 | 1.0 |
| MDENPFBE_36 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| MDENPFBE_2 | 541613 | 568361 | False | Myoviridae | VOG0753, 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)