Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 2 | 7 | 7.55 |
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. |
|---|---|---|---|---|---|---|---|---|
| GKHIEHDG_11 | 92636 | 93685 | clbA | ARO:3002814 | clbA | 99.43 | 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. |
|---|---|---|---|---|---|---|---|
| GKHIEHDG_11 | 92636 | 93671 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 89.00 | 98.67 | KR610408 |
| GKHIEHDG_24 | 194658 | 195598 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 85.35 | 68.34 | X08034 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| GKHIEHDG_11 | 92636 | 93682 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 99.43 | 100.00 | WP_012116915.1 |
| GKHIEHDG_15 | 552331 | 554925 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.11 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| GKHIEHDG_27 | 144296 | 145477 | capB | 0.0 | Capsule | Immune modulation | 82.12 | 99.66 | NP_391471 |
| GKHIEHDG_27 | 143832 | 144281 | capC | 7.27e-115 | Capsule | Immune modulation | 83.59 | 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 |
|---|---|---|---|---|---|---|---|---|
| GKHIEHDG_5 | 31636 | 32772 | tufA | 0.0 | elongation factor Tu | 86.81 | 95.69 | AHM69299 |
| GKHIEHDG_2 | 4267 | 5136 | pdxS | 1.34e-152 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| GKHIEHDG_15 | 352699 | 353475 | CodY | 8.20e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| GKHIEHDG_14 | 254262 | 254654 | spxA1 | 7.29e-70 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| GKHIEHDG_11 | 75120 | 75317 | CspA | 8.34e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| GKHIEHDG_22 | 22593 | 22787 | CspD | 5.49e-28 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| GKHIEHDG_22 | 22593 | 22790 | CspB | 1.14e-27 | cold shock protein | 80.30 | 100.00 | CAD00094 |
| GKHIEHDG_11 | 75120 | 75314 | CspR | 1.09e-26 | cold shock protein | 80.00 | 98.48 | AAO82613 |
| GKHIEHDG_26 | 130422 | 129550 | lipA (SAUSA300_0829) | 1.15e-162 | 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. |
|---|---|---|---|---|---|---|
| GKHIEHDG_31 | 831 | 1017 | Col(SD853) | 187 / 194 | 86.63 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| GKHIEHDG_1 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_2 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_3 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_5 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_7 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_8 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_9 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_10 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_11 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_12 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_13 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_14 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_15 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_16 | 1.0 | 0.0 | 1.0 |
| GKHIEHDG_17 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_18 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_19 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_22 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_23 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_24 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_25 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_26 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_27 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_28 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_29 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_30 | 0.0 | 1.0 | 0.0 |
| GKHIEHDG_31 | 1.0 | 0.0 | 1.0 |
| GKHIEHDG_34 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| GKHIEHDG_15 | 5940 | 31000 | False | Myoviridae | VOG9667, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG5660, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705 |
| GKHIEHDG_28 | 4865 | 29516 | False | Siphoviridae | VOG0641, VOG7896, VOG3390, VOG4612, VOG4660, VOG4772, VOG0801, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG1266, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG3607, VOG1886, VOG4581, VOG0713, VOG4841 |
Phigaro v2.4.0 (Database: Jan. 2024 release)