Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 8 | 17.55 |
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. |
|---|---|---|---|---|---|---|---|---|
| IOKFKOHM_1 | 192748 | 194394 | vmlR | ARO:3004476 | vmlR | 98.91 | 100.18 | NC_000964.3 |
| IOKFKOHM_3 | 182698 | 183867 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| IOKFKOHM_4 | 166972 | 167310 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| IOKFKOHM_4 | 166655 | 166972 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| IOKFKOHM_6 | 98271 | 98864 | tmrB | ARO:3003059 | tmrB | 99.49 | 100.00 | AL009126.3 |
| IOKFKOHM_14 | 60002 | 60856 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| IOKFKOHM_6 | 47713 | 49152 | lmrB | ARO:3002813 | lmrB | 99.79 | 100.42 | JYFL01000006.1 |
| IOKFKOHM_14 | 42923 | 44125 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
| IOKFKOHM_6 | 34899 | 35819 | mphK | ARO:3004541 | mphK | 98.68 | 100.00 | CP010314.1 |
| IOKFKOHM_5 | 27339 | 29909 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 100.00 | 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. |
|---|---|---|---|---|---|---|---|
| IOKFKOHM_14 | 60002 | 60856 | aadK | Streptomycin | 98.83 | 100.00 | M26879 |
| IOKFKOHM_6 | 34899 | 35819 | 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. |
|---|---|---|---|---|---|---|---|---|
| IOKFKOHM_1 | 192751 | 194394 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.91 | 100.00 | WP_003234144.1 |
| IOKFKOHM_6 | 34899 | 35807 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.68 | 99.02 | WP_003246254.1 |
| IOKFKOHM_14 | 60005 | 60856 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| IOKFKOHM_7 | 36042 | 36560 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 91.91 | 100.00 | WP_003242546.1 |
| IOKFKOHM_3 | 495820 | 498408 | rphC | rifamycin-inactivating phosphotransferase RphC | INTERNAL_STOP | 80.25 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| IOKFKOHM_3 | 383963 | 384604 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 100.00 | 100.00 | NP_390062 |
| IOKFKOHM_2 | 686167 | 686952 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| IOKFKOHM_2 | 279481 | 279930 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| IOKFKOHM_2 | 278285 | 279466 | capB | 0.0 | Capsule | Immune modulation | 99.49 | 100.00 | NP_391471 |
| IOKFKOHM_3 | 549785 | 551548 | dep/capD | 0.0 | Capsule | Immune modulation | 99.32 | 100.00 | NP_389723 |
| IOKFKOHM_2 | 279949 | 281091 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| IOKFKOHM_2 | 689850 | 690788 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.15 | 100.00 | NP_391077 |
| IOKFKOHM_2 | 686978 | 688174 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.08 | 100.00 | NP_391079 |
| IOKFKOHM_2 | 690808 | 697944 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.99 | 100.00 | NP_391076 |
| IOKFKOHM_2 | 688203 | 689822 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.10 | 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 |
|---|---|---|---|---|---|---|---|---|
| IOKFKOHM_11 | 31659 | 32795 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| IOKFKOHM_23 | 4285 | 5154 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| IOKFKOHM_3 | 772910 | 772134 | CodY | 7.49e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| IOKFKOHM_2 | 434429 | 433860 | ClpP | 4.81e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| IOKFKOHM_4 | 334929 | 334537 | spxA1 | 3.14e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| IOKFKOHM_4 | 334929 | 334537 | spx | 1.87e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| IOKFKOHM_24 | 20501 | 20743 | SpoVG | 7.48e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| IOKFKOHM_1 | 144601 | 144798 | CspA | 9.65e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| IOKFKOHM_9 | 49355 | 49549 | CspB | 7.43e-28 | 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 |
|---|---|---|---|
| IOKFKOHM_1 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_2 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_3 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_4 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_5 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_6 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_7 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_8 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_9 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_10 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_11 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_13 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_14 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_15 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_16 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_19 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_20 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_22 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_23 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_24 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_25 | 0.0 | 1.0 | 0.0 |
| IOKFKOHM_29 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| IOKFKOHM_3 | 6715 | 10986 | False | Myoviridae | VOG4865, VOG4885, VOG3894, VOG4691, VOG4862 |
| IOKFKOHM_4 | 196800 | 223479 | False | Myoviridae | VOG0753, VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490 |
| IOKFKOHM_14 | 3754 | 17836 | False | Siphoviridae | VOG0749, VOG4685, VOG4688, VOG4773, VOG10227, VOG0796, VOG4673, VOG9587, VOG4693, VOG0189, VOG11060, VOG1309, VOG4600 |
| IOKFKOHM_16 | 1015 | 23876 | False | Siphoviridae | VOG4626, VOG4626, VOG4619, VOG0801, VOG6163, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4573, VOG4556, VOG0202, VOG1886, VOG4581, VOG4841, VOG2874, VOG0275, VOG0198, VOG4376 |
| IOKFKOHM_16 | 29410 | 30204 | False | Unknown | VOG0650 |
Phigaro v2.4.0 (Database: Jan. 2024 release)