Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 8 | 18.25 |
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. |
|---|---|---|---|---|---|---|---|---|
| MEFHIKGN_1 | 1250805 | 1251659 | aadK | ARO:3002627 | aadK | 98.94 | 100.00 | AL009126.1 |
| MEFHIKGN_1 | 1232432 | 1233634 | blt | ARO:3003006 | blt | 99.50 | 100.00 | L32599.1 |
| MEFHIKGN_1 | 1027113 | 1028282 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| MEFHIKGN_3 | 410257 | 411900 | vmlR | ARO:3004476 | vmlR | 98.35 | 100.00 | NC_000964.3 |
| MEFHIKGN_5 | 261653 | 264223 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| MEFHIKGN_3 | 161223 | 161816 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| MEFHIKGN_3 | 110699 | 112138 | lmrB | ARO:3002813 | lmrB | 99.79 | 100.42 | JYFL01000006.1 |
| MEFHIKGN_3 | 97884 | 98804 | mphK | ARO:3004541 | mphK | 98.02 | 100.00 | CP010314.1 |
| MEFHIKGN_1 | 41808 | 42125 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| MEFHIKGN_1 | 41470 | 41808 | ykkC | ARO:3003063 | ykkC | 100.00 | 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. |
|---|---|---|---|---|---|---|---|
| MEFHIKGN_1 | 1250807 | 1251659 | aadK | Streptomycin | 98.94 | 99.77 | M26879 |
| MEFHIKGN_6 | 128764 | 130140 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 98.91 | 100.00 | D12567 |
| MEFHIKGN_3 | 97884 | 98804 | mph(K) | Spiramycin, Telithromycin | 97.61 | 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. |
|---|---|---|---|---|---|---|---|---|
| MEFHIKGN_1 | 1250808 | 1251659 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.94 | 100.00 | WP_003229862.1 |
| MEFHIKGN_6 | 128767 | 130140 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.91 | 100.00 | WP_063856081.1 |
| MEFHIKGN_3 | 410260 | 411900 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.35 | 100.00 | WP_003234144.1 |
| MEFHIKGN_3 | 97884 | 98792 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.02 | 99.02 | WP_003246254.1 |
| MEFHIKGN_6 | 126293 | 126811 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| MEFHIKGN_1 | 719296 | 721893 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.83 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| MEFHIKGN_2 | 526280 | 527422 | capA | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_391469 |
| MEFHIKGN_2 | 527441 | 527890 | capC | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_391470 |
| MEFHIKGN_2 | 113049 | 113834 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 100.00 | 100.00 | NP_391080 |
| MEFHIKGN_2 | 527905 | 529086 | capB | 0.0 | Capsule | Immune modulation | 99.92 | 100.00 | NP_391471 |
| MEFHIKGN_2 | 109213 | 110151 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.89 | 100.00 | NP_391077 |
| MEFHIKGN_2 | 102057 | 109193 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.78 | 100.00 | NP_391076 |
| MEFHIKGN_2 | 110179 | 111798 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.57 | 100.00 | NP_391078 |
| MEFHIKGN_2 | 111827 | 113023 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.50 | 100.00 | NP_391079 |
| MEFHIKGN_1 | 669987 | 671750 | dep/capD | 0.0 | Capsule | Immune modulation | 99.38 | 100.00 | NP_389723 |
| MEFHIKGN_1 | 827149 | 827790 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.22 | 100.00 | NP_390062 |
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 |
|---|---|---|---|---|---|---|---|---|
| MEFHIKGN_7 | 28004 | 26868 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| MEFHIKGN_9 | 4342 | 5211 | pdxS | 2.00e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| MEFHIKGN_1 | 355101 | 355877 | CodY | 1.40e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| MEFHIKGN_2 | 368701 | 369270 | ClpP | 5.32e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| MEFHIKGN_4 | 276459 | 276851 | spxA1 | 2.48e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| MEFHIKGN_4 | 276459 | 276851 | spx | 1.48e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| MEFHIKGN_8 | 34695 | 34453 | SpoVG | 7.51e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| MEFHIKGN_3 | 362297 | 362494 | CspA | 1.90e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| MEFHIKGN_4 | 33232 | 33038 | CspB | 3.58e-27 | cold shock protein | 83.08 | 98.48 | CAD00094 |
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 |
|---|---|---|---|
| MEFHIKGN_1 | 0.0 | 1.0 | 0.0 |
| MEFHIKGN_2 | 0.0 | 1.0 | 0.0 |
| MEFHIKGN_3 | 0.0 | 1.0 | 0.0 |
| MEFHIKGN_4 | 0.0 | 1.0 | 0.0 |
| MEFHIKGN_5 | 0.0 | 1.0 | 0.0 |
| MEFHIKGN_6 | 0.0 | 1.0 | 0.0 |
| MEFHIKGN_7 | 0.0 | 1.0 | 0.0 |
| MEFHIKGN_8 | 0.0 | 1.0 | 0.0 |
| MEFHIKGN_9 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| MEFHIKGN_1 | 4563 | 11660 | False | Myoviridae | VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
| MEFHIKGN_1 | 1210449 | 1215509 | False | Myoviridae | VOG4862, VOG4691, VOG3894, VOG4885, VOG11060, VOG1309 |
| MEFHIKGN_1 | 1421792 | 1445881 | False | Myoviridae | VOG6116, VOG6613, VOG4574, VOG0136, VOG0753, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG4550, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG4553, VOG4555, VOG0720 |
| MEFHIKGN_4 | 374111 | 384438 | False | Siphoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749 |
Phigaro v2.4.0 (Database: Jan. 2024 release)