Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 7 | 17.12 |
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. |
|---|---|---|---|---|---|---|---|---|
| JBEAMKMJ_1 | 699315 | 700169 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| JBEAMKMJ_1 | 680524 | 681726 | blt | ARO:3003006 | blt | 100.00 | 100.00 | L32599.1 |
| JBEAMKMJ_1 | 488846 | 490015 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| JBEAMKMJ_3 | 475705 | 476022 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| JBEAMKMJ_3 | 475367 | 475705 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| JBEAMKMJ_5 | 255485 | 258055 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| JBEAMKMJ_4 | 108494 | 109927 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.00 | JYFL01000006.1 |
| JBEAMKMJ_4 | 95680 | 96600 | mphK | ARO:3004541 | mphK | 98.37 | 100.00 | CP010314.1 |
| JBEAMKMJ_7 | 53808 | 55451 | vmlR | ARO:3004476 | vmlR | 98.35 | 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. |
|---|---|---|---|---|---|---|---|
| JBEAMKMJ_1 | 699317 | 700169 | aadK | Streptomycin | 98.83 | 99.77 | M26879 |
| JBEAMKMJ_2 | 1023055 | 1024431 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 98.77 | 100.00 | D12567 |
| JBEAMKMJ_4 | 95680 | 96600 | mph(K) | Spiramycin, Telithromycin | 98.05 | 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. |
|---|---|---|---|---|---|---|---|---|
| JBEAMKMJ_2 | 1023058 | 1024431 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.69 | 100.00 | WP_063856081.1 |
| JBEAMKMJ_1 | 699318 | 700169 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| JBEAMKMJ_4 | 95680 | 96597 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.37 | 100.00 | WP_003246254.1 |
| JBEAMKMJ_7 | 53811 | 55451 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.35 | 100.00 | WP_003234144.1 |
| JBEAMKMJ_2 | 1020593 | 1021111 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 91.33 | 100.00 | WP_003242546.1 |
| JBEAMKMJ_1 | 180692 | 183289 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.94 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| JBEAMKMJ_1 | 285821 | 286462 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 100.00 | 100.00 | NP_390062 |
| JBEAMKMJ_2 | 524511 | 525692 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| JBEAMKMJ_2 | 113019 | 113804 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.62 | 100.00 | NP_391080 |
| JBEAMKMJ_2 | 109184 | 110122 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.57 | 100.00 | NP_391077 |
| JBEAMKMJ_2 | 524047 | 524496 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| JBEAMKMJ_1 | 130285 | 132048 | dep/capD | 0.0 | Capsule | Immune modulation | 99.43 | 100.00 | NP_389723 |
| JBEAMKMJ_2 | 522886 | 524028 | capA | 0.0 | Capsule | Immune modulation | 99.39 | 100.00 | NP_391469 |
| JBEAMKMJ_2 | 102028 | 109164 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.27 | 100.00 | NP_391076 |
| JBEAMKMJ_2 | 111797 | 112993 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.00 | 100.00 | NP_391079 |
| JBEAMKMJ_2 | 110150 | 111768 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.03 | 99.94 | 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 |
|---|---|---|---|---|---|---|---|---|
| JBEAMKMJ_8 | 31833 | 32969 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| JBEAMKMJ_10 | 4391 | 5260 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| JBEAMKMJ_3 | 785642 | 786418 | CodY | 8.03e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| JBEAMKMJ_2 | 365395 | 365964 | ClpP | 6.38e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| JBEAMKMJ_3 | 275706 | 276098 | spxA1 | 6.31e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| JBEAMKMJ_3 | 275706 | 276098 | spx | 3.77e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| JBEAMKMJ_9 | 20626 | 20868 | SpoVG | 7.52e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| JBEAMKMJ_7 | 5442 | 5639 | CspA | 3.65e-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 |
|---|---|---|---|
| JBEAMKMJ_1 | 0.0 | 1.0 | 0.0 |
| JBEAMKMJ_2 | 0.0 | 1.0 | 0.0 |
| JBEAMKMJ_3 | 0.0 | 1.0 | 0.0 |
| JBEAMKMJ_4 | 0.0 | 1.0 | 0.0 |
| JBEAMKMJ_5 | 0.0 | 1.0 | 0.0 |
| JBEAMKMJ_6 | 1.0 | 0.0 | 1.0 |
| JBEAMKMJ_7 | 0.0 | 1.0 | 0.0 |
| JBEAMKMJ_8 | 0.0 | 1.0 | 0.0 |
| JBEAMKMJ_9 | 0.0 | 1.0 | 0.0 |
| JBEAMKMJ_10 | 0.0 | 1.0 | 0.0 |
| JBEAMKMJ_13 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| JBEAMKMJ_3 | 324983 | 346508 | False | Siphoviridae | VOG0198, VOG7983, VOG0796, VOG10227, VOG0691, VOG0692, VOG9317, VOG4572, VOG2621, VOG0695, VOG0696, VOG0697, VOG6548, VOG10044, VOG0701, VOG9745, VOG4605, VOG4599, VOG5535, VOG10940, VOG0753, VOG0136, VOG4574 |
| JBEAMKMJ_3 | 417944 | 444410 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
| JBEAMKMJ_6 | 27546 | 42427 | False | Unknown | VOG5292, VOG4549, VOG2725, VOG3851, VOG9332, VOG2352, VOG4714, VOG4561, VOG1198, VOG0397, VOG2352, VOG11080 |
| JBEAMKMJ_6 | 59099 | 82609 | False | Siphoviridae | VOG4615, VOG0703, VOG3616, VOG1024, VOG10944, VOG9244, VOG4599, VOG4605, VOG6163, VOG5852, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG4553, VOG4568, VOG4556, VOG1886, VOG5819 |
Phigaro v2.4.0 (Database: Jan. 2024 release)