Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 1 | 2 | 8 | 8.31 |
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. |
|---|---|---|---|---|---|---|---|---|
| GNFOHPPO_4 | 63147 | 64196 | clbA | ARO:3002814 | clbA | 99.71 | 100.00 | CP006845.1 |
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. |
|---|---|---|---|---|---|---|---|
| GNFOHPPO_4 | 63161 | 64196 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 89.09 | 98.67 | KR610408 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| GNFOHPPO_4 | 63150 | 64196 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 99.71 | 100.00 | WP_012116915.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| GNFOHPPO_8 | 207669 | 208850 | capB | 0.0 | Capsule | Immune modulation | 81.96 | 99.66 | NP_391471 |
| GNFOHPPO_8 | 208865 | 209315 | capC | 4.10e-113 | Capsule | Immune modulation | 83.41 | 99.78 | NP_391470 |
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 |
|---|---|---|---|---|---|---|---|---|
| GNFOHPPO_14 | 28244 | 27108 | tufA | 0.0 | elongation factor Tu | 86.81 | 95.69 | AHM69299 |
| GNFOHPPO_20 | 4390 | 5259 | pdxS | 1.37e-152 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| GNFOHPPO_3 | 123767 | 124543 | CodY | 5.40e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| GNFOHPPO_1 | 273097 | 272705 | spxA1 | 1.02e-69 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| GNFOHPPO_4 | 80258 | 80061 | CspA | 2.43e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| GNFOHPPO_17 | 14150 | 14344 | CspB | 1.10e-27 | cold shock protein | 84.61 | 98.48 | CAD00094 |
| GNFOHPPO_2 | 375966 | 375772 | CspD | 1.20e-27 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| GNFOHPPO_4 | 80258 | 80064 | CspR | 3.18e-26 | cold shock protein | 80.00 | 98.48 | AAO82613 |
| GNFOHPPO_9 | 26777 | 27649 | lipA (SAUSA300_0829) | 5.29e-163 | lipoic acid synthetase | 80.82 | 95.41 | ABD22039 |
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 |
|---|---|---|---|
| GNFOHPPO_1 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_2 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_3 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_4 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_5 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_6 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_7 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_8 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_9 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_10 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_11 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_12 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_13 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_14 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_15 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_16 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_17 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_18 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_19 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_20 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_21 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_22 | 0.0 | 1.0 | 0.0 |
| GNFOHPPO_23 | 1.0 | 0.0 | 1.0 |
| GNFOHPPO_29 | 1.0 | 0.0 | 1.0 |
| GNFOHPPO_30 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| GNFOHPPO_1 | 161586 | 187689 | False | Myoviridae | VOG0753, VOG4705, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG5660, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189 |
| GNFOHPPO_7 | 260206 | 289660 | False | Siphoviridae | VOG4552, VOG3547, VOG11060, VOG9600, VOG0025, VOG1884, VOG0425, VOG2981, VOG5447, VOG0376, VOG2545, VOG7958, VOG4841, VOG4581, VOG4544, VOG4556, VOG4573, VOG4553, VOG0204, VOG4589, VOG0704, VOG4586, VOG5852, VOG6163, VOG0801, VOG3462, VOG4619, VOG4856, VOG0804, VOG4705, VOG5221 |
Phigaro v2.4.0 (Database: Jan. 2024 release)