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. |
|---|---|---|---|---|---|---|---|---|
| OPCDLHFD_1 | 2618693 | 2619895 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
| OPCDLHFD_1 | 2445433 | 2446602 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| OPCDLHFD_1 | 1423603 | 1423920 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| OPCDLHFD_1 | 1423265 | 1423603 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| OPCDLHFD_1 | 954555 | 957125 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| OPCDLHFD_1 | 580148 | 581794 | vmlR | ARO:3004476 | vmlR | 98.18 | 100.18 | NC_000964.3 |
| OPCDLHFD_1 | 337589 | 338182 | tmrB | ARO:3003059 | tmrB | 99.49 | 100.00 | AL009126.3 |
| OPCDLHFD_1 | 285463 | 286896 | lmrB | ARO:3002813 | lmrB | 100.00 | 100.00 | JYFL01000006.1 |
| OPCDLHFD_1 | 272653 | 273573 | mphK | ARO:3004541 | mphK | 99.67 | 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. |
|---|---|---|---|---|---|---|---|
| OPCDLHFD_1 | 272653 | 273573 | mph(K) | Spiramycin, Telithromycin | 99.57 | 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. |
|---|---|---|---|---|---|---|---|---|
| OPCDLHFD_1 | 272653 | 273570 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.67 | 100.00 | WP_003246254.1 |
| OPCDLHFD_1 | 580151 | 581794 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.18 | 100.00 | WP_003234144.1 |
| OPCDLHFD_1 | 4216107 | 4216625 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 91.33 | 100.00 | WP_003242546.1 |
| OPCDLHFD_1 | 2013276 | 2015873 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.94 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| OPCDLHFD_1 | 3254244 | 3255029 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| OPCDLHFD_1 | 3723252 | 3723701 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| OPCDLHFD_1 | 3723716 | 3724897 | capB | 0.0 | Capsule | Immune modulation | 99.49 | 100.00 | NP_391471 |
| OPCDLHFD_1 | 2242396 | 2243037 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.38 | 100.00 | NP_390062 |
| OPCDLHFD_1 | 3722091 | 3723233 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| OPCDLHFD_1 | 3250408 | 3251346 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391077 |
| OPCDLHFD_1 | 1967402 | 1969165 | dep/capD | 0.0 | Capsule | Immune modulation | 98.98 | 100.00 | NP_389723 |
| OPCDLHFD_1 | 3243252 | 3250388 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.70 | 100.00 | NP_391076 |
| OPCDLHFD_1 | 3253022 | 3254218 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.58 | 100.00 | NP_391079 |
| OPCDLHFD_1 | 3251374 | 3252993 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.53 | 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 |
|---|---|---|---|---|---|---|---|---|
| OPCDLHFD_1 | 133092 | 134228 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| OPCDLHFD_1 | 19196 | 20065 | pdxS | 3.15e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| OPCDLHFD_1 | 1735518 | 1736294 | CodY | 3.44e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| OPCDLHFD_1 | 3569719 | 3570288 | ClpP | 2.55e-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 |
|---|---|---|---|
| OPCDLHFD_1 | 0.0 | 1.0 | 0.0 |
| OPCDLHFD_2 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| OPCDLHFD_1 | 645625 | 668219 | 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 |
| OPCDLHFD_1 | 1368738 | 1394034 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG7895, VOG0753 |
| OPCDLHFD_1 | 2182254 | 2187935 | False | Myoviridae | VOG5722, VOG5779, VOG5721 |
| OPCDLHFD_1 | 2199313 | 2216177 | False | Siphoviridae | VOG9312, VOG4910, VOG3389, VOG5042, VOG9712, VOG4626, VOG3390, VOG4705, VOG4574, VOG8537 |
| OPCDLHFD_1 | 2672405 | 2696169 | False | Siphoviridae | VOG4707, VOG0641, VOG7896, VOG3390, VOG4612, VOG4705, VOG3390, VOG4626, VOG4772, VOG0801, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG3607, VOG1886, VOG4581, VOG0713, VOG4841, VOG4556 |
| OPCDLHFD_1 | 3116792 | 3139439 | False | Myoviridae | VOG4574, VOG0641, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG4550, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG4553, VOG4555, VOG0720 |
| OPCDLHFD_1 | 3146625 | 3153115 | False | Unknown | VOG0586, VOG0189, VOG4566, VOG1309, VOG4600, VOG1720, VOG4552 |
| OPCDLHFD_1 | 3321048 | 3351596 | False | Siphoviridae | VOG4574, VOG0641, VOG7896, VOG3390, VOG4612, VOG4705, VOG3390, VOG4626, VOG4772, VOG0801, VOG5910, VOG0541, VOG4586, VOG0704, VOG9583, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG3607, VOG1886, VOG4581, VOG0713, VOG4841, VOG0275, VOG0198, VOG1884 |
Phigaro v2.4.0 (Database: Jan. 2024 release)