Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 11 | 10 | 4 | 15.39 |
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. |
|---|---|---|---|---|---|---|---|---|
| IOGKIPFI_1 | 2552523 | 2553377 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| IOGKIPFI_1 | 2534035 | 2535237 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
| IOGKIPFI_1 | 2348443 | 2349612 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| IOGKIPFI_1 | 1420622 | 1420939 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| IOGKIPFI_1 | 1420284 | 1420622 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| IOGKIPFI_1 | 936856 | 939426 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| IOGKIPFI_1 | 608300 | 609946 | vmlR | ARO:3004476 | vmlR | 97.99 | 100.18 | NC_000964.3 |
| IOGKIPFI_1 | 336887 | 337480 | tmrB | ARO:3003059 | tmrB | 99.49 | 100.00 | AL009126.3 |
| IOGKIPFI_1 | 287434 | 288867 | lmrB | ARO:3002813 | lmrB | 99.79 | 100.00 | JYFL01000006.1 |
| IOGKIPFI_1 | 274619 | 275539 | mphK | ARO:3004541 | mphK | 98.68 | 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. |
|---|---|---|---|---|---|---|---|
| IOGKIPFI_1 | 2552523 | 2553377 | aadK | Streptomycin | 98.83 | 100.00 | M26879 |
| IOGKIPFI_1 | 274619 | 275539 | mph(K) | Spiramycin, Telithromycin | 97.94 | 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. |
|---|---|---|---|---|---|---|---|---|
| IOGKIPFI_1 | 274619 | 275527 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.68 | 99.02 | WP_003246254.1 |
| IOGKIPFI_1 | 2552526 | 2553377 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| IOGKIPFI_1 | 608303 | 609946 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 97.99 | 100.00 | WP_003234144.1 |
| IOGKIPFI_1 | 4077917 | 4078435 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 89.60 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| IOGKIPFI_1 | 3103087 | 3104025 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| IOGKIPFI_1 | 3567827 | 3569008 | capB | 0.0 | Capsule | Immune modulation | 99.49 | 100.00 | NP_391471 |
| IOGKIPFI_1 | 3106912 | 3107697 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| IOGKIPFI_1 | 3566202 | 3567344 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| IOGKIPFI_1 | 3095931 | 3103067 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.12 | 100.00 | NP_391076 |
| IOGKIPFI_1 | 1964267 | 1966030 | dep/capD | 0.0 | Capsule | Immune modulation | 98.92 | 100.00 | NP_389723 |
| IOGKIPFI_1 | 2131416 | 2132057 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 98.91 | 100.00 | NP_390062 |
| IOGKIPFI_1 | 3567363 | 3567812 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| IOGKIPFI_1 | 3105690 | 3106886 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.58 | 100.00 | NP_391079 |
| IOGKIPFI_1 | 3104053 | 3105672 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.84 | 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 |
|---|---|---|---|---|---|---|---|---|
| IOGKIPFI_1 | 133188 | 134324 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| IOGKIPFI_1 | 19212 | 20081 | pdxS | 3.05e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| IOGKIPFI_1 | 1741567 | 1742343 | CodY | 3.33e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| IOGKIPFI_1 | 3414916 | 3415485 | ClpP | 2.47e-98 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)
Plasmid
PlasmidFinder
| Query ID | Begin | End | Plasmid | Query / Template | Identity | Accession no. |
|---|---|---|---|---|---|---|
| IOGKIPFI_2 | 3852 | 4012 | Col(SD853) | 161 / 194 | 83.23 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| IOGKIPFI_1 | 0.0 | 1.0 | 0.0 |
| IOGKIPFI_2 | 1.0 | 0.0 | 1.0 |
| IOGKIPFI_3 | 1.0 | 0.0 | 1.0 |
| IOGKIPFI_4 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| IOGKIPFI_1 | 674015 | 696918 | False | Siphoviridae | VOG0796, VOG10227, VOG0720, VOG4564, VOG7363, VOG4555, VOG1329, VOG3480, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG2621, VOG0725, VOG4545, VOG4605, VOG4599, VOG3390, VOG4705, VOG5615, VOG0753, VOG0136, VOG4574 |
| IOGKIPFI_1 | 1363461 | 1390820 | 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 |
| IOGKIPFI_1 | 3289919 | 3317306 | False | Siphoviridae | VOG0641, VOG4705, VOG6243, VOG4612, VOG4626, VOG4772, VOG0801, VOG5910, VOG0541, VOG4586, VOG0704, VOG9583, VOG0204, VOG10223, VOG4553, VOG4568, VOG4556, VOG3607, VOG1886, VOG4581, VOG0713, VOG4841, VOG0275, VOG0198, VOG0044, VOG0102, VOG0397, VOG5836, VOG0245 |
| IOGKIPFI_1 | 3317902 | 3324757 | False | Siphoviridae | VOG6587, VOG0189, VOG4566, VOG7581, VOG9667, VOG9667, VOG1563 |
Phigaro v2.4.0 (Database: Jan. 2024 release)