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. |
|---|---|---|---|---|---|---|---|---|
| BNDJNADG_5 | 607387 | 607725 | ykkC | ARO:3003063 | ykkC | 97.32 | 100.00 | AL009126.1 |
| BNDJNADG_5 | 607070 | 607387 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| BNDJNADG_6 | 586282 | 587136 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| BNDJNADG_6 | 556691 | 557893 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
| BNDJNADG_6 | 356590 | 357759 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| BNDJNADG_7 | 344928 | 345848 | mphK | ARO:3004541 | mphK | 96.08 | 100.00 | CP010314.1 |
| BNDJNADG_7 | 331599 | 333038 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.42 | JYFL01000006.1 |
| BNDJNADG_7 | 281932 | 282525 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| BNDJNADG_8 | 257154 | 259724 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.53 | 100.00 | AL009126.3 |
| BNDJNADG_7 | 28789 | 30435 | vmlR | ARO:3004476 | vmlR | 99.27 | 100.18 | 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. |
|---|---|---|---|---|---|---|---|
| BNDJNADG_4 | 1027372 | 1028748 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.77 | 100.00 | X08034 |
| BNDJNADG_6 | 586282 | 587136 | aadK | Streptomycin | 98.60 | 100.00 | M26879 |
| BNDJNADG_7 | 344928 | 345848 | mph(K) | Spiramycin, Telithromycin | 96.53 | 99.89 | 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. |
|---|---|---|---|---|---|---|---|---|
| BNDJNADG_7 | 28789 | 30432 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 99.27 | 100.00 | WP_003234144.1 |
| BNDJNADG_4 | 1027378 | 1028748 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.91 | 99.78 | WP_003242953.1 |
| BNDJNADG_6 | 586285 | 587136 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| BNDJNADG_7 | 344931 | 345848 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 96.08 | 100.00 | WP_003246254.1 |
| BNDJNADG_4 | 1024830 | 1025348 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.75 | 100.00 | WP_003242546.1 |
| BNDJNADG_6 | 58158 | 60755 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.17 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| BNDJNADG_4 | 521926 | 523107 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| BNDJNADG_4 | 113177 | 113962 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.62 | 100.00 | NP_391080 |
| BNDJNADG_6 | 157015 | 157655 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 99.84 | NP_390062 |
| BNDJNADG_4 | 520301 | 521443 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| BNDJNADG_4 | 111955 | 113151 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.00 | 100.00 | NP_391079 |
| BNDJNADG_4 | 521462 | 521911 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| BNDJNADG_4 | 102185 | 109321 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.80 | 100.00 | NP_391076 |
| BNDJNADG_6 | 9443 | 11206 | dep/capD | 0.0 | Capsule | Immune modulation | 98.64 | 100.00 | NP_389723 |
| BNDJNADG_4 | 110307 | 111926 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.52 | 100.00 | NP_391078 |
| BNDJNADG_4 | 109341 | 110279 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.30 | 100.00 | NP_391077 |
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 |
|---|---|---|---|---|---|---|---|---|
| BNDJNADG_9 | 28000 | 26864 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| BNDJNADG_11 | 11247 | 10378 | pdxS | 1.11e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| BNDJNADG_5 | 295649 | 294873 | CodY | 8.38e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| BNDJNADG_4 | 365724 | 366293 | ClpP | 6.40e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| BNDJNADG_5 | 758013 | 757621 | spxA1 | 6.59e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| BNDJNADG_5 | 758013 | 757621 | spx | 3.93e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| BNDJNADG_10 | 20556 | 20798 | SpoVG | 7.50e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| BNDJNADG_7 | 75287 | 75090 | CspA | 1.88e-31 | 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 |
|---|---|---|---|
| BNDJNADG_4 | 0.0 | 1.0 | 0.0 |
| BNDJNADG_5 | 0.0 | 1.0 | 0.0 |
| BNDJNADG_6 | 0.0 | 1.0 | 0.0 |
| BNDJNADG_7 | 0.0 | 1.0 | 0.0 |
| BNDJNADG_8 | 0.0 | 1.0 | 0.0 |
| BNDJNADG_9 | 0.0 | 1.0 | 0.0 |
| BNDJNADG_10 | 0.0 | 1.0 | 0.0 |
| BNDJNADG_11 | 0.0 | 1.0 | 0.0 |
| BNDJNADG_12 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| BNDJNADG_5 | 636976 | 665231 | False | Myoviridae | VOG0136, VOG0753, VOG4705, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
Phigaro v2.4.0 (Database: Jan. 2024 release)