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. |
|---|---|---|---|---|---|---|---|---|
| MOMKPOKD_5 | 588305 | 589159 | aadK | ARO:3002627 | aadK | 98.94 | 100.00 | AL009126.1 |
| MOMKPOKD_5 | 569520 | 570722 | blt | ARO:3003006 | blt | 100.00 | 100.00 | L32599.1 |
| MOMKPOKD_8 | 438469 | 438786 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| MOMKPOKD_8 | 438131 | 438469 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| MOMKPOKD_1 | 409758 | 411401 | vmlR | ARO:3004476 | vmlR | 98.17 | 100.00 | NC_000964.3 |
| MOMKPOKD_5 | 370985 | 372154 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| MOMKPOKD_2 | 247788 | 250358 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.65 | 100.00 | AL009126.3 |
| MOMKPOKD_1 | 159667 | 160260 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| MOMKPOKD_1 | 109145 | 110584 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.42 | JYFL01000006.1 |
| MOMKPOKD_1 | 97503 | 98423 | mphK | ARO:3004541 | mphK | 98.69 | 100.00 | CP010314.1 |
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. |
|---|---|---|---|---|---|---|---|
| MOMKPOKD_5 | 588305 | 589159 | aadK | Streptomycin | 99.18 | 100.00 | M26879 |
| MOMKPOKD_4 | 109337 | 110713 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.98 | 100.00 | D12567 |
| MOMKPOKD_1 | 97503 | 98423 | mph(K) | Spiramycin, Telithromycin | 98.05 | 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. |
|---|---|---|---|---|---|---|---|---|
| MOMKPOKD_5 | 588308 | 589159 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.94 | 100.00 | WP_003229862.1 |
| MOMKPOKD_1 | 97503 | 98420 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.69 | 100.00 | WP_003246254.1 |
| MOMKPOKD_4 | 109340 | 110713 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.47 | 100.00 | WP_063856081.1 |
| MOMKPOKD_1 | 409761 | 411401 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.17 | 100.00 | WP_003234144.1 |
| MOMKPOKD_4 | 106852 | 107370 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.75 | 100.00 | WP_003242546.1 |
| MOMKPOKD_5 | 58797 | 61394 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| MOMKPOKD_5 | 168179 | 168820 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 100.00 | 100.00 | NP_390062 |
| MOMKPOKD_3 | 391018 | 392199 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| MOMKPOKD_3 | 810309 | 811094 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| MOMKPOKD_3 | 392682 | 393824 | capA | 0.0 | Capsule | Immune modulation | 99.39 | 100.00 | NP_391469 |
| MOMKPOKD_3 | 392214 | 392663 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| MOMKPOKD_5 | 9473 | 11236 | dep/capD | 0.0 | Capsule | Immune modulation | 99.15 | 100.00 | NP_389723 |
| MOMKPOKD_3 | 814950 | 822086 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.80 | 100.00 | NP_391076 |
| MOMKPOKD_3 | 812345 | 813964 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.39 | 100.00 | NP_391078 |
| MOMKPOKD_3 | 813992 | 814930 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.30 | 100.00 | NP_391077 |
| MOMKPOKD_3 | 811120 | 812316 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.08 | 100.00 | NP_391079 |
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 |
|---|---|---|---|---|---|---|---|---|
| MOMKPOKD_10 | 31866 | 33002 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| MOMKPOKD_17 | 11134 | 10265 | pdxS | 1.11e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| MOMKPOKD_7 | 123550 | 122774 | CodY | 2.07e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| MOMKPOKD_3 | 558671 | 558102 | ClpP | 5.56e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| MOMKPOKD_8 | 288289 | 288681 | spxA1 | 3.93e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| MOMKPOKD_8 | 288289 | 288681 | spx | 2.34e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| MOMKPOKD_11 | 20497 | 20739 | SpoVG | 7.48e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| MOMKPOKD_1 | 359759 | 359956 | CspA | 1.90e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| MOMKPOKD_8 | 45922 | 45728 | CspB | 5.66e-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 |
|---|---|---|---|
| MOMKPOKD_1 | 0.0 | 1.0 | 0.0 |
| MOMKPOKD_2 | 0.0 | 1.0 | 0.0 |
| MOMKPOKD_3 | 0.0 | 1.0 | 0.0 |
| MOMKPOKD_4 | 0.0 | 1.0 | 0.0 |
| MOMKPOKD_5 | 0.0 | 1.0 | 0.0 |
| MOMKPOKD_6 | 0.0 | 1.0 | 0.0 |
| MOMKPOKD_7 | 0.0 | 1.0 | 0.0 |
| MOMKPOKD_8 | 0.0 | 1.0 | 0.0 |
| MOMKPOKD_9 | 0.0 | 1.0 | 0.0 |
| MOMKPOKD_10 | 0.0 | 1.0 | 0.0 |
| MOMKPOKD_11 | 0.0 | 1.0 | 0.0 |
| MOMKPOKD_12 | 1.0 | 0.0 | 1.0 |
| MOMKPOKD_14 | 0.0 | 1.0 | 0.0 |
| MOMKPOKD_15 | 0.0 | 1.0 | 0.0 |
| MOMKPOKD_16 | 0.0 | 1.0 | 0.0 |
| MOMKPOKD_17 | 0.0 | 1.0 | 0.0 |
| MOMKPOKD_18 | 1.0 | 0.0 | 1.0 |
| MOMKPOKD_19 | 1.0 | 0.0 | 1.0 |
| MOMKPOKD_20 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| MOMKPOKD_5 | 759370 | 785695 | False | Myoviridae | VOG6116, VOG5859, VOG4574, VOG0136, VOG0753, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG4550, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG0815, VOG4553, VOG4555, VOG0720, VOG10227, VOG0796, VOG6282 |
| MOMKPOKD_5 | 795739 | 797021 | False | Unknown | VOG4552 |
| MOMKPOKD_8 | 382221 | 408262 | 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 |
Phigaro v2.4.0 (Database: Jan. 2024 release)