Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 3 | 2 | 7 | 7.87 |
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. |
|---|---|---|---|---|---|---|---|---|
| NBDJKPNC_55 | 57058 | 58107 | 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. |
|---|---|---|---|---|---|---|---|
| NBDJKPNC_55 | 57072 | 58107 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.71 | 98.67 | KR610408 |
| NBDJKPNC_33 | 374316 | 375692 | 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. |
|---|---|---|---|---|---|---|---|---|
| NBDJKPNC_55 | 57061 | 58107 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 99.43 | 100.00 | WP_012116915.1 |
| NBDJKPNC_33 | 374316 | 375686 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 86.21 | 99.78 | WP_003242953.1 |
| NBDJKPNC_44 | 314571 | 317165 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.00 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| NBDJKPNC_11 | 412998 | 414179 | capB | 0.0 | Capsule | Immune modulation | 81.96 | 99.66 | NP_391471 |
| NBDJKPNC_11 | 414194 | 414643 | capC | 2.82e-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 |
|---|---|---|---|---|---|---|---|---|
| NBDJKPNC_3 | 31770 | 32906 | tufA | 0.0 | elongation factor Tu | 86.81 | 95.69 | AHM69299 |
| NBDJKPNC_10 | 12499 | 11630 | pdxS | 1.36e-152 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| NBDJKPNC_44 | 115306 | 116082 | CodY | 5.38e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| NBDJKPNC_22 | 435872 | 435480 | spxA1 | 1.30e-69 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| NBDJKPNC_55 | 74131 | 73934 | CspA | 2.19e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| NBDJKPNC_65 | 142355 | 142549 | CspD | 8.59e-28 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| NBDJKPNC_65 | 142355 | 142552 | CspB | 1.78e-27 | cold shock protein | 80.30 | 100.00 | CAD00094 |
| NBDJKPNC_55 | 74131 | 73937 | CspR | 2.87e-26 | cold shock protein | 80.00 | 98.48 | AAO82613 |
| NBDJKPNC_6 | 9295 | 10167 | lipA (SAUSA300_0829) | 1.14e-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 |
|---|---|---|---|
| NBDJKPNC_1 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_2 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_3 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_4 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_5 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_6 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_7 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_8 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_9 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_10 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_11 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_12 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_13 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_14 | 1.0 | 0.0 | 1.0 |
| NBDJKPNC_15 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_17 | 1.0 | 0.0 | 1.0 |
| NBDJKPNC_21 | 1.0 | 0.0 | 1.0 |
| NBDJKPNC_22 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_23 | 1.0 | 0.0 | 1.0 |
| NBDJKPNC_24 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_25 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_26 | 1.0 | 0.0 | 1.0 |
| NBDJKPNC_27 | 1.0 | 0.0 | 1.0 |
| NBDJKPNC_28 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_29 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_30 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_32 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_33 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_34 | 1.0 | 0.0 | 1.0 |
| NBDJKPNC_35 | 1.0 | 0.0 | 1.0 |
| NBDJKPNC_38 | 1.0 | 0.0 | 1.0 |
| NBDJKPNC_40 | 1.0 | 0.0 | 1.0 |
| NBDJKPNC_44 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_55 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_65 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_75 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_77 | 0.0 | 1.0 | 0.0 |
| NBDJKPNC_78 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| NBDJKPNC_22 | 253995 | 280099 | 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 |
| NBDJKPNC_22 | 331749 | 362928 | False | Siphoviridae | VOG5353, VOG6116, VOG8622, VOG0602, VOG4574, VOG5221, VOG4705, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG4545, VOG11074, VOG0724, VOG3676, VOG4555, VOG0692, VOG2613, VOG3699, VOG5023, VOG0275, VOG4600, VOG1183, VOG0274, VOG2215, VOG0101, VOG0048 |
| NBDJKPNC_22 | 384154 | 387193 | False | Siphoviridae | VOG7784, VOG5385, VOG10937, VOG5753 |
Phigaro v2.4.0 (Database: Jan. 2024 release)