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. |
|---|---|---|---|---|---|---|---|---|
| KOJGMFOG_2 | 569201 | 570055 | aadK | ARO:3002627 | aadK | 98.94 | 100.00 | AL009126.1 |
| KOJGMFOG_2 | 541849 | 543051 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
| KOJGMFOG_1 | 425960 | 426277 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| KOJGMFOG_1 | 425622 | 425960 | ykkC | ARO:3003063 | ykkC | 97.32 | 100.00 | AL009126.1 |
| KOJGMFOG_2 | 347535 | 348704 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| KOJGMFOG_10 | 247842 | 250412 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.53 | 100.00 | AL009126.3 |
| KOJGMFOG_11 | 120551 | 121471 | mphK | ARO:3004541 | mphK | 97.06 | 100.00 | CP010314.1 |
| KOJGMFOG_11 | 107220 | 108659 | lmrB | ARO:3002813 | lmrB | 99.79 | 100.42 | JYFL01000006.1 |
| KOJGMFOG_11 | 57513 | 58106 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| KOJGMFOG_14 | 29106 | 30752 | vmlR | ARO:3004476 | vmlR | 99.27 | 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. |
|---|---|---|---|---|---|---|---|
| KOJGMFOG_2 | 569201 | 570055 | aadK | Streptomycin | 98.95 | 100.00 | M26879 |
| KOJGMFOG_12 | 125654 | 127030 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.77 | 100.00 | X08034 |
| KOJGMFOG_11 | 120551 | 121471 | mph(K) | Spiramycin, Telithromycin | 96.96 | 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. |
|---|---|---|---|---|---|---|---|---|
| KOJGMFOG_14 | 29106 | 30749 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 99.27 | 100.00 | WP_003234144.1 |
| KOJGMFOG_2 | 569204 | 570055 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.94 | 100.00 | WP_003229862.1 |
| KOJGMFOG_12 | 125660 | 127030 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.91 | 99.78 | WP_003242953.1 |
| KOJGMFOG_11 | 120554 | 121471 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.06 | 100.00 | WP_003246254.1 |
| KOJGMFOG_12 | 123112 | 123630 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.75 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| KOJGMFOG_9 | 522013 | 523194 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| KOJGMFOG_2 | 147968 | 148608 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 99.84 | NP_390062 |
| KOJGMFOG_9 | 113239 | 114024 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| KOJGMFOG_9 | 520388 | 521530 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| KOJGMFOG_9 | 521549 | 521998 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| KOJGMFOG_9 | 112017 | 113213 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.08 | 100.00 | NP_391079 |
| KOJGMFOG_2 | 9205 | 10968 | dep/capD | 0.0 | Capsule | Immune modulation | 98.87 | 100.00 | NP_389723 |
| KOJGMFOG_9 | 110369 | 111988 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.64 | 100.00 | NP_391078 |
| KOJGMFOG_9 | 102247 | 109383 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.64 | 100.00 | NP_391076 |
| KOJGMFOG_9 | 109403 | 110341 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.19 | 100.00 | NP_391077 |
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 |
|---|---|---|---|---|---|---|---|---|
| KOJGMFOG_15 | 28140 | 27004 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| KOJGMFOG_3 | 4434 | 5303 | pdxS | 1.13e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| KOJGMFOG_1 | 737457 | 738233 | CodY | 8.33e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| KOJGMFOG_9 | 365780 | 366349 | ClpP | 5.37e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| KOJGMFOG_1 | 275454 | 275846 | spxA1 | 6.55e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| KOJGMFOG_1 | 275454 | 275846 | spx | 3.91e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| KOJGMFOG_16 | 34795 | 34553 | SpoVG | 7.53e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| KOJGMFOG_14 | 84605 | 84408 | CspA | 4.05e-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 |
|---|---|---|---|
| KOJGMFOG_1 | 0.0 | 1.0 | 0.0 |
| KOJGMFOG_2 | 0.0 | 1.0 | 0.0 |
| KOJGMFOG_3 | 0.0 | 1.0 | 0.0 |
| KOJGMFOG_4 | 0.0 | 1.0 | 0.0 |
| KOJGMFOG_5 | 0.0 | 1.0 | 0.0 |
| KOJGMFOG_6 | 0.0 | 1.0 | 0.0 |
| KOJGMFOG_7 | 1.0 | 0.0 | 1.0 |
| KOJGMFOG_9 | 0.0 | 1.0 | 0.0 |
| KOJGMFOG_10 | 0.0 | 1.0 | 0.0 |
| KOJGMFOG_11 | 0.0 | 1.0 | 0.0 |
| KOJGMFOG_12 | 0.0 | 1.0 | 0.0 |
| KOJGMFOG_13 | 0.0 | 1.0 | 0.0 |
| KOJGMFOG_14 | 0.0 | 1.0 | 0.0 |
| KOJGMFOG_15 | 0.0 | 1.0 | 0.0 |
| KOJGMFOG_16 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| KOJGMFOG_1 | 368277 | 396370 | 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, VOG4705, VOG0753 |
Phigaro v2.4.0 (Database: Jan. 2024 release)