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. |
|---|---|---|---|---|---|---|---|---|
| MLHCIMPN_17 | 172895 | 173944 | 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. |
|---|---|---|---|---|---|---|---|
| MLHCIMPN_17 | 172895 | 173930 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.61 | 98.67 | KR610408 |
| MLHCIMPN_19 | 373481 | 374857 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 86.87 | 99.93 | 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. |
|---|---|---|---|---|---|---|---|---|
| MLHCIMPN_17 | 172895 | 173941 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 99.43 | 100.00 | WP_012116915.1 |
| MLHCIMPN_19 | 373481 | 374851 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 87.31 | 99.78 | WP_003242953.1 |
| MLHCIMPN_19 | 372750 | 373268 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| MLHCIMPN_21 | 495722 | 496903 | capB | 0.0 | Capsule | Immune modulation | 82.21 | 99.66 | NP_391471 |
| MLHCIMPN_21 | 496918 | 497367 | capC | 3.75e-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 |
|---|---|---|---|---|---|---|---|---|
| MLHCIMPN_9 | 34817 | 35953 | tufA | 0.0 | elongation factor Tu | 86.81 | 95.69 | AHM69299 |
| MLHCIMPN_3 | 7450 | 8319 | pdxS | 1.63e-152 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| MLHCIMPN_20 | 756626 | 757402 | CodY | 1.29e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| MLHCIMPN_20 | 254930 | 255322 | spxA1 | 2.37e-69 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| MLHCIMPN_17 | 153076 | 153273 | CspA | 1.31e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| MLHCIMPN_18 | 192019 | 191825 | CspD | 2.07e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| MLHCIMPN_17 | 153076 | 153270 | CspR | 1.72e-26 | cold shock protein | 80.00 | 98.48 | AAO82613 |
| MLHCIMPN_21 | 873862 | 874734 | lipA (SAUSA300_0829) | 3.25e-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 |
|---|---|---|---|
| MLHCIMPN_1 | 0.0 | 1.0 | 0.0 |
| MLHCIMPN_3 | 0.0 | 1.0 | 0.0 |
| MLHCIMPN_5 | 0.0 | 1.0 | 0.0 |
| MLHCIMPN_6 | 0.0 | 1.0 | 0.0 |
| MLHCIMPN_8 | 0.0 | 1.0 | 0.0 |
| MLHCIMPN_9 | 0.0 | 1.0 | 0.0 |
| MLHCIMPN_10 | 0.0 | 1.0 | 0.0 |
| MLHCIMPN_11 | 0.0 | 1.0 | 0.0 |
| MLHCIMPN_12 | 0.0 | 1.0 | 0.0 |
| MLHCIMPN_13 | 0.0 | 1.0 | 0.0 |
| MLHCIMPN_14 | 0.0 | 1.0 | 0.0 |
| MLHCIMPN_16 | 0.0 | 1.0 | 0.0 |
| MLHCIMPN_17 | 0.0 | 1.0 | 0.0 |
| MLHCIMPN_18 | 0.0 | 1.0 | 0.0 |
| MLHCIMPN_19 | 0.0 | 1.0 | 0.0 |
| MLHCIMPN_20 | 0.0 | 1.0 | 0.0 |
| MLHCIMPN_21 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| MLHCIMPN_20 | 355063 | 381383 | False | Myoviridae | VOG9667, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG7895 |
Phigaro v2.4.0 (Database: Jan. 2024 release)