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. |
|---|---|---|---|---|---|---|---|---|
| MKMNKICO_96 | 607943 | 608797 | aadK | ARO:3002627 | aadK | 97.54 | 100.00 | AL009126.1 |
| MKMNKICO_96 | 588770 | 589972 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| MKMNKICO_106 | 467600 | 467917 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| MKMNKICO_106 | 467262 | 467600 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| MKMNKICO_96 | 362134 | 363303 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| MKMNKICO_114 | 347152 | 348072 | mphK | ARO:3004541 | mphK | 97.71 | 100.00 | CP010314.1 |
| MKMNKICO_114 | 333823 | 335256 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.00 | JYFL01000006.1 |
| MKMNKICO_114 | 28964 | 30607 | vmlR | ARO:3004476 | vmlR | 98.35 | 100.00 | NC_000964.3 |
| MKMNKICO_124 | 27368 | 29938 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 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. |
|---|---|---|---|---|---|---|---|
| MKMNKICO_85 | 34598 | 35974 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 100.00 | 100.00 | X08034 |
| MKMNKICO_96 | 607945 | 608797 | aadK | Streptomycin | 98.48 | 99.77 | M26879 |
| MKMNKICO_114 | 347152 | 348072 | mph(K) | Spiramycin, Telithromycin | 97.50 | 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. |
|---|---|---|---|---|---|---|---|---|
| MKMNKICO_85 | 34598 | 35971 | tet(L) | tetracycline efflux MFS transporter Tet(L) | EXACTX | 100.00 | 100.00 | WP_003242953.1 |
| MKMNKICO_114 | 28964 | 30604 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.35 | 100.00 | WP_003234144.1 |
| MKMNKICO_114 | 347155 | 348072 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| MKMNKICO_96 | 607946 | 608797 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.54 | 100.00 | WP_003229862.1 |
| MKMNKICO_85 | 37973 | 38491 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 89.60 | 100.00 | WP_003242546.1 |
| MKMNKICO_96 | 58378 | 60975 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.40 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| MKMNKICO_96 | 162946 | 163587 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 100.00 | 100.00 | NP_390062 |
| MKMNKICO_85 | 528142 | 529323 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| MKMNKICO_96 | 8353 | 10116 | dep/capD | 0.0 | Capsule | Immune modulation | 99.49 | 100.00 | NP_389723 |
| MKMNKICO_85 | 943057 | 943842 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| MKMNKICO_85 | 946740 | 947678 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391077 |
| MKMNKICO_85 | 943868 | 945064 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.17 | 100.00 | NP_391079 |
| MKMNKICO_85 | 947698 | 954832 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.06 | 99.97 | NP_391076 |
| MKMNKICO_85 | 529806 | 530948 | capA | 0.0 | Capsule | Immune modulation | 98.95 | 100.00 | NP_391469 |
| MKMNKICO_85 | 529338 | 529787 | capC | 0.0 | Capsule | Immune modulation | 98.67 | 100.00 | NP_391470 |
| MKMNKICO_85 | 945093 | 946712 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.52 | 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 |
|---|---|---|---|---|---|---|---|---|
| MKMNKICO_155 | 31715 | 32851 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| MKMNKICO_11 | 11246 | 10377 | pdxS | 1.11e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| MKMNKICO_106 | 777497 | 778273 | CodY | 7.97e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| MKMNKICO_85 | 690676 | 690107 | ClpP | 6.35e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| MKMNKICO_106 | 276357 | 276749 | spxA1 | 6.26e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| MKMNKICO_106 | 276357 | 276749 | spx | 3.74e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| MKMNKICO_166 | 20577 | 20819 | SpoVG | 7.51e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| MKMNKICO_114 | 81419 | 81222 | CspA | 1.93e-31 | 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 |
|---|---|---|---|
| MKMNKICO_11 | 0.0 | 1.0 | 0.0 |
| MKMNKICO_22 | 0.0 | 1.0 | 0.0 |
| MKMNKICO_85 | 0.0 | 1.0 | 0.0 |
| MKMNKICO_96 | 0.0 | 1.0 | 0.0 |
| MKMNKICO_106 | 0.0 | 1.0 | 0.0 |
| MKMNKICO_114 | 0.0 | 1.0 | 0.0 |
| MKMNKICO_124 | 0.0 | 1.0 | 0.0 |
| MKMNKICO_133 | 0.0 | 1.0 | 0.0 |
| MKMNKICO_144 | 1.0 | 0.0 | 1.0 |
| MKMNKICO_155 | 0.0 | 1.0 | 0.0 |
| MKMNKICO_166 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| MKMNKICO_96 | 540302 | 570151 | False | Myoviridae | VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG9315, VOG0796, VOG4673, VOG4693, VOG0189, VOG11060, VOG1309 |
| MKMNKICO_106 | 325753 | 346012 | False | Siphoviridae | VOG5574, VOG0198, VOG7983, VOG0796, VOG10227, VOG0691, VOG0692, VOG9317, VOG4572, VOG2621, VOG0695, VOG0696, VOG0697, VOG0698, VOG10044, VOG0701, VOG9745, VOG4605, VOG4599, VOG5535, VOG10940 |
| MKMNKICO_106 | 409789 | 437452 | 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 |
| MKMNKICO_144 | 2212 | 25807 | False | Siphoviridae | VOG10944, VOG9244, VOG4599, VOG4605, VOG6163, VOG5852, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG4553, VOG4568, VOG4556, VOG4544, VOG4581, VOG0221 |
| MKMNKICO_144 | 46847 | 65966 | False | Siphoviridae | VOG0025, VOG4551, VOG0918, VOG8918, VOG5292, VOG4549, VOG2725, VOG5668, VOG3851, VOG2352, VOG4714, VOG4561, VOG1198, VOG0397, VOG2352, VOG11080 |
Phigaro v2.4.0 (Database: Jan. 2024 release)