Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 11 | 10 | 7 | 16.43 |
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. |
|---|---|---|---|---|---|---|---|---|
| JJDPNKEB_5 | 684648 | 685817 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| JJDPNKEB_5 | 463438 | 464640 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
| JJDPNKEB_5 | 445070 | 445924 | aadK | ARO:3002627 | aadK | 98.94 | 100.00 | AL009126.1 |
| JJDPNKEB_1 | 355595 | 355933 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| JJDPNKEB_1 | 355278 | 355595 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| JJDPNKEB_7 | 256964 | 259534 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| JJDPNKEB_6 | 194050 | 195693 | vmlR | ARO:3004476 | vmlR | 98.35 | 100.00 | NC_000964.3 |
| JJDPNKEB_4 | 108797 | 109717 | mphK | ARO:3004541 | mphK | 99.02 | 100.00 | CP010314.1 |
| JJDPNKEB_4 | 95463 | 96902 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.42 | JYFL01000006.1 |
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. |
|---|---|---|---|---|---|---|---|
| JJDPNKEB_4 | 108797 | 109717 | mph(K) | Spiramycin, Telithromycin | 99.35 | 100.00 | NC_000964 |
| JJDPNKEB_5 | 445070 | 445924 | aadK | Streptomycin | 98.95 | 100.00 | 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. |
|---|---|---|---|---|---|---|---|---|
| JJDPNKEB_4 | 108800 | 109717 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.02 | 100.00 | WP_003246254.1 |
| JJDPNKEB_5 | 445070 | 445921 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.94 | 100.00 | WP_003229862.1 |
| JJDPNKEB_6 | 194053 | 195693 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.35 | 100.00 | WP_003234144.1 |
| JJDPNKEB_2 | 38012 | 38530 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 93.64 | 100.00 | WP_003242546.1 |
| JJDPNKEB_5 | 979441 | 982038 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.65 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| JJDPNKEB_2 | 943588 | 944373 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| JJDPNKEB_2 | 521705 | 522886 | capB | 0.0 | Capsule | Immune modulation | 99.58 | 100.00 | NP_391471 |
| JJDPNKEB_5 | 883208 | 883849 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.38 | 100.00 | NP_390062 |
| JJDPNKEB_2 | 522901 | 523350 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| JJDPNKEB_2 | 944399 | 945595 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.33 | 100.00 | NP_391079 |
| JJDPNKEB_2 | 523369 | 524511 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| JJDPNKEB_5 | 1029637 | 1031400 | dep/capD | 0.0 | Capsule | Immune modulation | 99.04 | 100.00 | NP_389723 |
| JJDPNKEB_2 | 948229 | 955365 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.74 | 100.00 | NP_391076 |
| JJDPNKEB_2 | 947271 | 948209 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.40 | 100.00 | NP_391077 |
| JJDPNKEB_2 | 945624 | 947243 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.41 | 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 |
|---|---|---|---|---|---|---|---|---|
| JJDPNKEB_3 | 27969 | 26833 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| JJDPNKEB_9 | 11253 | 10384 | pdxS | 1.13e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| JJDPNKEB_1 | 44103 | 43327 | CodY | 6.35e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| JJDPNKEB_2 | 681003 | 680434 | ClpP | 6.36e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| JJDPNKEB_1 | 505663 | 505271 | spxA1 | 4.99e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| JJDPNKEB_1 | 505663 | 505271 | spx | 2.98e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| JJDPNKEB_11 | 34794 | 34552 | SpoVG | 7.52e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| JJDPNKEB_6 | 145621 | 145818 | CspA | 9.71e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
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 |
|---|---|---|---|
| JJDPNKEB_1 | 0.0 | 1.0 | 0.0 |
| JJDPNKEB_2 | 0.0 | 1.0 | 0.0 |
| JJDPNKEB_3 | 0.0 | 1.0 | 0.0 |
| JJDPNKEB_4 | 0.0 | 1.0 | 0.0 |
| JJDPNKEB_5 | 0.0 | 1.0 | 0.0 |
| JJDPNKEB_6 | 0.0 | 1.0 | 0.0 |
| JJDPNKEB_7 | 0.0 | 1.0 | 0.0 |
| JJDPNKEB_8 | 0.0 | 1.0 | 0.0 |
| JJDPNKEB_9 | 0.0 | 1.0 | 0.0 |
| JJDPNKEB_11 | 0.0 | 1.0 | 0.0 |
| JJDPNKEB_12 | 0.0 | 1.0 | 0.0 |
| JJDPNKEB_14 | 0.0 | 1.0 | 0.0 |
| JJDPNKEB_15 | 0.0 | 1.0 | 0.0 |
| JJDPNKEB_18 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| JJDPNKEB_1 | 385478 | 411793 | 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 |
| JJDPNKEB_5 | 485481 | 514123 | False | Myoviridae | VOG1309, VOG11060, VOG0189, VOG4693, VOG9587, VOG4673, VOG0796, VOG10227, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4691, VOG4862 |
Phigaro v2.4.0 (Database: Jan. 2024 release)