Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 11 | 10 | 7 | 16.43 |
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. |
|---|---|---|---|---|---|---|---|---|
| ONKLNMBP_3 | 680064 | 681233 | bmr | ARO:3003007 | bmr | 99.23 | 100.00 | M33768.1 |
| ONKLNMBP_3 | 443763 | 444965 | blt | ARO:3003006 | blt | 98.25 | 100.00 | L32599.1 |
| ONKLNMBP_3 | 430501 | 431355 | aadK | ARO:3002627 | aadK | 97.54 | 100.00 | AL009126.1 |
| ONKLNMBP_5 | 425262 | 425579 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| ONKLNMBP_5 | 424924 | 425262 | ykkC | ARO:3003063 | ykkC | 99.11 | 100.00 | AL009126.1 |
| ONKLNMBP_7 | 147634 | 148227 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| ONKLNMBP_7 | 97079 | 98518 | lmrB | ARO:3002813 | lmrB | 98.95 | 100.42 | JYFL01000006.1 |
| ONKLNMBP_7 | 84254 | 85174 | mphK | ARO:3004541 | mphK | 86.27 | 100.00 | CP010314.1 |
| ONKLNMBP_1 | 27310 | 29880 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| ONKLNMBP_2 | 13658 | 15283 | vmlR | ARO:3004476 | vmlR | 98.34 | 98.90 | 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. |
|---|---|---|---|---|---|---|---|
| ONKLNMBP_3 | 430501 | 431355 | aadK | Streptomycin | 98.36 | 100.00 | M26879 |
| ONKLNMBP_7 | 84254 | 85174 | mph(K) | Spiramycin, Telithromycin | 87.99 | 99.67 | 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. |
|---|---|---|---|---|---|---|---|---|
| ONKLNMBP_2 | 13658 | 15280 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.34 | 98.90 | WP_003234144.1 |
| ONKLNMBP_3 | 430501 | 431352 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.54 | 100.00 | WP_003229862.1 |
| ONKLNMBP_7 | 84254 | 85171 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 86.27 | 100.00 | WP_003246254.1 |
| ONKLNMBP_3 | 981150 | 983747 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.29 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| ONKLNMBP_6 | 530485 | 530934 | capC | 0.0 | Capsule | Immune modulation | 99.78 | 100.00 | NP_391470 |
| ONKLNMBP_3 | 882664 | 883305 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 100.00 | NP_390062 |
| ONKLNMBP_6 | 529289 | 530470 | capB | 0.0 | Capsule | Immune modulation | 99.41 | 100.00 | NP_391471 |
| ONKLNMBP_4 | 65590 | 66375 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.98 | 100.00 | NP_391080 |
| ONKLNMBP_6 | 530953 | 532095 | capA | 0.0 | Capsule | Immune modulation | 98.78 | 100.00 | NP_391469 |
| ONKLNMBP_3 | 1030648 | 1032411 | dep/capD | 0.0 | Capsule | Immune modulation | 98.58 | 100.00 | NP_389723 |
| ONKLNMBP_4 | 69274 | 70212 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.40 | 100.00 | NP_391077 |
| ONKLNMBP_4 | 70232 | 77368 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.86 | 100.00 | NP_391076 |
| ONKLNMBP_4 | 67627 | 69246 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.65 | 100.00 | NP_391078 |
| ONKLNMBP_4 | 66402 | 67598 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 96.07 | 100.00 | NP_391079 |
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 |
|---|---|---|---|---|---|---|---|---|
| ONKLNMBP_10 | 28138 | 27002 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| ONKLNMBP_17 | 11218 | 10349 | pdxS | 1.13e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| ONKLNMBP_5 | 736029 | 736805 | CodY | 8.45e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| ONKLNMBP_6 | 686946 | 686377 | ClpP | 4.68e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| ONKLNMBP_5 | 277028 | 277420 | spxA1 | 6.64e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| ONKLNMBP_5 | 277028 | 277420 | spx | 3.96e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| ONKLNMBP_15 | 20502 | 20744 | SpoVG | 7.48e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| ONKLNMBP_2 | 74654 | 74457 | CspA | 3.59e-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 |
|---|---|---|---|
| ONKLNMBP_1 | 0.0 | 1.0 | 0.0 |
| ONKLNMBP_2 | 0.0 | 1.0 | 0.0 |
| ONKLNMBP_3 | 0.0 | 1.0 | 0.0 |
| ONKLNMBP_4 | 0.0 | 1.0 | 0.0 |
| ONKLNMBP_5 | 0.0 | 1.0 | 0.0 |
| ONKLNMBP_6 | 0.0 | 1.0 | 0.0 |
| ONKLNMBP_7 | 0.0 | 1.0 | 0.0 |
| ONKLNMBP_8 | 0.0 | 1.0 | 0.0 |
| ONKLNMBP_9 | 0.0 | 1.0 | 0.0 |
| ONKLNMBP_10 | 0.0 | 1.0 | 0.0 |
| ONKLNMBP_11 | 0.0 | 1.0 | 0.0 |
| ONKLNMBP_13 | 0.0 | 1.0 | 0.0 |
| ONKLNMBP_14 | 0.0 | 1.0 | 0.0 |
| ONKLNMBP_15 | 0.0 | 1.0 | 0.0 |
| ONKLNMBP_16 | 0.0 | 1.0 | 0.0 |
| ONKLNMBP_17 | 0.0 | 1.0 | 0.0 |
| ONKLNMBP_19 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| ONKLNMBP_3 | 489106 | 511531 | False | Myoviridae | VOG10227, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG5668, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718 |
| ONKLNMBP_5 | 370449 | 395462 | False | Myoviridae | VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705 |
Phigaro v2.4.0 (Database: Jan. 2024 release)