Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 5 | 16.40 |
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. |
|---|---|---|---|---|---|---|---|---|
| JAJFBLIM_2 | 2216969 | 2217889 | mphK | ARO:3004541 | mphK | 95.42 | 100.00 | CP010314.1 |
| JAJFBLIM_2 | 2203668 | 2205101 | lmrB | ARO:3002813 | lmrB | 100.00 | 100.00 | JYFL01000006.1 |
| JAJFBLIM_2 | 2154006 | 2154599 | tmrB | ARO:3003059 | tmrB | 96.95 | 100.00 | AL009126.3 |
| JAJFBLIM_2 | 1911616 | 1913244 | vmlR | ARO:3004476 | vmlR | 95.56 | 99.09 | NC_000964.3 |
| JAJFBLIM_2 | 1619437 | 1622007 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| JAJFBLIM_2 | 1160035 | 1160373 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| JAJFBLIM_2 | 1159718 | 1160035 | ykkD | ARO:3003064 | ykkD | 97.14 | 100.00 | AL009126.1 |
| JAJFBLIM_2 | 177470 | 178639 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| JAJFBLIM_1 | 29607 | 30461 | aadK | ARO:3002627 | aadK | 97.18 | 100.00 | AL009126.1 |
| JAJFBLIM_1 | 2055 | 3257 | blt | ARO:3003006 | blt | 98.50 | 100.00 | L32599.1 |
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. |
|---|---|---|---|---|---|---|---|
| JAJFBLIM_1 | 29607 | 30461 | aadK | Streptomycin | 98.13 | 100.00 | M26879 |
| JAJFBLIM_2 | 2216969 | 2217889 | mph(K) | Spiramycin, Telithromycin | 95.98 | 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. |
|---|---|---|---|---|---|---|---|---|
| JAJFBLIM_1 | 29610 | 30461 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.18 | 100.00 | WP_003229862.1 |
| JAJFBLIM_2 | 1911616 | 1913238 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 95.56 | 98.90 | WP_003234144.1 |
| JAJFBLIM_2 | 2216972 | 2217889 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 95.42 | 100.00 | WP_003246254.1 |
| JAJFBLIM_3 | 212236 | 212754 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 91.33 | 100.00 | WP_003242546.1 |
| JAJFBLIM_2 | 485155 | 487752 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.06 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| JAJFBLIM_3 | 701008 | 702189 | capB | 0.0 | Capsule | Immune modulation | 99.49 | 100.00 | NP_391471 |
| JAJFBLIM_3 | 702204 | 702653 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| JAJFBLIM_3 | 702672 | 703814 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| JAJFBLIM_3 | 1109897 | 1110682 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.98 | 100.00 | NP_391080 |
| JAJFBLIM_3 | 1113580 | 1114518 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.94 | 100.00 | NP_391077 |
| JAJFBLIM_2 | 382380 | 383021 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 98.75 | 100.00 | NP_390062 |
| JAJFBLIM_3 | 1110708 | 1111904 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.41 | 100.00 | NP_391079 |
| JAJFBLIM_3 | 1114538 | 1121674 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.35 | 100.00 | NP_391076 |
| JAJFBLIM_3 | 1111933 | 1113552 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.84 | 100.00 | NP_391078 |
| JAJFBLIM_2 | 531144 | 532907 | dep/capD | 0.0 | Capsule | Immune modulation | 97.79 | 100.00 | NP_389723 |
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 |
|---|---|---|---|---|---|---|---|---|
| JAJFBLIM_3 | 27923 | 26787 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| JAJFBLIM_3 | 135790 | 134921 | pdxS | 9.09e-150 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| JAJFBLIM_2 | 849585 | 848809 | CodY | 1.93e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| JAJFBLIM_3 | 844188 | 843619 | ClpP | 7.36e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| JAJFBLIM_2 | 1309809 | 1309417 | spxA1 | 1.52e-69 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| JAJFBLIM_2 | 1309809 | 1309417 | spx | 9.06e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
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 |
|---|---|---|---|
| JAJFBLIM_1 | 0.0 | 1.0 | 0.0 |
| JAJFBLIM_2 | 0.0 | 1.0 | 0.0 |
| JAJFBLIM_3 | 0.0 | 1.0 | 0.0 |
| JAJFBLIM_4 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| JAJFBLIM_2 | 1189856 | 1216335 | False | Myoviridae | VOG0753, VOG4705, VOG4612, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
| JAJFBLIM_2 | 2324685 | 2346840 | False | Myoviridae | VOG0753, VOG4705, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG1581, VOG0749, VOG4685 |
| JAJFBLIM_2 | 2363045 | 2367020 | False | Unknown | VOG1292, VOG1309, VOG0083 |
Phigaro v2.4.0 (Database: Jan. 2024 release)