Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 7 | 17.83 |
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. |
|---|---|---|---|---|---|---|---|---|
| DEOFLEOF_1 | 1619720 | 1620577 | aadK | ARO:3002627 | aadK | 97.18 | 100.35 | AL009126.1 |
| DEOFLEOF_1 | 1602625 | 1603827 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
| DEOFLEOF_1 | 1406416 | 1407585 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| DEOFLEOF_1 | 426384 | 426701 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| DEOFLEOF_1 | 426046 | 426384 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| DEOFLEOF_3 | 209740 | 211386 | vmlR | ARO:3004476 | vmlR | 98.18 | 100.18 | NC_000964.3 |
| DEOFLEOF_4 | 158561 | 159154 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| DEOFLEOF_11 | 124860 | 127430 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| DEOFLEOF_4 | 108065 | 109504 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.42 | JYFL01000006.1 |
| DEOFLEOF_4 | 95250 | 96170 | mphK | ARO:3004541 | mphK | 99.01 | 100.00 | CP010314.1 |
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. |
|---|---|---|---|---|---|---|---|
| DEOFLEOF_4 | 95250 | 96170 | mph(K) | Spiramycin, Telithromycin | 99.02 | 100.00 | NC_000964 |
| DEOFLEOF_7 | 1060202 | 1061578 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.47 | 100.00 | D12567 |
| DEOFLEOF_1 | 1619726 | 1620577 | aadK | Streptomycin | 98.24 | 99.65 | 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. |
|---|---|---|---|---|---|---|---|---|
| DEOFLEOF_4 | 95250 | 96158 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.01 | 99.02 | WP_003246254.1 |
| DEOFLEOF_7 | 1060205 | 1061578 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.25 | 100.00 | WP_063856081.1 |
| DEOFLEOF_3 | 209743 | 211386 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.18 | 100.00 | WP_003234144.1 |
| DEOFLEOF_1 | 1619726 | 1620577 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.18 | 100.00 | WP_003229862.1 |
| DEOFLEOF_7 | 1057710 | 1058228 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 93.06 | 100.00 | WP_003242546.1 |
| DEOFLEOF_1 | 1112375 | 1114969 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.15 | 99.88 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| DEOFLEOF_1 | 1208916 | 1209557 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.84 | 100.00 | NP_390062 |
| DEOFLEOF_7 | 561584 | 562765 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| DEOFLEOF_7 | 152393 | 153178 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| DEOFLEOF_7 | 151171 | 152367 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.17 | 100.00 | NP_391079 |
| DEOFLEOF_7 | 148557 | 149495 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.15 | 100.00 | NP_391077 |
| DEOFLEOF_7 | 561120 | 561569 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| DEOFLEOF_1 | 1062883 | 1064646 | dep/capD | 0.0 | Capsule | Immune modulation | 98.81 | 100.00 | NP_389723 |
| DEOFLEOF_7 | 559959 | 561101 | capA | 0.0 | Capsule | Immune modulation | 98.78 | 100.00 | NP_391469 |
| DEOFLEOF_7 | 149523 | 151142 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.39 | 100.00 | NP_391078 |
| DEOFLEOF_7 | 141401 | 148537 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.39 | 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 |
|---|---|---|---|---|---|---|---|---|
| DEOFLEOF_12 | 31731 | 32867 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| DEOFLEOF_13 | 11332 | 10463 | pdxS | 1.13e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| DEOFLEOF_1 | 737043 | 737819 | CodY | 1.35e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| DEOFLEOF_7 | 405652 | 406221 | ClpP | 6.61e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| DEOFLEOF_1 | 276227 | 276619 | spxA1 | 1.06e-69 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| DEOFLEOF_1 | 276227 | 276619 | spx | 6.31e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| DEOFLEOF_10 | 20516 | 20758 | SpoVG | 7.49e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| DEOFLEOF_3 | 155868 | 156065 | CspA | 1.04e-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 |
|---|---|---|---|
| DEOFLEOF_1 | 0.0 | 1.0 | 0.0 |
| DEOFLEOF_2 | 0.0 | 1.0 | 0.0 |
| DEOFLEOF_3 | 0.0 | 1.0 | 0.0 |
| DEOFLEOF_4 | 0.0 | 1.0 | 0.0 |
| DEOFLEOF_7 | 0.0 | 1.0 | 0.0 |
| DEOFLEOF_8 | 0.0 | 1.0 | 0.0 |
| DEOFLEOF_10 | 0.0 | 1.0 | 0.0 |
| DEOFLEOF_11 | 0.0 | 1.0 | 0.0 |
| DEOFLEOF_12 | 0.0 | 1.0 | 0.0 |
| DEOFLEOF_13 | 0.0 | 1.0 | 0.0 |
| DEOFLEOF_15 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| DEOFLEOF_1 | 370135 | 396496 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4843, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG4612, VOG4705 |
| DEOFLEOF_7 | 20696 | 41747 | False | Siphoviridae | VOG0753, VOG5535, VOG4599, VOG4605, VOG9745, VOG0701, VOG10044, VOG0698, VOG0697, VOG0696, VOG0695, VOG2621, VOG4572, VOG9317, VOG0692, VOG0691, VOG10227, VOG0796, VOG7983, VOG0198, VOG7007 |
| DEOFLEOF_7 | 46926 | 51951 | False | Unknown | VOG4566, VOG0186, VOG8233, VOG1878, VOG4552 |
Phigaro v2.4.0 (Database: Jan. 2024 release)