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. |
|---|---|---|---|---|---|---|---|---|
| FDEEBEIF_11 | 708940 | 710109 | bmr | ARO:3003007 | bmr | 99.23 | 100.00 | M33768.1 |
| FDEEBEIF_11 | 480883 | 482085 | blt | ARO:3003006 | blt | 99.50 | 100.00 | L32599.1 |
| FDEEBEIF_11 | 462054 | 462908 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| FDEEBEIF_22 | 123084 | 125654 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| FDEEBEIF_15 | 108151 | 109071 | mphK | ARO:3004541 | mphK | 99.02 | 100.00 | CP010314.1 |
| FDEEBEIF_15 | 94815 | 96254 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.42 | JYFL01000006.1 |
| FDEEBEIF_15 | 45136 | 45729 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| FDEEBEIF_12 | 42194 | 42511 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| FDEEBEIF_12 | 41856 | 42194 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| FDEEBEIF_6 | 29464 | 31107 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.00 | 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. |
|---|---|---|---|---|---|---|---|
| FDEEBEIF_11 | 462054 | 462906 | aadK | Streptomycin | 98.71 | 99.77 | M26879 |
| FDEEBEIF_14 | 194708 | 196084 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 98.62 | 100.00 | D12567 |
| FDEEBEIF_15 | 108151 | 109071 | 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. |
|---|---|---|---|---|---|---|---|---|
| FDEEBEIF_15 | 108154 | 109071 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.02 | 100.00 | WP_003246254.1 |
| FDEEBEIF_14 | 194711 | 196084 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.69 | 100.00 | WP_063856081.1 |
| FDEEBEIF_6 | 29464 | 31104 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| FDEEBEIF_11 | 462054 | 462905 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| FDEEBEIF_14 | 192187 | 192705 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.75 | 100.00 | WP_003242546.1 |
| FDEEBEIF_11 | 1011704 | 1013755 | rphC | rifamycin-inactivating phosphotransferase RphC | PARTIALX | 80.12 | 79.03 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| FDEEBEIF_11 | 908636 | 909277 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 100.00 | 100.00 | NP_390062 |
| FDEEBEIF_3 | 14284 | 15465 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| FDEEBEIF_3 | 429054 | 429839 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.62 | 100.00 | NP_391080 |
| FDEEBEIF_3 | 432737 | 433675 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.57 | 100.00 | NP_391077 |
| FDEEBEIF_3 | 15948 | 17090 | capA | 0.0 | Capsule | Immune modulation | 99.39 | 100.00 | NP_391469 |
| FDEEBEIF_3 | 433695 | 440829 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.34 | 99.97 | NP_391076 |
| FDEEBEIF_3 | 15480 | 15929 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| FDEEBEIF_11 | 1062073 | 1063836 | dep/capD | 0.0 | Capsule | Immune modulation | 99.15 | 100.00 | NP_389723 |
| FDEEBEIF_3 | 429865 | 431061 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.08 | 100.00 | NP_391079 |
| FDEEBEIF_3 | 431090 | 432709 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.84 | 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 |
|---|---|---|---|---|---|---|---|---|
| FDEEBEIF_21 | 31882 | 33018 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| FDEEBEIF_23 | 4284 | 5153 | pdxS | 2.56e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| FDEEBEIF_2 | 223331 | 224107 | CodY | 3.48e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| FDEEBEIF_3 | 176825 | 176256 | ClpP | 3.26e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| FDEEBEIF_7 | 110147 | 109755 | spxA1 | 9.28e-70 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| FDEEBEIF_9 | 34976 | 34734 | SpoVG | 7.54e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| FDEEBEIF_6 | 80607 | 80410 | CspA | 7.69e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| FDEEBEIF_7 | 353329 | 353523 | CspB | 3.55e-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 |
|---|---|---|---|
| FDEEBEIF_1 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_2 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_3 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_4 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_5 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_6 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_7 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_9 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_10 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_11 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_12 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_13 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_14 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_15 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_16 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_17 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_18 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_19 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_20 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_21 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_22 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_23 | 0.0 | 1.0 | 0.0 |
| FDEEBEIF_26 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| FDEEBEIF_7 | 5396 | 15316 | False | Siphoviridae | VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
| FDEEBEIF_11 | 502070 | 531919 | False | Myoviridae | VOG4600, VOG1309, VOG11060, VOG0189, VOG4693, VOG4673, VOG0796, VOG9315, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718 |
| FDEEBEIF_12 | 4619 | 12369 | False | Myoviridae | VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705 |
Phigaro v2.4.0 (Database: Jan. 2024 release)