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. |
|---|---|---|---|---|---|---|---|---|
| IEDJFLCG_11 | 6643 | 7692 | 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. |
|---|---|---|---|---|---|---|---|
| IEDJFLCG_11 | 6643 | 7678 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.61 | 98.67 | KR610408 |
| IEDJFLCG_18 | 196525 | 197901 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 86.86 | 100.00 | 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. |
|---|---|---|---|---|---|---|---|---|
| IEDJFLCG_11 | 6643 | 7689 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 99.43 | 100.00 | WP_012116915.1 |
| IEDJFLCG_18 | 196531 | 197901 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 86.87 | 99.78 | WP_003242953.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| IEDJFLCG_31 | 493413 | 494594 | capB | 0.0 | Capsule | Immune modulation | 82.46 | 99.66 | NP_391471 |
| IEDJFLCG_31 | 494609 | 495058 | capC | 6.83e-116 | Capsule | Immune modulation | 83.81 | 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 |
|---|---|---|---|---|---|---|---|---|
| IEDJFLCG_21 | 28221 | 27085 | tufA | 0.0 | elongation factor Tu | 86.81 | 95.69 | AHM69299 |
| IEDJFLCG_26 | 12519 | 11650 | pdxS | 1.36e-152 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| IEDJFLCG_16 | 123600 | 124376 | CodY | 2.59e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| IEDJFLCG_22 | 253646 | 254038 | spxA1 | 8.08e-70 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| IEDJFLCG_12 | 66741 | 66938 | CspA | 4.35e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| IEDJFLCG_32 | 35878 | 35684 | CspD | 1.21e-28 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| IEDJFLCG_32 | 35878 | 35681 | CspB | 2.51e-28 | cold shock protein | 80.30 | 100.00 | CAD00094 |
| IEDJFLCG_12 | 66741 | 66935 | CspR | 5.70e-27 | cold shock protein | 80.00 | 98.48 | AAO82613 |
| IEDJFLCG_15 | 126162 | 125290 | lipA (SAUSA300_0829) | 4.34e-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 |
|---|---|---|---|
| IEDJFLCG_4 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_5 | 1.0 | 0.0 | 1.0 |
| IEDJFLCG_7 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_8 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_9 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_10 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_11 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_12 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_13 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_14 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_15 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_16 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_18 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_19 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_20 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_21 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_22 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_23 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_24 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_25 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_26 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_28 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_29 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_31 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_32 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_33 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_34 | 0.0 | 1.0 | 0.0 |
| IEDJFLCG_35 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| IEDJFLCG_20 | 6841 | 32966 | False | Myoviridae | VOG9667, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705 |
| IEDJFLCG_22 | 297425 | 319459 | False | Siphoviridae | VOG2238, VOG4841, VOG4581, VOG4544, VOG5051, VOG4556, VOG4568, VOG4553, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG5852, VOG5910, VOG6163, VOG0801, VOG4619, VOG4660, VOG4612, VOG4705 |
Phigaro v2.4.0 (Database: Jan. 2024 release)