Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 4 | 16.12 |
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. |
|---|---|---|---|---|---|---|---|---|
| LJIFEEHK_1 | 2506714 | 2507568 | aadK | ARO:3002627 | aadK | 97.54 | 100.00 | AL009126.1 |
| LJIFEEHK_1 | 2487524 | 2488726 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| LJIFEEHK_1 | 2260851 | 2262020 | bmr | ARO:3003007 | bmr | 99.23 | 100.00 | M33768.1 |
| LJIFEEHK_1 | 1257130 | 1257447 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| LJIFEEHK_1 | 1256792 | 1257130 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| LJIFEEHK_1 | 482683 | 484326 | vmlR | ARO:3004476 | vmlR | 98.90 | 100.00 | NC_000964.3 |
| LJIFEEHK_1 | 227371 | 227964 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| LJIFEEHK_1 | 176811 | 178244 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.00 | JYFL01000006.1 |
| LJIFEEHK_1 | 163996 | 164916 | mphK | ARO:3004541 | mphK | 99.02 | 100.00 | CP010314.1 |
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. |
|---|---|---|---|---|---|---|---|
| LJIFEEHK_1 | 3962755 | 3964131 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 98.77 | 100.00 | D12567 |
| LJIFEEHK_1 | 2506716 | 2507568 | aadK | Streptomycin | 98.12 | 99.77 | M26879 |
| LJIFEEHK_1 | 163996 | 164916 | mph(K) | Spiramycin, Telithromycin | 98.05 | 100.00 | NC_000964 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| LJIFEEHK_1 | 163996 | 164913 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.02 | 100.00 | WP_003246254.1 |
| LJIFEEHK_1 | 482686 | 484326 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.90 | 100.00 | WP_003234144.1 |
| LJIFEEHK_1 | 3962758 | 3964131 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.69 | 100.00 | WP_063856081.1 |
| LJIFEEHK_1 | 2506717 | 2507568 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.54 | 100.00 | WP_003229862.1 |
| LJIFEEHK_1 | 3960234 | 3960752 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 89.60 | 100.00 | WP_003242546.1 |
| LJIFEEHK_1 | 1957140 | 1959737 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.40 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| LJIFEEHK_1 | 2061695 | 2062336 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 100.00 | 100.00 | NP_390062 |
| LJIFEEHK_1 | 3481308 | 3482489 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| LJIFEEHK_1 | 3056105 | 3063241 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.62 | 100.00 | NP_391076 |
| LJIFEEHK_1 | 3479683 | 3480825 | capA | 0.0 | Capsule | Immune modulation | 99.39 | 100.00 | NP_391469 |
| LJIFEEHK_1 | 3067097 | 3067882 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| LJIFEEHK_1 | 3480844 | 3481293 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| LJIFEEHK_1 | 3063261 | 3064199 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391077 |
| LJIFEEHK_1 | 3065875 | 3067071 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.17 | 100.00 | NP_391079 |
| LJIFEEHK_1 | 1907060 | 1908823 | dep/capD | 0.0 | Capsule | Immune modulation | 99.15 | 100.00 | NP_389723 |
| LJIFEEHK_1 | 3064227 | 3065846 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.07 | 100.00 | NP_391078 |
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 |
|---|---|---|---|---|---|---|---|---|
| LJIFEEHK_1 | 31671 | 32807 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| LJIFEEHK_1 | 4012504 | 4013373 | pdxS | 3.04e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| LJIFEEHK_1 | 1566933 | 1567709 | CodY | 3.32e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| LJIFEEHK_1 | 3319956 | 3320525 | ClpP | 2.46e-98 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
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 |
|---|---|---|---|
| LJIFEEHK_1 | 0.0 | 1.0 | 0.0 |
| LJIFEEHK_2 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| LJIFEEHK_1 | 1199412 | 1227310 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG9315, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705 |
| LJIFEEHK_1 | 2439053 | 2468903 | False | Myoviridae | VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG9315, VOG0796, VOG4673, VOG4693, VOG0189, VOG11060, VOG1309 |
| LJIFEEHK_2 | 1135 | 28470 | False | Siphoviridae | VOG4545, VOG4605, VOG4599, VOG0647, VOG1024, VOG5242, VOG7235, VOG8236, VOG0054, VOG0125, VOG4566, VOG0189, VOG0025, VOG5222, VOG4551, VOG8598, VOG5640, VOG0026, VOG5543, VOG1093, VOG0152, VOG1030 |
Phigaro v2.4.0 (Database: Jan. 2024 release)