Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 11 | 10 | 9 | 17.38 |
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. |
|---|---|---|---|---|---|---|---|---|
| DBGEFFLF_11 | 497334 | 497672 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| DBGEFFLF_11 | 497017 | 497334 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| DBGEFFLF_24 | 344246 | 345166 | mphK | ARO:3004541 | mphK | 97.39 | 100.00 | CP010314.1 |
| DBGEFFLF_24 | 330913 | 332352 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.42 | JYFL01000006.1 |
| DBGEFFLF_24 | 281196 | 281789 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| DBGEFFLF_26 | 207871 | 209073 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| DBGEFFLF_26 | 179103 | 179957 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| DBGEFFLF_3 | 62509 | 63678 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| DBGEFFLF_24 | 29101 | 30747 | vmlR | ARO:3004476 | vmlR | 98.18 | 100.18 | NC_000964.3 |
| DBGEFFLF_29 | 27323 | 29893 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 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. |
|---|---|---|---|---|---|---|---|
| DBGEFFLF_26 | 179103 | 179957 | aadK | Streptomycin | 98.83 | 100.00 | M26879 |
| DBGEFFLF_24 | 344246 | 345166 | mph(K) | Spiramycin, Telithromycin | 97.18 | 100.00 | NC_000964 |
| DBGEFFLF_27 | 242409 | 243354 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 99.58 | 68.70 | 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. |
|---|---|---|---|---|---|---|---|---|
| DBGEFFLF_26 | 179103 | 179954 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| DBGEFFLF_24 | 29101 | 30744 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.18 | 100.00 | WP_003234144.1 |
| DBGEFFLF_24 | 344249 | 345166 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.39 | 100.00 | WP_003246254.1 |
| DBGEFFLF_22 | 197954 | 200551 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.76 | 100.00 | WP_087347987.1 |
| DBGEFFLF_27 | 242410 | 243354 | tet(L) | tetracycline efflux MFS transporter Tet(L) | PARTIALX | 99.05 | 68.78 | WP_003242953.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| DBGEFFLF_25 | 231813 | 232994 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| DBGEFFLF_22 | 340114 | 340755 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 100.00 | NP_390062 |
| DBGEFFLF_2 | 63280 | 64065 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| DBGEFFLF_25 | 233009 | 233458 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| DBGEFFLF_25 | 233477 | 234619 | capA | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_391469 |
| DBGEFFLF_2 | 67921 | 75057 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.92 | 100.00 | NP_391076 |
| DBGEFFLF_2 | 66963 | 67901 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.83 | 100.00 | NP_391077 |
| DBGEFFLF_2 | 64091 | 65287 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.66 | 100.00 | NP_391079 |
| DBGEFFLF_22 | 151015 | 152778 | dep/capD | 0.0 | Capsule | Immune modulation | 98.64 | 100.00 | NP_389723 |
| DBGEFFLF_2 | 65316 | 66935 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.22 | 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 |
|---|---|---|---|---|---|---|---|---|
| DBGEFFLF_4 | 28002 | 26866 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| DBGEFFLF_12 | 4341 | 5210 | pdxS | 4.55e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| DBGEFFLF_11 | 187124 | 186348 | CodY | 4.36e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| DBGEFFLF_25 | 391600 | 391031 | ClpP | 2.44e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| DBGEFFLF_23 | 142287 | 141895 | spxA1 | 2.77e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| DBGEFFLF_23 | 142287 | 141895 | spx | 1.65e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| DBGEFFLF_5 | 20556 | 20798 | SpoVG | 7.50e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| DBGEFFLF_24 | 77557 | 77360 | CspA | 1.86e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| DBGEFFLF_22 | 351987 | 352181 | CspD | 2.96e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| DBGEFFLF_23 | 384713 | 384907 | CspB | 3.99e-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 |
|---|---|---|---|
| DBGEFFLF_1 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_2 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_3 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_4 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_5 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_6 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_7 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_8 | 1.0 | 0.0 | 1.0 |
| DBGEFFLF_9 | 1.0 | 0.0 | 1.0 |
| DBGEFFLF_10 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_11 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_12 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_13 | 1.0 | 0.0 | 1.0 |
| DBGEFFLF_14 | 1.0 | 0.0 | 1.0 |
| DBGEFFLF_16 | 1.0 | 0.0 | 1.0 |
| DBGEFFLF_17 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_19 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_20 | 1.0 | 0.0 | 1.0 |
| DBGEFFLF_21 | 1.0 | 0.0 | 1.0 |
| DBGEFFLF_22 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_23 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_24 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_25 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_26 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_27 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_28 | 0.0 | 1.0 | 0.0 |
| DBGEFFLF_29 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| DBGEFFLF_6 | 8077 | 28441 | False | Siphoviridae | VOG0796, VOG0720, VOG4564, VOG6778, VOG4555, VOG4553, VOG1125, VOG0815, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG0725, VOG4545, VOG4605, VOG4599, VOG5535 |
| DBGEFFLF_7 | 1 | 23660 | False | Myoviridae | VOG4574, VOG0641, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG4550, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG1350, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG4553, VOG4555, VOG0720, VOG0796, VOG2545 |
| DBGEFFLF_8 | 6934 | 19424 | False | Siphoviridae | VOG0025, VOG4551, VOG6005, VOG1563, VOG6546, VOG5753, VOG10937, VOG4813, VOG6497, VOG0026 |
| DBGEFFLF_9 | 9133 | 19472 | False | Myoviridae / Siphoviridae | VOG4744, VOG10905, VOG0275, VOG5023, VOG5012, VOG4555, VOG3676, VOG5504, VOG4564 |
| DBGEFFLF_11 | 526885 | 533959 | False | Myoviridae | VOG0136, VOG0753, VOG7895, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885 |
| DBGEFFLF_22 | 6919 | 12814 | False | Unknown | VOG0322, VOG7476, VOG0025, VOG4551 |
| DBGEFFLF_23 | 5493 | 15417 | False | Siphoviridae | VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
Phigaro v2.4.0 (Database: Jan. 2024 release)