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. |
|---|---|---|---|---|---|---|---|---|
| KELFKGJM_7 | 583279 | 584448 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| KELFKGJM_2 | 425943 | 426260 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| KELFKGJM_2 | 425605 | 425943 | ykkC | ARO:3003063 | ykkC | 97.32 | 100.00 | AL009126.1 |
| KELFKGJM_7 | 388932 | 390134 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
| KELFKGJM_7 | 361928 | 362782 | aadK | ARO:3002627 | aadK | 98.94 | 100.00 | AL009126.1 |
| KELFKGJM_9 | 156734 | 157327 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| KELFKGJM_9 | 106181 | 107620 | lmrB | ARO:3002813 | lmrB | 99.79 | 100.42 | JYFL01000006.1 |
| KELFKGJM_9 | 93369 | 94289 | mphK | ARO:3004541 | mphK | 97.06 | 100.00 | CP010314.1 |
| KELFKGJM_11 | 63021 | 64667 | vmlR | ARO:3004476 | vmlR | 99.27 | 100.18 | NC_000964.3 |
| KELFKGJM_8 | 27452 | 30022 | 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. |
|---|---|---|---|---|---|---|---|
| KELFKGJM_7 | 361928 | 362782 | aadK | Streptomycin | 98.95 | 100.00 | M26879 |
| KELFKGJM_1 | 1018968 | 1020344 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.77 | 100.00 | X08034 |
| KELFKGJM_9 | 93369 | 94289 | 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. |
|---|---|---|---|---|---|---|---|---|
| KELFKGJM_11 | 63024 | 64667 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 99.27 | 100.00 | WP_003234144.1 |
| KELFKGJM_7 | 361928 | 362779 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.94 | 100.00 | WP_003229862.1 |
| KELFKGJM_1 | 1018974 | 1020344 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.91 | 99.78 | WP_003242953.1 |
| KELFKGJM_9 | 93369 | 94286 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.06 | 100.00 | WP_003246254.1 |
| KELFKGJM_1 | 1016426 | 1016944 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| KELFKGJM_1 | 522012 | 523193 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| KELFKGJM_7 | 783374 | 784014 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 99.84 | NP_390062 |
| KELFKGJM_1 | 113254 | 114039 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| KELFKGJM_1 | 520387 | 521529 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| KELFKGJM_1 | 521548 | 521997 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| KELFKGJM_1 | 112032 | 113228 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.08 | 100.00 | NP_391079 |
| KELFKGJM_7 | 921014 | 922777 | dep/capD | 0.0 | Capsule | Immune modulation | 98.87 | 100.00 | NP_389723 |
| KELFKGJM_1 | 110384 | 112003 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.64 | 100.00 | NP_391078 |
| KELFKGJM_1 | 102262 | 109398 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.64 | 100.00 | NP_391076 |
| KELFKGJM_1 | 109418 | 110356 | 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 |
|---|---|---|---|---|---|---|---|---|
| KELFKGJM_14 | 31888 | 33024 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| KELFKGJM_4 | 11333 | 10464 | pdxS | 1.13e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| KELFKGJM_2 | 737650 | 738426 | CodY | 8.34e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| KELFKGJM_1 | 365779 | 366348 | ClpP | 6.50e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| KELFKGJM_2 | 275360 | 275752 | spxA1 | 6.55e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| KELFKGJM_2 | 275360 | 275752 | spx | 3.91e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| KELFKGJM_3 | 34794 | 34552 | SpoVG | 7.54e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| KELFKGJM_11 | 9168 | 9365 | 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 |
|---|---|---|---|
| KELFKGJM_1 | 0.0 | 1.0 | 0.0 |
| KELFKGJM_2 | 0.0 | 1.0 | 0.0 |
| KELFKGJM_3 | 0.0 | 1.0 | 0.0 |
| KELFKGJM_4 | 0.0 | 1.0 | 0.0 |
| KELFKGJM_5 | 0.0 | 1.0 | 0.0 |
| KELFKGJM_6 | 0.0 | 1.0 | 0.0 |
| KELFKGJM_7 | 0.0 | 1.0 | 0.0 |
| KELFKGJM_8 | 0.0 | 1.0 | 0.0 |
| KELFKGJM_9 | 0.0 | 1.0 | 0.0 |
| KELFKGJM_10 | 0.0 | 1.0 | 0.0 |
| KELFKGJM_11 | 0.0 | 1.0 | 0.0 |
| KELFKGJM_12 | 0.0 | 1.0 | 0.0 |
| KELFKGJM_13 | 1.0 | 0.0 | 1.0 |
| KELFKGJM_14 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| KELFKGJM_2 | 368183 | 396077 | 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 |
| KELFKGJM_13 | 2979 | 24863 | False | Siphoviridae | VOG5819, VOG1886, VOG4556, VOG4568, VOG4553, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG5852, VOG6163, VOG4605, VOG4599, VOG9244, VOG10944, VOG1024 |
| KELFKGJM_13 | 44409 | 59558 | False | Siphoviridae | VOG11080, VOG2352, VOG0397, VOG1198, VOG4561, VOG4714, VOG2352, VOG3851, VOG2725, VOG4549, VOG5292, VOG1574 |
Phigaro v2.4.0 (Database: Jan. 2024 release)