Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 7 | 17.12 |
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. |
|---|---|---|---|---|---|---|---|---|
| EEDOLIAE_1 | 759826 | 760995 | bmr | ARO:3003007 | bmr | 99.23 | 100.00 | M33768.1 |
| EEDOLIAE_1 | 583833 | 585035 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| EEDOLIAE_1 | 564509 | 565363 | aadK | ARO:3002627 | aadK | 98.94 | 100.00 | AL009126.1 |
| EEDOLIAE_12 | 424579 | 424896 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| EEDOLIAE_12 | 424241 | 424579 | ykkC | ARO:3003063 | ykkC | 99.11 | 100.00 | AL009126.1 |
| EEDOLIAE_28 | 107963 | 108883 | mphK | ARO:3004541 | mphK | 98.37 | 100.00 | CP010314.1 |
| EEDOLIAE_28 | 94631 | 96070 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.42 | JYFL01000006.1 |
| EEDOLIAE_33 | 90642 | 92285 | vmlR | ARO:3004476 | vmlR | 98.72 | 100.00 | NC_000964.3 |
| EEDOLIAE_28 | 45179 | 45772 | tmrB | ARO:3003059 | tmrB | 97.46 | 100.00 | AL009126.3 |
| EEDOLIAE_30 | 27221 | 29791 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.53 | 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. |
|---|---|---|---|---|---|---|---|
| EEDOLIAE_1 | 564509 | 565363 | aadK | Streptomycin | 98.71 | 100.00 | M26879 |
| EEDOLIAE_28 | 107963 | 108883 | mph(K) | Spiramycin, Telithromycin | 98.48 | 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. |
|---|---|---|---|---|---|---|---|---|
| EEDOLIAE_1 | 564509 | 565360 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.94 | 100.00 | WP_003229862.1 |
| EEDOLIAE_33 | 90645 | 92285 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.72 | 100.00 | WP_003234144.1 |
| EEDOLIAE_28 | 107966 | 108883 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.37 | 100.00 | WP_003246254.1 |
| EEDOLIAE_29 | 36994 | 37512 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 93.64 | 100.00 | WP_003242546.1 |
| EEDOLIAE_1 | 1056914 | 1059511 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| EEDOLIAE_23 | 128477 | 128926 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| EEDOLIAE_1 | 957673 | 958314 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 100.00 | NP_390062 |
| EEDOLIAE_23 | 127281 | 128462 | capB | 0.0 | Capsule | Immune modulation | 99.49 | 100.00 | NP_391471 |
| EEDOLIAE_23 | 128945 | 130087 | capA | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_391469 |
| EEDOLIAE_1 | 1103624 | 1105387 | dep/capD | 0.0 | Capsule | Immune modulation | 99.09 | 100.00 | NP_389723 |
| EEDOLIAE_23 | 552086 | 553024 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.04 | 100.00 | NP_391077 |
| EEDOLIAE_23 | 548403 | 549188 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.98 | 100.00 | NP_391080 |
| EEDOLIAE_23 | 549214 | 550410 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.91 | 100.00 | NP_391079 |
| EEDOLIAE_23 | 553044 | 560180 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.58 | 100.00 | NP_391076 |
| EEDOLIAE_23 | 550439 | 552058 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.39 | 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 |
|---|---|---|---|---|---|---|---|---|
| EEDOLIAE_3 | 31666 | 32802 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| EEDOLIAE_8 | 4467 | 5336 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| EEDOLIAE_12 | 736838 | 737614 | CodY | 7.70e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| EEDOLIAE_23 | 282391 | 281822 | ClpP | 3.98e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| EEDOLIAE_12 | 275217 | 275609 | spxA1 | 6.05e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| EEDOLIAE_12 | 275217 | 275609 | spx | 3.61e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| EEDOLIAE_5 | 14343 | 14101 | SpoVG | 4.73e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| EEDOLIAE_33 | 41198 | 41395 | CspA | 5.32e-32 | 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 |
|---|---|---|---|
| EEDOLIAE_1 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_2 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_3 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_4 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_5 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_6 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_7 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_8 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_9 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_10 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_11 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_12 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_13 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_14 | 1.0 | 0.0 | 1.0 |
| EEDOLIAE_16 | 1.0 | 0.0 | 1.0 |
| EEDOLIAE_17 | 1.0 | 0.0 | 1.0 |
| EEDOLIAE_19 | 1.0 | 0.0 | 1.0 |
| EEDOLIAE_20 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_23 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_28 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_29 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_30 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_31 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_32 | 0.0 | 1.0 | 0.0 |
| EEDOLIAE_33 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| EEDOLIAE_12 | 365572 | 393276 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4843, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG2752, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
Phigaro v2.4.0 (Database: Jan. 2024 release)