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. |
|---|---|---|---|---|---|---|---|---|
| KNCNEMLF_12 | 354449 | 355498 | 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. |
|---|---|---|---|---|---|---|---|
| KNCNEMLF_12 | 354449 | 355484 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.80 | 98.67 | KR610408 |
| KNCNEMLF_10 | 377547 | 378923 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 86.78 | 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. |
|---|---|---|---|---|---|---|---|---|
| KNCNEMLF_12 | 354449 | 355495 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 99.43 | 100.00 | WP_012116915.1 |
| KNCNEMLF_10 | 377547 | 378917 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 86.65 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| KNCNEMLF_1 | 542590 | 543771 | capB | 0.0 | Capsule | Immune modulation | 81.87 | 99.66 | NP_391471 |
| KNCNEMLF_1 | 542126 | 542575 | capC | 3.84e-114 | 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 |
|---|---|---|---|---|---|---|---|---|
| KNCNEMLF_15 | 31767 | 32903 | tufA | 0.0 | elongation factor Tu | 86.81 | 95.69 | AHM69299 |
| KNCNEMLF_3 | 12498 | 11629 | pdxS | 1.36e-152 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| KNCNEMLF_11 | 463052 | 463828 | CodY | 1.04e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| KNCNEMLF_13 | 43036 | 42644 | spxA1 | 6.50e-70 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| KNCNEMLF_12 | 340869 | 341066 | CspA | 2.39e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| KNCNEMLF_13 | 257792 | 257986 | CspB | 6.19e-27 | cold shock protein | 84.61 | 98.48 | CAD00094 |
| KNCNEMLF_12 | 340869 | 341063 | CspR | 3.12e-26 | cold shock protein | 80.00 | 98.48 | AAO82613 |
| KNCNEMLF_1 | 139197 | 138325 | lipA (SAUSA300_0829) | 3.33e-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. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| KNCNEMLF_1 | 0.0 | 1.0 | 0.0 |
| KNCNEMLF_2 | 0.0 | 1.0 | 0.0 |
| KNCNEMLF_3 | 0.0 | 1.0 | 0.0 |
| KNCNEMLF_4 | 1.0 | 0.0 | 1.0 |
| KNCNEMLF_10 | 0.0 | 1.0 | 0.0 |
| KNCNEMLF_11 | 0.0 | 1.0 | 0.0 |
| KNCNEMLF_12 | 0.0 | 1.0 | 0.0 |
| KNCNEMLF_13 | 0.0 | 1.0 | 0.0 |
| KNCNEMLF_14 | 0.0 | 1.0 | 0.0 |
| KNCNEMLF_15 | 0.0 | 1.0 | 0.0 |
| KNCNEMLF_16 | 0.0 | 1.0 | 0.0 |
| KNCNEMLF_17 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| KNCNEMLF_2 | 3328 | 25768 | False | Siphoviridae | VOG4972, VOG0641, VOG4705, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG4553, VOG4568, VOG4556, VOG4544, VOG4581, VOG9029 |
| KNCNEMLF_10 | 813491 | 827285 | False | Siphoviridae | VOG8610, VOG4705, VOG3390, VOG7718, VOG5534, VOG6940, VOG9713, VOG9219, VOG6472, VOG6036, VOG6941, VOG6246, VOG6524, VOG6031, VOG5721 |
| KNCNEMLF_11 | 55164 | 81796 | False | Myoviridae | VOG9667, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG5660, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG4612, VOG3390, VOG4705, VOG0753 |
Phigaro v2.4.0 (Database: Jan. 2024 release)