Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 9 | 10 | 4 | 14.04 |
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. |
|---|---|---|---|---|---|---|---|---|
| PJOJEMMK_1 | 3240601 | 3240918 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| PJOJEMMK_1 | 3240263 | 3240601 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| PJOJEMMK_1 | 2740379 | 2742949 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| PJOJEMMK_1 | 2154507 | 2155100 | tmrB | ARO:3003059 | tmrB | 99.49 | 100.00 | AL009126.3 |
| PJOJEMMK_1 | 2105346 | 2106779 | lmrB | ARO:3002813 | lmrB | 98.95 | 100.00 | JYFL01000006.1 |
| PJOJEMMK_1 | 212296 | 213150 | aadK | ARO:3002627 | aadK | 98.94 | 100.00 | AL009126.1 |
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. |
|---|---|---|---|---|---|---|---|
| PJOJEMMK_1 | 212296 | 213150 | aadK | Streptomycin | 98.83 | 100.00 | M26879 |
| PJOJEMMK_1 | 2092693 | 2093451 | mph(K) | Spiramycin, Telithromycin | 97.63 | 82.41 | 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. |
|---|---|---|---|---|---|---|---|---|
| PJOJEMMK_1 | 212299 | 213150 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.94 | 100.00 | WP_003229862.1 |
| PJOJEMMK_1 | 2092693 | 2093439 | mphK | macrolide 2'-phosphotransferase MphK | PARTIALX | 98.39 | 81.37 | WP_003246254.1 |
| PJOJEMMK_1 | 2410953 | 2412560 | vmlR | ABC-F type ribosomal protection protein VmlR | INTERNAL_STOP | 95.61 | 100.00 | WP_003234144.1 |
| PJOJEMMK_1 | 1808263 | 1808781 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 91.91 | 100.00 | WP_003242546.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| PJOJEMMK_1 | 1313947 | 1315128 | capB | 0.0 | Capsule | Immune modulation | 99.49 | 100.00 | NP_391471 |
| PJOJEMMK_1 | 844169 | 844954 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| PJOJEMMK_1 | 1312322 | 1313464 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| PJOJEMMK_1 | 840333 | 841271 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.15 | 100.00 | NP_391077 |
| PJOJEMMK_1 | 842947 | 844143 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.08 | 100.00 | NP_391079 |
| PJOJEMMK_1 | 3912310 | 3912951 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 98.91 | 100.00 | NP_390062 |
| PJOJEMMK_1 | 1313483 | 1313932 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| PJOJEMMK_1 | 833177 | 840313 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.66 | 100.00 | NP_391076 |
| PJOJEMMK_1 | 3729749 | 3731501 | dep/capD | 0.0 | Capsule | Immune modulation | 98.30 | 99.94 | NP_389723 |
| PJOJEMMK_1 | 841299 | 842918 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.04 | 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 |
|---|---|---|---|---|---|---|---|---|
| PJOJEMMK_1 | 1970564 | 1971700 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| PJOJEMMK_1 | 1856668 | 1857537 | pdxS | 5.38e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| PJOJEMMK_1 | 3552425 | 3553201 | CodY | 3.35e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| PJOJEMMK_1 | 1155630 | 1156199 | ClpP | 2.49e-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 |
|---|---|---|---|
| PJOJEMMK_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 |
|---|---|---|---|---|---|
| PJOJEMMK_1 | 337386 | 372082 | False | Siphoviridae | VOG4972, VOG4574, VOG0641, VOG4705, VOG6243, VOG4612, VOG4626, VOG4619, VOG0801, VOG6163, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG3607, VOG1886, VOG4581, VOG4556, VOG6965, VOG0198, VOG4548, VOG0327, VOG4609, VOG0026, VOG1565, VOG0021, VOG1047, VOG7438 |
| PJOJEMMK_1 | 419954 | 451948 | False | Siphoviridae | VOG4574, VOG0641, VOG4705, VOG6243, VOG4612, VOG4626, VOG4619, VOG0801, VOG6163, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4573, VOG4556, VOG0202, VOG1886, VOG4581, VOG4841, VOG0713, VOG7884, VOG0275, VOG0198, VOG0044, VOG0397, VOG3444, VOG4567, VOG5836, VOG1336, VOG0536 |
| PJOJEMMK_1 | 1028970 | 1058044 | False | Siphoviridae | VOG0641, VOG4705, VOG6243, VOG4612, VOG4626, VOG4619, VOG6965, VOG4772, VOG0801, VOG5910, VOG0541, VOG4586, VOG0704, VOG9583, VOG0204, VOG10223, VOG4553, VOG4568, VOG4556, VOG3607, VOG1886, VOG4581, VOG0713, VOG4841, VOG0275, VOG0198, VOG0044, VOG0102, VOG0397, VOG5836, VOG0245 |
| PJOJEMMK_1 | 1058531 | 1069061 | True | Siphoviridae | VOG6587, VOG0189, VOG4566, VOG7581, VOG9667, VOG9667, VOG1563, VOG0275, VOG0275 |
| PJOJEMMK_1 | 2472183 | 2495086 | False | Siphoviridae | VOG0796, VOG10227, VOG0720, VOG4564, VOG7363, VOG4555, VOG1329, VOG3480, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG2621, VOG0725, VOG4545, VOG4605, VOG4599, VOG3390, VOG4705, VOG5615, VOG0753, VOG0136, VOG4574 |
| PJOJEMMK_1 | 3183438 | 3210799 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
| PJOJEMMK_1 | 4118276 | 4124055 | False | Unknown | VOG6495, VOG3239, VOG0189, VOG0944 |
Phigaro v2.4.0 (Database: Jan. 2024 release)