Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 1 | 2 | 4 | 4.58 |
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. |
|---|---|---|---|---|---|---|---|---|
| NDNKGANP_1 | 539393 | 540442 | 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. |
|---|---|---|---|---|---|---|---|
| NDNKGANP_1 | 539393 | 540428 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.80 | 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. |
|---|---|---|---|---|---|---|---|---|
| NDNKGANP_1 | 539393 | 540439 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| NDNKGANP_1 | 3711616 | 3712797 | capB | 0.0 | Capsule | Immune modulation | 81.79 | 99.66 | NP_391471 |
| NDNKGANP_1 | 3711152 | 3711601 | capC | 1.56e-113 | 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 |
|---|---|---|---|---|---|---|---|---|
| NDNKGANP_1 | 133371 | 134507 | tufA | 0.0 | elongation factor Tu | 86.81 | 95.69 | AHM69299 |
| NDNKGANP_1 | 18620 | 19489 | pdxS | 3.52e-150 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| NDNKGANP_1 | 1672889 | 1673665 | CodY | 4.99e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| NDNKGANP_1 | 3346831 | 3345959 | lipA (SAUSA300_0829) | 1.36e-161 | 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. |
|---|---|---|---|---|---|---|
| NDNKGANP_2 | 1951 | 2144 | Col(SD853) | 194 / 194 | 88.14 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| NDNKGANP_1 | 0.0 | 1.0 | 0.0 |
| NDNKGANP_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 |
|---|---|---|---|---|---|
| NDNKGANP_1 | 1186378 | 1208976 | False | Siphoviridae | VOG8909, VOG8909, VOG5447, VOG2703, VOG0796, VOG0720, VOG4564, VOG4555, VOG4553, VOG1125, VOG0815, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG2621, VOG0725, VOG4545, VOG4605, VOG4599, VOG5535 |
| NDNKGANP_1 | 1267805 | 1295659 | False | Myoviridae | VOG0101, VOG4602, VOG9667, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705 |
| NDNKGANP_1 | 1874424 | 1898759 | False | Siphoviridae | VOG4574, VOG4660, VOG9712, VOG5042, VOG3389, VOG4910, VOG9312, VOG4025, VOG0275, VOG7930, VOG8610, VOG5008, VOG3390, VOG7718, VOG5534 |
| NDNKGANP_1 | 1952488 | 1956904 | False | Unknown | VOG0322, VOG7627, VOG0025 |
| NDNKGANP_1 | 2358562 | 2387031 | False | Siphoviridae | VOG8440, VOG4707, VOG0136, VOG4705, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0704, VOG4589, VOG0204, VOG4553, VOG4573, VOG4556, VOG1886, VOG4581, VOG7894 |
| NDNKGANP_1 | 2402634 | 2406433 | False | Unknown | VOG0026, VOG0052 |
Phigaro v2.4.0 (Database: Jan. 2024 release)