Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 11 | 10 | 9 | 17.38 |
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. |
|---|---|---|---|---|---|---|---|---|
| GFOHNBEE_24 | 189522 | 191147 | vmlR | ARO:3004476 | vmlR | 97.97 | 98.90 | NC_000964.3 |
| GFOHNBEE_18 | 179100 | 179438 | ykkC | ARO:3003063 | ykkC | 97.32 | 100.00 | AL009126.1 |
| GFOHNBEE_18 | 178783 | 179100 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| GFOHNBEE_23 | 159622 | 160488 | aadK | ARO:3002627 | aadK | 96.13 | 101.41 | AL009126.1 |
| GFOHNBEE_23 | 141347 | 142549 | blt | ARO:3003006 | blt | 98.00 | 100.00 | L32599.1 |
| GFOHNBEE_25 | 96886 | 98325 | lmrB | ARO:3002813 | lmrB | 99.79 | 100.42 | JYFL01000006.1 |
| GFOHNBEE_11 | 49646 | 50815 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| GFOHNBEE_3 | 27318 | 29888 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 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. |
|---|---|---|---|---|---|---|---|
| GFOHNBEE_23 | 159633 | 160488 | aadK | Streptomycin | 97.78 | 100.00 | M26879 |
| GFOHNBEE_25 | 84064 | 84984 | mph(K) | Spiramycin, Telithromycin | 93.49 | 99.89 | 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. |
|---|---|---|---|---|---|---|---|---|
| GFOHNBEE_24 | 189525 | 191147 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 97.97 | 98.90 | WP_003234144.1 |
| GFOHNBEE_23 | 159637 | 160488 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 96.13 | 100.00 | WP_003229862.1 |
| GFOHNBEE_25 | 84064 | 84981 | mphK | macrolide 2'-phosphotransferase MphK | INTERNAL_STOP | 93.14 | 100.00 | WP_003246254.1 |
| GFOHNBEE_21 | 278645 | 279163 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 91.33 | 100.00 | WP_003242546.1 |
| GFOHNBEE_11 | 352543 | 355140 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.06 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| GFOHNBEE_22 | 113266 | 114051 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| GFOHNBEE_20 | 162624 | 163805 | capB | 0.0 | Capsule | Immune modulation | 99.58 | 100.00 | NP_391471 |
| GFOHNBEE_11 | 255555 | 256196 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.38 | 100.00 | NP_390062 |
| GFOHNBEE_22 | 109430 | 110368 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391077 |
| GFOHNBEE_20 | 162160 | 162609 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| GFOHNBEE_11 | 400254 | 402017 | dep/capD | 0.0 | Capsule | Immune modulation | 98.75 | 100.00 | NP_389723 |
| GFOHNBEE_22 | 112044 | 113240 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.75 | 100.00 | NP_391079 |
| GFOHNBEE_20 | 160999 | 162141 | capA | 0.0 | Capsule | Immune modulation | 98.51 | 100.00 | NP_391469 |
| GFOHNBEE_22 | 102274 | 109410 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.49 | 100.00 | NP_391076 |
| GFOHNBEE_22 | 110396 | 112015 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.27 | 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 |
|---|---|---|---|---|---|---|---|---|
| GFOHNBEE_7 | 28051 | 26915 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| GFOHNBEE_9 | 4306 | 5175 | pdxS | 1.11e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| GFOHNBEE_11 | 724541 | 723765 | CodY | 6.03e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| GFOHNBEE_20 | 5885 | 6454 | ClpP | 1.71e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| GFOHNBEE_18 | 328418 | 328026 | spxA1 | 3.84e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| GFOHNBEE_18 | 328418 | 328026 | spx | 2.29e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| GFOHNBEE_8 | 34662 | 34420 | SpoVG | 7.50e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| GFOHNBEE_24 | 139008 | 139205 | CspA | 9.59e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| GFOHNBEE_11 | 243593 | 243399 | CspD | 4.57e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| GFOHNBEE_18 | 570865 | 571059 | CspB | 5.54e-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 |
|---|---|---|---|
| GFOHNBEE_1 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_2 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_3 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_4 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_5 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_6 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_7 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_8 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_9 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_10 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_11 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_13 | 1.0 | 0.0 | 1.0 |
| GFOHNBEE_14 | 1.0 | 0.0 | 1.0 |
| GFOHNBEE_18 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_19 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_20 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_21 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_22 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_23 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_24 | 0.0 | 1.0 | 0.0 |
| GFOHNBEE_25 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| GFOHNBEE_18 | 209306 | 236122 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4843, VOG0189, VOG3490 |
Phigaro v2.4.0 (Database: Jan. 2024 release)