Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 8 | 17.55 |
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. |
|---|---|---|---|---|---|---|---|---|
| CBIBJKBG_1 | 695669 | 696838 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| CBIBJKBG_3 | 605848 | 606186 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| CBIBJKBG_3 | 605531 | 605848 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| CBIBJKBG_1 | 463852 | 465054 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
| CBIBJKBG_1 | 445446 | 446300 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| CBIBJKBG_5 | 195513 | 197156 | vmlR | ARO:3004476 | vmlR | 98.35 | 100.00 | NC_000964.3 |
| CBIBJKBG_6 | 154973 | 155566 | tmrB | ARO:3003059 | tmrB | 97.46 | 100.00 | AL009126.3 |
| CBIBJKBG_6 | 104452 | 105891 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.42 | JYFL01000006.1 |
| CBIBJKBG_6 | 91639 | 92559 | mphK | ARO:3004541 | mphK | 99.02 | 100.00 | CP010314.1 |
| CBIBJKBG_4 | 27449 | 30019 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.53 | 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. |
|---|---|---|---|---|---|---|---|
| CBIBJKBG_6 | 91639 | 92559 | mph(K) | Spiramycin, Telithromycin | 99.35 | 100.00 | NC_000964 |
| CBIBJKBG_1 | 445446 | 446300 | aadK | Streptomycin | 98.71 | 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. |
|---|---|---|---|---|---|---|---|---|
| CBIBJKBG_6 | 91639 | 92556 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.02 | 100.00 | WP_003246254.1 |
| CBIBJKBG_1 | 445446 | 446297 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| CBIBJKBG_5 | 195516 | 197156 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.35 | 100.00 | WP_003234144.1 |
| CBIBJKBG_2 | 38197 | 38715 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 93.64 | 100.00 | WP_003242546.1 |
| CBIBJKBG_1 | 1168740 | 1171337 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| CBIBJKBG_2 | 530545 | 531726 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| CBIBJKBG_2 | 953784 | 954569 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| CBIBJKBG_1 | 948333 | 948974 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.69 | 100.00 | NP_390062 |
| CBIBJKBG_2 | 954595 | 955791 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.33 | 100.00 | NP_391079 |
| CBIBJKBG_1 | 1223818 | 1225581 | dep/capD | 0.0 | Capsule | Immune modulation | 99.32 | 100.00 | NP_389723 |
| CBIBJKBG_2 | 531741 | 532190 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| CBIBJKBG_2 | 532209 | 533351 | capA | 0.0 | Capsule | Immune modulation | 98.78 | 100.00 | NP_391469 |
| CBIBJKBG_2 | 958425 | 965561 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.74 | 100.00 | NP_391076 |
| CBIBJKBG_2 | 957467 | 958405 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.40 | 100.00 | NP_391077 |
| CBIBJKBG_2 | 955820 | 957439 | 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 |
|---|---|---|---|---|---|---|---|---|
| CBIBJKBG_7 | 31777 | 32913 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| CBIBJKBG_9 | 11290 | 10421 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| CBIBJKBG_3 | 296007 | 295231 | CodY | 8.39e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| CBIBJKBG_2 | 690981 | 690412 | ClpP | 6.42e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| CBIBJKBG_3 | 758886 | 758494 | spxA1 | 6.60e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| CBIBJKBG_3 | 758886 | 758494 | spx | 3.94e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| CBIBJKBG_8 | 20619 | 20861 | SpoVG | 7.51e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| CBIBJKBG_5 | 147099 | 147296 | CspA | 9.77e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| CBIBJKBG_36 | 1 | 93 | int | 3.13e-14 | integrase | 96.77 | 83.78 | CAB40914 |
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 |
|---|---|---|---|
| CBIBJKBG_1 | 0.0 | 1.0 | 0.0 |
| CBIBJKBG_2 | 0.0 | 1.0 | 0.0 |
| CBIBJKBG_3 | 0.0 | 1.0 | 0.0 |
| CBIBJKBG_4 | 0.0 | 1.0 | 0.0 |
| CBIBJKBG_5 | 0.0 | 1.0 | 0.0 |
| CBIBJKBG_6 | 0.0 | 1.0 | 0.0 |
| CBIBJKBG_7 | 0.0 | 1.0 | 0.0 |
| CBIBJKBG_8 | 0.0 | 1.0 | 0.0 |
| CBIBJKBG_9 | 0.0 | 1.0 | 0.0 |
| CBIBJKBG_10 | 0.0 | 1.0 | 0.0 |
| CBIBJKBG_11 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| CBIBJKBG_1 | 500944 | 518792 | False | Myoviridae | VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718 |
| CBIBJKBG_1 | 764454 | 799902 | False | Siphoviridae | VOG0221, VOG5023, VOG0720, VOG3386, VOG0692, VOG6031, VOG4319, VOG10063, VOG5293, VOG7238, VOG5716, VOG4545, VOG4605, VOG4599, VOG0565, VOG0641, VOG10230, VOG6168, VOG0189, VOG0025, VOG4551, VOG0052, VOG8598, VOG4877, VOG7092, VOG5543, VOG1093, VOG1030, VOG2352, VOG4873, VOG5310, VOG0026 |
| CBIBJKBG_1 | 1044044 | 1052189 | False | Unknown | VOG2788, VOG6464, VOG0322, VOG7627, VOG0025 |
| CBIBJKBG_3 | 635730 | 662042 | 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 |
Phigaro v2.4.0 (Database: Jan. 2024 release)