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. |
|---|---|---|---|---|---|---|---|---|
| BCPLDCNM_1 | 609730 | 610068 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| BCPLDCNM_1 | 609413 | 609730 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| BCPLDCNM_2 | 574426 | 575280 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| BCPLDCNM_2 | 555673 | 556875 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
| BCPLDCNM_2 | 384563 | 385732 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| BCPLDCNM_6 | 158230 | 158823 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| BCPLDCNM_6 | 107726 | 109165 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.42 | JYFL01000006.1 |
| BCPLDCNM_6 | 94912 | 95832 | mphK | ARO:3004541 | mphK | 98.37 | 100.00 | CP010314.1 |
| BCPLDCNM_5 | 93563 | 95206 | vmlR | ARO:3004476 | vmlR | 98.90 | 100.00 | NC_000964.3 |
| BCPLDCNM_4 | 27242 | 29812 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 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. |
|---|---|---|---|---|---|---|---|
| BCPLDCNM_2 | 574428 | 575280 | aadK | Streptomycin | 99.18 | 99.77 | M26879 |
| BCPLDCNM_6 | 94912 | 95832 | 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. |
|---|---|---|---|---|---|---|---|---|
| BCPLDCNM_5 | 93563 | 95203 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.90 | 100.00 | WP_003234144.1 |
| BCPLDCNM_6 | 94912 | 95829 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.37 | 100.00 | WP_003246254.1 |
| BCPLDCNM_2 | 574429 | 575280 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| BCPLDCNM_7 | 25400 | 25918 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.75 | 100.00 | WP_003242546.1 |
| BCPLDCNM_2 | 67936 | 70533 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.83 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| BCPLDCNM_2 | 171643 | 172284 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 100.00 | 100.00 | NP_390062 |
| BCPLDCNM_3 | 109158 | 110096 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| BCPLDCNM_3 | 530029 | 531210 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| BCPLDCNM_3 | 112994 | 113779 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.62 | 100.00 | NP_391080 |
| BCPLDCNM_3 | 529565 | 530014 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| BCPLDCNM_2 | 21068 | 22831 | dep/capD | 0.0 | Capsule | Immune modulation | 99.26 | 100.00 | NP_389723 |
| BCPLDCNM_3 | 102002 | 109138 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.26 | 100.00 | NP_391076 |
| BCPLDCNM_3 | 528404 | 529546 | capA | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_391469 |
| BCPLDCNM_3 | 111772 | 112968 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.91 | 100.00 | NP_391079 |
| BCPLDCNM_3 | 110124 | 111743 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.84 | 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 |
|---|---|---|---|---|---|---|---|---|
| BCPLDCNM_5 | 28185 | 27049 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| BCPLDCNM_11 | 11187 | 10318 | pdxS | 1.11e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| BCPLDCNM_1 | 299821 | 299045 | CodY | 8.40e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| BCPLDCNM_3 | 376195 | 376764 | ClpP | 5.95e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| BCPLDCNM_1 | 759691 | 759299 | spxA1 | 2.49e-69 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| BCPLDCNM_8 | 34637 | 34395 | SpoVG | 7.49e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| BCPLDCNM_5 | 142008 | 141811 | CspA | 1.24e-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 |
|---|---|---|---|
| BCPLDCNM_1 | 0.0 | 1.0 | 0.0 |
| BCPLDCNM_2 | 0.0 | 1.0 | 0.0 |
| BCPLDCNM_3 | 0.0 | 1.0 | 0.0 |
| BCPLDCNM_4 | 0.0 | 1.0 | 0.0 |
| BCPLDCNM_5 | 0.0 | 1.0 | 0.0 |
| BCPLDCNM_6 | 0.0 | 1.0 | 0.0 |
| BCPLDCNM_7 | 0.0 | 1.0 | 0.0 |
| BCPLDCNM_8 | 0.0 | 1.0 | 0.0 |
| BCPLDCNM_9 | 0.0 | 1.0 | 0.0 |
| BCPLDCNM_10 | 0.0 | 1.0 | 0.0 |
| BCPLDCNM_11 | 0.0 | 1.0 | 0.0 |
| BCPLDCNM_12 | 0.0 | 1.0 | 0.0 |
| BCPLDCNM_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 |
|---|---|---|---|---|---|
| BCPLDCNM_1 | 639279 | 665893 | False | Myoviridae | VOG0136, VOG0753, VOG4705, VOG3390, VOG4612, 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)