Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 5 | 17.15 |
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. |
|---|---|---|---|---|---|---|---|---|
| EDLPINCJ_5 | 2225306 | 2227876 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| EDLPINCJ_5 | 1766894 | 1767232 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| EDLPINCJ_5 | 1766577 | 1766894 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| EDLPINCJ_5 | 778533 | 779702 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| EDLPINCJ_5 | 551740 | 552942 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| EDLPINCJ_5 | 522694 | 523548 | aadK | ARO:3002627 | aadK | 98.94 | 100.00 | AL009126.1 |
| EDLPINCJ_1 | 251040 | 251960 | mphK | ARO:3004541 | mphK | 97.39 | 100.00 | CP010314.1 |
| EDLPINCJ_1 | 237708 | 239147 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.42 | JYFL01000006.1 |
| EDLPINCJ_1 | 187992 | 188585 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| EDLPINCJ_2 | 34073 | 35719 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.18 | 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. |
|---|---|---|---|---|---|---|---|
| EDLPINCJ_5 | 522694 | 523548 | aadK | Streptomycin | 99.06 | 100.00 | M26879 |
| EDLPINCJ_5 | 3509051 | 3510427 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.62 | 100.00 | X08034 |
| EDLPINCJ_1 | 251040 | 251960 | mph(K) | Spiramycin, Telithromycin | 97.29 | 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. |
|---|---|---|---|---|---|---|---|---|
| EDLPINCJ_5 | 3509057 | 3510427 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 99.12 | 99.78 | WP_003242953.1 |
| EDLPINCJ_5 | 522694 | 523545 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.94 | 100.00 | WP_003229862.1 |
| EDLPINCJ_2 | 34073 | 35716 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| EDLPINCJ_1 | 251043 | 251960 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.39 | 100.00 | WP_003246254.1 |
| EDLPINCJ_5 | 3506519 | 3507037 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.75 | 100.00 | WP_003242546.1 |
| EDLPINCJ_5 | 1076523 | 1079120 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| EDLPINCJ_5 | 3005949 | 3007130 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| EDLPINCJ_5 | 982068 | 982708 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 99.84 | NP_390062 |
| EDLPINCJ_5 | 2601015 | 2601800 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| EDLPINCJ_5 | 2597179 | 2598117 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.47 | 100.00 | NP_391077 |
| EDLPINCJ_5 | 3005485 | 3005934 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| EDLPINCJ_5 | 2599793 | 2600989 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.17 | 100.00 | NP_391079 |
| EDLPINCJ_5 | 3004324 | 3005466 | capA | 0.0 | Capsule | Immune modulation | 99.04 | 100.00 | NP_391469 |
| EDLPINCJ_5 | 1128087 | 1129850 | dep/capD | 0.0 | Capsule | Immune modulation | 98.75 | 100.00 | NP_389723 |
| EDLPINCJ_5 | 2590023 | 2597159 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.72 | 100.00 | NP_391076 |
| EDLPINCJ_5 | 2598145 | 2599764 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.46 | 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 |
|---|---|---|---|---|---|---|---|---|
| EDLPINCJ_1 | 410423 | 409287 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| EDLPINCJ_1 | 355140 | 356009 | pdxS | 3.31e-150 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| EDLPINCJ_5 | 1456875 | 1456099 | CodY | 2.95e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| EDLPINCJ_5 | 2856558 | 2857127 | ClpP | 2.19e-98 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| EDLPINCJ_2 | 88834 | 88637 | CspA | 4.34e-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 |
|---|---|---|---|
| EDLPINCJ_1 | 0.0 | 1.0 | 0.0 |
| EDLPINCJ_2 | 0.0 | 1.0 | 0.0 |
| EDLPINCJ_3 | 0.0 | 1.0 | 0.0 |
| EDLPINCJ_4 | 1.0 | 0.0 | 1.0 |
| EDLPINCJ_5 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| EDLPINCJ_5 | 286940 | 310783 | False | Myoviridae | VOG0720, VOG4555, VOG4553, VOG4564, VOG4623, VOG1353, VOG1881, VOG1883, VOG1352, VOG4699, VOG6163, VOG1956, VOG1433, VOG1348, VOG0573, VOG4550, VOG4691, VOG4845, VOG7718, VOG3390, VOG4705, VOG0753, VOG0136, VOG4574, VOG5859, VOG6116 |
| EDLPINCJ_5 | 365842 | 390547 | False | Siphoviridae | VOG0198, VOG4581, VOG1886, VOG4556, VOG4568, VOG4553, VOG5361, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG5910, VOG6163, VOG0801, VOG4619, VOG4660, VOG4612, VOG3390, VOG4705, VOG5008 |
| EDLPINCJ_5 | 583395 | 602622 | False | Myoviridae | VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG10095, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718 |
| EDLPINCJ_5 | 1796722 | 1823205 | False | Myoviridae | VOG0753, VOG4705, VOG4612, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
Phigaro v2.4.0 (Database: Jan. 2024 release)