Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 4 | 16.12 |
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. |
|---|---|---|---|---|---|---|---|---|
| PEOIGDKI_1 | 2575921 | 2576775 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| PEOIGDKI_1 | 2559023 | 2560225 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
| PEOIGDKI_1 | 2359925 | 2361094 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| PEOIGDKI_1 | 1365307 | 1365624 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| PEOIGDKI_1 | 1364969 | 1365307 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| PEOIGDKI_1 | 887941 | 890511 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.18 | 100.00 | AL009126.3 |
| PEOIGDKI_1 | 582102 | 583748 | vmlR | ARO:3004476 | vmlR | 98.91 | 100.18 | NC_000964.3 |
| PEOIGDKI_1 | 336013 | 336606 | tmrB | ARO:3003059 | tmrB | 97.46 | 100.00 | AL009126.3 |
| PEOIGDKI_1 | 282077 | 283510 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.00 | JYFL01000006.1 |
| PEOIGDKI_1 | 269263 | 270183 | mphK | ARO:3004541 | mphK | 98.37 | 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. |
|---|---|---|---|---|---|---|---|
| PEOIGDKI_1 | 2575921 | 2576775 | aadK | Streptomycin | 98.83 | 100.00 | M26879 |
| PEOIGDKI_1 | 269263 | 270183 | 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. |
|---|---|---|---|---|---|---|---|---|
| PEOIGDKI_1 | 582105 | 583748 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.91 | 100.00 | WP_003234144.1 |
| PEOIGDKI_1 | 2575924 | 2576775 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| PEOIGDKI_1 | 269263 | 270180 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.37 | 100.00 | WP_003246254.1 |
| PEOIGDKI_1 | 4041395 | 4041913 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 91.91 | 100.00 | WP_003242546.1 |
| PEOIGDKI_1 | 2049576 | 2052173 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.71 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| PEOIGDKI_1 | 3126420 | 3127205 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| PEOIGDKI_1 | 2160360 | 2161001 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 100.00 | NP_390062 |
| PEOIGDKI_1 | 2003859 | 2005622 | dep/capD | 0.0 | Capsule | Immune modulation | 99.43 | 100.00 | NP_389723 |
| PEOIGDKI_1 | 3535979 | 3537160 | capB | 0.0 | Capsule | Immune modulation | 99.41 | 100.00 | NP_391471 |
| PEOIGDKI_1 | 3125198 | 3126394 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.08 | 100.00 | NP_391079 |
| PEOIGDKI_1 | 3535515 | 3535964 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| PEOIGDKI_1 | 3534354 | 3535496 | capA | 0.0 | Capsule | Immune modulation | 98.86 | 100.00 | NP_391469 |
| PEOIGDKI_1 | 3122584 | 3123522 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.83 | 100.00 | NP_391077 |
| PEOIGDKI_1 | 3115428 | 3122564 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.40 | 100.00 | NP_391076 |
| PEOIGDKI_1 | 3123550 | 3125169 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.28 | 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 |
|---|---|---|---|---|---|---|---|---|
| PEOIGDKI_1 | 132466 | 133602 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| PEOIGDKI_1 | 18665 | 19534 | pdxS | 3.03e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| PEOIGDKI_1 | 1675462 | 1676238 | CodY | 3.31e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| PEOIGDKI_1 | 3377783 | 3378352 | ClpP | 2.45e-98 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
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 |
|---|---|---|---|
| PEOIGDKI_1 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| PEOIGDKI_1 | 1309170 | 1335755 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG7895, VOG0753 |
Phigaro v2.4.0 (Database: Jan. 2024 release)