Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 4 | 16.12 |
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. |
|---|---|---|---|---|---|---|---|---|
| HDIOGKNB_1 | 3931158 | 3932327 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| HDIOGKNB_1 | 3709836 | 3711038 | blt | ARO:3003006 | blt | 98.75 | 100.00 | L32599.1 |
| HDIOGKNB_1 | 3691430 | 3692284 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| HDIOGKNB_1 | 1846773 | 1847693 | mphK | ARO:3004541 | mphK | 99.02 | 100.00 | CP010314.1 |
| HDIOGKNB_1 | 1833447 | 1834880 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.00 | JYFL01000006.1 |
| HDIOGKNB_1 | 1783766 | 1784359 | tmrB | ARO:3003059 | tmrB | 97.46 | 100.00 | AL009126.3 |
| HDIOGKNB_1 | 1530818 | 1532461 | vmlR | ARO:3004476 | vmlR | 98.35 | 100.00 | NC_000964.3 |
| HDIOGKNB_1 | 1235625 | 1238195 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.53 | 100.00 | AL009126.3 |
| HDIOGKNB_1 | 773081 | 773419 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| HDIOGKNB_1 | 772764 | 773081 | ykkD | ARO:3003064 | ykkD | 99.05 | 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. |
|---|---|---|---|---|---|---|---|
| HDIOGKNB_1 | 1846773 | 1847693 | mph(K) | Spiramycin, Telithromycin | 99.35 | 100.00 | NC_000964 |
| HDIOGKNB_1 | 3691430 | 3692284 | aadK | Streptomycin | 98.71 | 100.00 | M26879 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| HDIOGKNB_1 | 1846776 | 1847693 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.02 | 100.00 | WP_003246254.1 |
| HDIOGKNB_1 | 3691430 | 3692281 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| HDIOGKNB_1 | 1530818 | 1532458 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.35 | 100.00 | WP_003234144.1 |
| HDIOGKNB_1 | 2143729 | 2144247 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 93.64 | 100.00 | WP_003242546.1 |
| HDIOGKNB_1 | 83033 | 85630 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.65 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| HDIOGKNB_1 | 2635336 | 2636517 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| HDIOGKNB_1 | 3058359 | 3059144 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| HDIOGKNB_1 | 4128994 | 4129635 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.69 | 100.00 | NP_390062 |
| HDIOGKNB_1 | 3059170 | 3060366 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.33 | 100.00 | NP_391079 |
| HDIOGKNB_1 | 138111 | 139874 | dep/capD | 0.0 | Capsule | Immune modulation | 99.32 | 100.00 | NP_389723 |
| HDIOGKNB_1 | 2636532 | 2636981 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| HDIOGKNB_1 | 2637000 | 2638142 | capA | 0.0 | Capsule | Immune modulation | 98.78 | 100.00 | NP_391469 |
| HDIOGKNB_1 | 3063000 | 3070136 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.74 | 100.00 | NP_391076 |
| HDIOGKNB_1 | 3062042 | 3062980 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.40 | 100.00 | NP_391077 |
| HDIOGKNB_1 | 3060395 | 3062014 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.41 | 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 |
|---|---|---|---|---|---|---|---|---|
| HDIOGKNB_1 | 1982665 | 1981529 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| HDIOGKNB_1 | 2096391 | 2095522 | pdxS | 3.07e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| HDIOGKNB_1 | 461674 | 460898 | CodY | 3.35e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| HDIOGKNB_1 | 2795772 | 2795203 | ClpP | 2.49e-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. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| HDIOGKNB_1 | 0.0 | 1.0 | 0.0 |
| HDIOGKNB_2 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| HDIOGKNB_1 | 802963 | 829275 | False | Myoviridae | VOG0753, VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
| HDIOGKNB_1 | 3455877 | 3483985 | False | Siphoviridae | VOG0189, VOG0025, VOG4551, VOG2215, VOG11003, VOG1563, VOG0052, VOG7255, VOG5753, VOG10937, VOG6497, VOG0026, VOG0422, VOG5543, VOG1093, VOG0371, VOG3212, VOG4730, VOG4571, VOG2368, VOG4562, VOG0085, VOG1638, VOG4561, VOG4724, VOG1298, VOG0020, VOG4567, VOG0052, VOG9755, VOG4799 |
| HDIOGKNB_1 | 3492858 | 3519112 | False | Siphoviridae | VOG6430, VOG4841, VOG4581, VOG4544, VOG4556, VOG4573, VOG4553, VOG5601, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG6163, VOG0801, VOG4619, VOG4626, VOG4705, VOG0753, VOG4666, VOG0602, VOG8440, VOG6116, VOG0705 |
| HDIOGKNB_1 | 3730598 | 3760634 | False | Myoviridae | VOG4600, VOG1309, VOG11060, VOG0189, VOG4693, VOG9587, VOG4673, VOG0796, VOG10227, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4691, VOG4862 |
| HDIOGKNB_2 | 80358 | 84960 | False | Siphoviridae | VOG7134, VOG9867, VOG6036, VOG5495, VOG9219, VOG9713 |
| HDIOGKNB_2 | 92977 | 104897 | False | Unknown | VOG9312, VOG4910, VOG3389, VOG3389, VOG5042 |
Phigaro v2.4.0 (Database: Jan. 2024 release)