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. |
|---|---|---|---|---|---|---|---|---|
| MMJNICGO_5 | 343739 | 344788 | 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. |
|---|---|---|---|---|---|---|---|
| MMJNICGO_5 | 343739 | 344774 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.71 | 98.67 | KR610408 |
| MMJNICGO_2 | 367078 | 368454 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 86.93 | 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. |
|---|---|---|---|---|---|---|---|---|
| MMJNICGO_5 | 343739 | 344785 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 99.71 | 100.00 | WP_012116915.1 |
| MMJNICGO_2 | 367078 | 368448 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 86.21 | 99.78 | WP_003242953.1 |
| MMJNICGO_2 | 366347 | 366865 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 80.35 | 100.00 | WP_003242546.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| MMJNICGO_3 | 480606 | 481787 | capB | 0.0 | Capsule | Immune modulation | 82.21 | 99.66 | NP_391471 |
| MMJNICGO_3 | 481802 | 482251 | capC | 2.18e-109 | Capsule | Immune modulation | 82.93 | 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 |
|---|---|---|---|---|---|---|---|---|
| MMJNICGO_8 | 31770 | 32906 | tufA | 0.0 | elongation factor Tu | 86.81 | 95.69 | AHM69299 |
| MMJNICGO_11 | 12505 | 11636 | pdxS | 1.36e-152 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| MMJNICGO_1 | 756976 | 757752 | CodY | 1.30e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| MMJNICGO_1 | 253333 | 253725 | spxA1 | 2.38e-69 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| MMJNICGO_5 | 329180 | 329377 | CspA | 6.69e-31 | cold shock protein | 89.39 | 100.00 | CAA62903 |
| MMJNICGO_6 | 191611 | 191417 | CspD | 2.10e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| MMJNICGO_4 | 289336 | 290208 | lipA (SAUSA300_0829) | 1.38e-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 |
|---|---|---|---|
| MMJNICGO_1 | 0.0 | 1.0 | 0.0 |
| MMJNICGO_2 | 0.0 | 1.0 | 0.0 |
| MMJNICGO_3 | 0.0 | 1.0 | 0.0 |
| MMJNICGO_4 | 0.0 | 1.0 | 0.0 |
| MMJNICGO_5 | 0.0 | 1.0 | 0.0 |
| MMJNICGO_6 | 0.0 | 1.0 | 0.0 |
| MMJNICGO_7 | 0.0 | 1.0 | 0.0 |
| MMJNICGO_8 | 0.0 | 1.0 | 0.0 |
| MMJNICGO_9 | 0.0 | 1.0 | 0.0 |
| MMJNICGO_10 | 0.0 | 1.0 | 0.0 |
| MMJNICGO_11 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| MMJNICGO_1 | 356168 | 382274 | 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 |
| MMJNICGO_7 | 17332 | 46908 | False | Siphoviridae | VOG0136, VOG5221, VOG4705, VOG0804, VOG4856, VOG4619, VOG3462, VOG0801, VOG6163, VOG5852, VOG4586, VOG0207, VOG4589, VOG0204, VOG4553, VOG4573, VOG4556, VOG4544, VOG4581, VOG4841, VOG10038, VOG4972, VOG3631, VOG5447, VOG0425, VOG5969, VOG1884, VOG0025, VOG9600, VOG11060, VOG3547, VOG4552 |
Phigaro v2.4.0 (Database: Jan. 2024 release)