Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 9 | 18.71 |
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. |
|---|---|---|---|---|---|---|---|---|
| PANJDFEL_11 | 630940 | 631278 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| PANJDFEL_11 | 630623 | 630940 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| PANJDFEL_14 | 167601 | 168770 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| PANJDFEL_23 | 108041 | 108961 | mphK | ARO:3004541 | mphK | 97.71 | 100.00 | CP010314.1 |
| PANJDFEL_23 | 94708 | 96147 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.42 | JYFL01000006.1 |
| PANJDFEL_23 | 45076 | 45669 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| PANJDFEL_3 | 32995 | 33849 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| PANJDFEL_22 | 28807 | 30450 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.00 | NC_000964.3 |
| PANJDFEL_1 | 27279 | 29849 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| PANJDFEL_3 | 14334 | 15536 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
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. |
|---|---|---|---|---|---|---|---|
| PANJDFEL_4 | 36247 | 37623 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 98.84 | 100.00 | X08034 |
| PANJDFEL_3 | 32997 | 33849 | aadK | Streptomycin | 98.71 | 99.77 | M26879 |
| PANJDFEL_23 | 108041 | 108961 | mph(K) | Spiramycin, Telithromycin | 97.72 | 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. |
|---|---|---|---|---|---|---|---|---|
| PANJDFEL_4 | 36247 | 37620 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.69 | 100.00 | WP_003242953.1 |
| PANJDFEL_22 | 28807 | 30447 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| PANJDFEL_3 | 32998 | 33849 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| PANJDFEL_23 | 108044 | 108961 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| PANJDFEL_4 | 39576 | 40094 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| PANJDFEL_14 | 463765 | 466362 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| PANJDFEL_14 | 369575 | 370216 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.69 | 100.00 | NP_390062 |
| PANJDFEL_16 | 7645 | 8583 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| PANJDFEL_16 | 452268 | 453449 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| PANJDFEL_16 | 8611 | 10230 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.26 | 100.00 | NP_391078 |
| PANJDFEL_16 | 11481 | 12266 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.24 | 100.00 | NP_391080 |
| PANJDFEL_16 | 450643 | 451785 | capA | 0.0 | Capsule | Immune modulation | 98.95 | 100.00 | NP_391469 |
| PANJDFEL_16 | 10259 | 11455 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.91 | 100.00 | NP_391079 |
| PANJDFEL_14 | 511530 | 513293 | dep/capD | 0.0 | Capsule | Immune modulation | 98.87 | 100.00 | NP_389723 |
| PANJDFEL_16 | 489 | 7625 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.82 | 100.00 | NP_391076 |
| PANJDFEL_16 | 451804 | 452253 | capC | 0.0 | Capsule | Immune modulation | 98.67 | 100.00 | NP_391470 |
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 |
|---|---|---|---|---|---|---|---|---|
| PANJDFEL_5 | 31693 | 32829 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| PANJDFEL_12 | 11480 | 10611 | pdxS | 1.13e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| PANJDFEL_11 | 321078 | 320302 | CodY | 5.45e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| PANJDFEL_16 | 310851 | 311420 | ClpP | 2.81e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| PANJDFEL_21 | 109946 | 109554 | spxA1 | 2.46e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| PANJDFEL_21 | 109946 | 109554 | spx | 1.47e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| PANJDFEL_6 | 34633 | 34391 | SpoVG | 7.49e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| PANJDFEL_22 | 77181 | 76984 | CspA | 9.28e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| PANJDFEL_14 | 357613 | 357419 | CspD | 3.96e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| PANJDFEL_21 | 353192 | 353386 | CspB | 3.55e-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 |
|---|---|---|---|
| PANJDFEL_1 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_2 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_3 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_4 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_5 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_6 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_7 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_8 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_9 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_10 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_11 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_12 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_13 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_14 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_16 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_18 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_20 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_21 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_22 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_23 | 0.0 | 1.0 | 0.0 |
| PANJDFEL_24 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| PANJDFEL_7 | 3937 | 9902 | False | Unknown | VOG3549, VOG1878, VOG0083, VOG1309, VOG1292 |
| PANJDFEL_7 | 23069 | 47730 | False | Myoviridae | VOG9315, VOG4773, VOG4688, VOG4685, VOG0749, VOG1581, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG0906, VOG7718, VOG4705 |
| PANJDFEL_8 | 6166 | 30414 | False | Myoviridae | VOG7060, VOG0796, VOG9315, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718 |
| PANJDFEL_11 | 42543 | 48098 | False | Unknown | VOG4551, VOG0025, VOG7476, VOG0322, VOG6211 |
| PANJDFEL_11 | 96153 | 123969 | False | Siphoviridae | VOG7134, VOG9867, VOG6036, VOG5495, VOG9219, VOG9713, VOG6940, VOG5534, VOG7718, VOG3390, VOG4705, VOG5008, VOG8610, VOG7930, VOG0275, VOG9312, VOG4910, VOG3389, VOG5042, VOG9712, VOG4660 |
| PANJDFEL_11 | 661084 | 668179 | False | Myoviridae | VOG4705, VOG4612, VOG4862, VOG4691, VOG4550, VOG3894 |
| PANJDFEL_16 | 77414 | 111421 | False | Siphoviridae | VOG4574, VOG0641, VOG5008, VOG4705, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG4553, VOG4568, VOG4556, VOG4544, VOG4581, VOG4841, VOG9091, VOG1884, VOG0025, VOG9600, VOG4566, VOG4552, VOG1638, VOG0787, VOG4556, VOG0181, VOG5353, VOG9667 |
| PANJDFEL_18 | 96306 | 125466 | False | Siphoviridae | VOG3490, VOG4574, VOG0641, VOG5008, VOG4705, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG1886, VOG4581, VOG4841, VOG0198, VOG6517 |
| PANJDFEL_21 | 5512 | 15433 | False | Siphoviridae | VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
| PANJDFEL_24 | 128255 | 151295 | False | Siphoviridae | VOG2703, VOG4574, VOG0136, VOG0753, VOG4728, VOG5535, VOG4599, VOG4605, VOG4545, VOG0725, VOG2621, VOG0799, VOG0724, VOG5660, VOG0816, VOG4623, VOG3480, VOG1329, VOG1329, VOG4555, VOG4564, VOG0720, VOG10227 |
Phigaro v2.4.0 (Database: Jan. 2024 release)