Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 8 | 18.25 |
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. |
|---|---|---|---|---|---|---|---|---|
| OPFMJAFH_2 | 628390 | 629559 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| OPFMJAFH_2 | 455143 | 456345 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
| OPFMJAFH_2 | 436482 | 437336 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| OPFMJAFH_23 | 108414 | 109334 | mphK | ARO:3004541 | mphK | 98.37 | 100.00 | CP010314.1 |
| OPFMJAFH_23 | 95076 | 96515 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.42 | JYFL01000006.1 |
| OPFMJAFH_13 | 65087 | 65425 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| OPFMJAFH_13 | 64770 | 65087 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| OPFMJAFH_23 | 45365 | 45958 | tmrB | ARO:3003059 | tmrB | 98.98 | 100.00 | AL009126.3 |
| OPFMJAFH_26 | 29159 | 30802 | vmlR | ARO:3004476 | vmlR | 98.35 | 100.00 | NC_000964.3 |
| OPFMJAFH_22 | 27477 | 30047 | 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. |
|---|---|---|---|---|---|---|---|
| OPFMJAFH_2 | 436482 | 437334 | aadK | Streptomycin | 99.30 | 99.77 | M26879 |
| OPFMJAFH_1 | 1022918 | 1024294 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.26 | 100.00 | D12567 |
| OPFMJAFH_23 | 108414 | 109334 | 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. |
|---|---|---|---|---|---|---|---|---|
| OPFMJAFH_2 | 436482 | 437333 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| OPFMJAFH_23 | 108417 | 109334 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.37 | 100.00 | WP_003246254.1 |
| OPFMJAFH_26 | 29159 | 30799 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.35 | 100.00 | WP_003234144.1 |
| OPFMJAFH_1 | 1022921 | 1024294 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.25 | 100.00 | WP_063856081.1 |
| OPFMJAFH_1 | 1020455 | 1020973 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| OPFMJAFH_2 | 923872 | 926469 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.94 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| OPFMJAFH_1 | 112414 | 113199 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| OPFMJAFH_1 | 109544 | 111163 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.51 | 100.00 | NP_391078 |
| OPFMJAFH_1 | 523085 | 524266 | capB | 0.0 | Capsule | Immune modulation | 99.41 | 100.00 | NP_391471 |
| OPFMJAFH_1 | 522621 | 523070 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| OPFMJAFH_1 | 111192 | 112388 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.33 | 100.00 | NP_391079 |
| OPFMJAFH_2 | 828326 | 828967 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.22 | 100.00 | NP_390062 |
| OPFMJAFH_1 | 521460 | 522602 | capA | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_391469 |
| OPFMJAFH_1 | 108578 | 109516 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.15 | 100.00 | NP_391077 |
| OPFMJAFH_2 | 970464 | 972227 | dep/capD | 0.0 | Capsule | Immune modulation | 98.75 | 100.00 | NP_389723 |
| OPFMJAFH_1 | 101422 | 108558 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.61 | 100.00 | NP_391076 |
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 |
|---|---|---|---|---|---|---|---|---|
| OPFMJAFH_3 | 31798 | 32934 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| OPFMJAFH_9 | 11341 | 10472 | pdxS | 1.13e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| OPFMJAFH_21 | 248590 | 249366 | CodY | 3.74e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| OPFMJAFH_1 | 363921 | 364490 | ClpP | 6.17e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| OPFMJAFH_13 | 215992 | 215600 | spxA1 | 3.15e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| OPFMJAFH_13 | 215992 | 215600 | spx | 1.88e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| OPFMJAFH_4 | 28679 | 28437 | SpoVG | 6.70e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| OPFMJAFH_26 | 78807 | 78610 | CspA | 3.79e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| OPFMJAFH_13 | 459914 | 460108 | CspB | 4.53e-27 | cold shock protein | 83.08 | 98.48 | CAD00094 |
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 |
|---|---|---|---|
| OPFMJAFH_1 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_2 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_3 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_4 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_5 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_6 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_7 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_8 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_9 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_10 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_11 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_12 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_13 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_14 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_15 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_16 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_17 | 1.0 | 0.0 | 1.0 |
| OPFMJAFH_18 | 1.0 | 0.0 | 1.0 |
| OPFMJAFH_19 | 1.0 | 0.0 | 1.0 |
| OPFMJAFH_20 | 1.0 | 0.0 | 1.0 |
| OPFMJAFH_21 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_22 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_23 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_24 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_25 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_26 | 0.0 | 1.0 | 0.0 |
| OPFMJAFH_27 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| OPFMJAFH_13 | 94969 | 122110 | False | Myoviridae | VOG0753, VOG4705, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
| OPFMJAFH_25 | 47910 | 67797 | False | Siphoviridae | VOG5534, VOG6940, VOG9713, VOG9219, VOG5495, VOG6036, VOG9867, VOG7134, VOG10940, VOG5721, VOG5779, VOG5722, VOG4581, VOG4570, VOG7567, VOG0937, VOG0094, VOG7483, VOG5047 |
| OPFMJAFH_25 | 106725 | 117560 | False | Siphoviridae | VOG6211, VOG0322, VOG7476, VOG0025, VOG4551, VOG0918 |
Phigaro v2.4.0 (Database: Jan. 2024 release)