Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 11 | 10 | 8 | 16.88 |
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. |
|---|---|---|---|---|---|---|---|---|
| OMMEJOLA_1 | 457449 | 457766 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| OMMEJOLA_1 | 457111 | 457449 | ykkC | ARO:3003063 | ykkC | 99.11 | 100.00 | AL009126.1 |
| OMMEJOLA_3 | 443359 | 444561 | blt | ARO:3003006 | blt | 99.50 | 100.00 | L32599.1 |
| OMMEJOLA_3 | 426609 | 427463 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| OMMEJOLA_4 | 173403 | 174572 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| OMMEJOLA_6 | 108104 | 109024 | mphK | ARO:3004541 | mphK | 97.71 | 100.00 | CP010314.1 |
| OMMEJOLA_6 | 94772 | 96211 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.42 | JYFL01000006.1 |
| OMMEJOLA_9 | 56018 | 57664 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.18 | NC_000964.3 |
| OMMEJOLA_6 | 45121 | 45714 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| OMMEJOLA_5 | 27324 | 29894 | 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. |
|---|---|---|---|---|---|---|---|
| OMMEJOLA_3 | 426609 | 427463 | aadK | Streptomycin | 98.71 | 100.00 | M26879 |
| OMMEJOLA_6 | 108104 | 109024 | mph(K) | Spiramycin, Telithromycin | 97.83 | 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. |
|---|---|---|---|---|---|---|---|---|
| OMMEJOLA_3 | 426609 | 427460 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| OMMEJOLA_9 | 56021 | 57664 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| OMMEJOLA_6 | 108107 | 109024 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| OMMEJOLA_7 | 14549 | 17146 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| OMMEJOLA_7 | 124146 | 124787 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.84 | 100.00 | NP_390062 |
| OMMEJOLA_2 | 526774 | 527955 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| OMMEJOLA_2 | 935491 | 936276 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| OMMEJOLA_12 | 1606 | 3369 | dep/capD | 0.0 | Capsule | Immune modulation | 99.32 | 100.00 | NP_389723 |
| OMMEJOLA_2 | 936302 | 937498 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.08 | 100.00 | NP_391079 |
| OMMEJOLA_2 | 528438 | 529580 | capA | 0.0 | Capsule | Immune modulation | 99.04 | 100.00 | NP_391469 |
| OMMEJOLA_2 | 939174 | 940112 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.04 | 100.00 | NP_391077 |
| OMMEJOLA_2 | 527970 | 528419 | capC | 0.0 | Capsule | Immune modulation | 98.44 | 100.00 | NP_391470 |
| OMMEJOLA_2 | 940132 | 947268 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.33 | 100.00 | NP_391076 |
| OMMEJOLA_2 | 937527 | 939146 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 96.61 | 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 |
|---|---|---|---|---|---|---|---|---|
| OMMEJOLA_10 | 27914 | 26778 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| OMMEJOLA_15 | 4265 | 5134 | pdxS | 1.10e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| OMMEJOLA_1 | 769057 | 769833 | CodY | 8.52e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| OMMEJOLA_2 | 673703 | 673134 | ClpP | 6.31e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| OMMEJOLA_1 | 298740 | 299132 | spxA1 | 6.70e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| OMMEJOLA_1 | 298740 | 299132 | spx | 4.00e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| OMMEJOLA_11 | 20555 | 20797 | SpoVG | 7.49e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| OMMEJOLA_9 | 9606 | 9803 | CspA | 3.74e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| OMMEJOLA_7 | 136016 | 136210 | CspD | 3.88e-28 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| OMMEJOLA_7 | 136016 | 136213 | CspB | 8.04e-28 | cold shock protein | 80.30 | 100.00 | 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 |
|---|---|---|---|
| OMMEJOLA_1 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_2 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_3 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_4 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_5 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_6 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_7 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_8 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_9 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_10 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_11 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_12 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_13 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_14 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_15 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_16 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_17 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_18 | 0.0 | 1.0 | 0.0 |
| OMMEJOLA_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 |
|---|---|---|---|---|---|
| OMMEJOLA_1 | 401226 | 427593 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG4612, VOG4705 |
Phigaro v2.4.0 (Database: Jan. 2024 release)