Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 7 | 17.83 |
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. |
|---|---|---|---|---|---|---|---|---|
| BOIMIPOI_1 | 680383 | 681552 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| BOIMIPOI_2 | 503564 | 503902 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| BOIMIPOI_2 | 503247 | 503564 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| BOIMIPOI_1 | 456112 | 457314 | blt | ARO:3003006 | blt | 100.00 | 100.00 | L32599.1 |
| BOIMIPOI_1 | 437715 | 438569 | aadK | ARO:3002627 | aadK | 97.89 | 100.00 | AL009126.1 |
| BOIMIPOI_6 | 155616 | 156209 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| BOIMIPOI_6 | 105091 | 106530 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.42 | JYFL01000006.1 |
| BOIMIPOI_6 | 92277 | 93197 | mphK | ARO:3004541 | mphK | 98.69 | 100.00 | CP010314.1 |
| BOIMIPOI_7 | 29097 | 30743 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.18 | NC_000964.3 |
| BOIMIPOI_5 | 27427 | 29997 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 100.00 | 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. |
|---|---|---|---|---|---|---|---|
| BOIMIPOI_3 | 495827 | 497203 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 99.93 | 100.00 | X08034 |
| BOIMIPOI_6 | 92277 | 93197 | mph(K) | Spiramycin, Telithromycin | 99.02 | 100.00 | NC_000964 |
| BOIMIPOI_1 | 437715 | 438567 | aadK | Streptomycin | 98.59 | 99.77 | 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. |
|---|---|---|---|---|---|---|---|---|
| BOIMIPOI_3 | 495830 | 497203 | tet(L) | tetracycline efflux MFS transporter Tet(L) | EXACTX | 100.00 | 100.00 | WP_003242953.1 |
| BOIMIPOI_6 | 92277 | 93194 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.69 | 100.00 | WP_003246254.1 |
| BOIMIPOI_7 | 29097 | 30740 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| BOIMIPOI_1 | 437715 | 438566 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.89 | 100.00 | WP_003229862.1 |
| BOIMIPOI_3 | 493356 | 493874 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| BOIMIPOI_1 | 986153 | 988750 | rphC | rifamycin-inactivating phosphotransferase RphC | INTERNAL_STOP | 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. |
|---|---|---|---|---|---|---|---|---|---|
| BOIMIPOI_3 | 23785 | 24966 | capB | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | NP_391471 |
| BOIMIPOI_1 | 880294 | 880935 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 100.00 | NP_390062 |
| BOIMIPOI_4 | 396445 | 397230 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| BOIMIPOI_4 | 400128 | 401066 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.47 | 100.00 | NP_391077 |
| BOIMIPOI_4 | 401086 | 408222 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.31 | 100.00 | NP_391076 |
| BOIMIPOI_3 | 22160 | 23302 | capA | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_391469 |
| BOIMIPOI_3 | 23321 | 23770 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| BOIMIPOI_4 | 397256 | 398452 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.00 | 100.00 | NP_391079 |
| BOIMIPOI_1 | 1033824 | 1035587 | dep/capD | 0.0 | Capsule | Immune modulation | 98.92 | 100.00 | NP_389723 |
| BOIMIPOI_4 | 398481 | 400100 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.89 | 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 |
|---|---|---|---|---|---|---|---|---|
| BOIMIPOI_10 | 28093 | 26957 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| BOIMIPOI_12 | 11253 | 10384 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| BOIMIPOI_2 | 193525 | 192749 | CodY | 7.56e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| BOIMIPOI_4 | 129272 | 128703 | ClpP | 3.05e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| BOIMIPOI_2 | 655736 | 655344 | spxA1 | 5.94e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| BOIMIPOI_2 | 655736 | 655344 | spx | 3.54e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| BOIMIPOI_11 | 20690 | 20932 | SpoVG | 7.52e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| BOIMIPOI_7 | 77563 | 77366 | CspA | 7.32e-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 |
|---|---|---|---|
| BOIMIPOI_1 | 0.0 | 1.0 | 0.0 |
| BOIMIPOI_2 | 0.0 | 1.0 | 0.0 |
| BOIMIPOI_3 | 0.0 | 1.0 | 0.0 |
| BOIMIPOI_4 | 0.0 | 1.0 | 0.0 |
| BOIMIPOI_5 | 0.0 | 1.0 | 0.0 |
| BOIMIPOI_6 | 0.0 | 1.0 | 0.0 |
| BOIMIPOI_7 | 0.0 | 1.0 | 0.0 |
| BOIMIPOI_8 | 0.0 | 1.0 | 0.0 |
| BOIMIPOI_9 | 1.0 | 0.0 | 1.0 |
| BOIMIPOI_10 | 0.0 | 1.0 | 0.0 |
| BOIMIPOI_11 | 0.0 | 1.0 | 0.0 |
| BOIMIPOI_12 | 0.0 | 1.0 | 0.0 |
| BOIMIPOI_13 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| BOIMIPOI_1 | 474158 | 503763 | False | Myoviridae | VOG4600, VOG1309, VOG11060, VOG0189, VOG4693, VOG4673, VOG0796, VOG10227, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718 |
| BOIMIPOI_2 | 534892 | 561573 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
| BOIMIPOI_9 | 8168 | 18182 | False | Unknown | VOG1198, VOG4561, VOG4714, VOG2352, VOG3851, VOG3531, VOG2725, VOG4549 |
| BOIMIPOI_9 | 45162 | 68811 | False | Siphoviridae | VOG0221, VOG4581, VOG4544, VOG4556, VOG4568, VOG4553, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG5852, VOG6163, VOG4605, VOG4599, VOG9244, VOG10944, VOG1024 |
Phigaro v2.4.0 (Database: Jan. 2024 release)