Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 7 | 17.12 |
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. |
|---|---|---|---|---|---|---|---|---|
| GLNFELJB_11 | 1772676 | 1773530 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| GLNFELJB_11 | 1753932 | 1755134 | blt | ARO:3003006 | blt | 100.00 | 100.00 | L32599.1 |
| GLNFELJB_11 | 1583857 | 1585026 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| GLNFELJB_28 | 436271 | 437914 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.00 | NC_000964.3 |
| GLNFELJB_11 | 435154 | 435471 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| GLNFELJB_11 | 434816 | 435154 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| GLNFELJB_29 | 250679 | 253249 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 100.00 | 100.00 | AL009126.3 |
| GLNFELJB_28 | 100415 | 101854 | lmrB | ARO:3002813 | lmrB | 99.79 | 100.42 | JYFL01000006.1 |
| GLNFELJB_28 | 87608 | 88528 | mphK | ARO:3004541 | mphK | 98.37 | 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. |
|---|---|---|---|---|---|---|---|
| GLNFELJB_21 | 44267 | 45643 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 99.20 | 100.00 | D12567 |
| GLNFELJB_28 | 87608 | 88528 | mph(K) | Spiramycin, Telithromycin | 99.13 | 100.00 | NC_000964 |
| GLNFELJB_11 | 1772678 | 1773530 | aadK | Streptomycin | 98.59 | 99.77 | M26879 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| GLNFELJB_21 | 44267 | 45640 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 99.13 | 100.00 | WP_063856081.1 |
| GLNFELJB_28 | 436274 | 437914 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| GLNFELJB_28 | 87608 | 88525 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.37 | 100.00 | WP_003246254.1 |
| GLNFELJB_11 | 1772679 | 1773530 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| GLNFELJB_21 | 47620 | 48138 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 93.64 | 100.00 | WP_003242546.1 |
| GLNFELJB_11 | 1154736 | 1157333 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.48 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| GLNFELJB_11 | 1384535 | 1385176 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.84 | 100.00 | NP_390062 |
| GLNFELJB_21 | 961342 | 962280 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| GLNFELJB_21 | 533978 | 535159 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| GLNFELJB_21 | 962300 | 969436 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.50 | 100.00 | NP_391076 |
| GLNFELJB_21 | 958470 | 959666 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.42 | 100.00 | NP_391079 |
| GLNFELJB_21 | 535642 | 536784 | capA | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_391469 |
| GLNFELJB_11 | 1102882 | 1104645 | dep/capD | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_389723 |
| GLNFELJB_21 | 535174 | 535623 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| GLNFELJB_21 | 957659 | 958444 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.11 | 100.00 | NP_391080 |
| GLNFELJB_21 | 959695 | 961314 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.52 | 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 |
|---|---|---|---|---|---|---|---|---|
| GLNFELJB_30 | 31765 | 32901 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| GLNFELJB_32 | 4376 | 5245 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| GLNFELJB_11 | 745152 | 745928 | CodY | 1.79e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| GLNFELJB_21 | 693696 | 693127 | ClpP | 6.44e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| GLNFELJB_11 | 279535 | 279927 | spxA1 | 1.41e-69 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| GLNFELJB_11 | 279535 | 279927 | spx | 8.41e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| GLNFELJB_31 | 34705 | 34463 | SpoVG | 7.52e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| GLNFELJB_28 | 361952 | 362149 | CspA | 2.02e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
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 |
|---|---|---|---|
| GLNFELJB_11 | 0.0 | 1.0 | 0.0 |
| GLNFELJB_21 | 0.0 | 1.0 | 0.0 |
| GLNFELJB_28 | 0.0 | 1.0 | 0.0 |
| GLNFELJB_29 | 0.0 | 1.0 | 0.0 |
| GLNFELJB_30 | 0.0 | 1.0 | 0.0 |
| GLNFELJB_31 | 0.0 | 1.0 | 0.0 |
| GLNFELJB_32 | 0.0 | 1.0 | 0.0 |
| GLNFELJB_33 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| GLNFELJB_11 | 377730 | 405326 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
| GLNFELJB_11 | 937168 | 938786 | False | Unknown | VOG9667, VOG6495 |
| GLNFELJB_11 | 948574 | 971784 | False | Siphoviridae | VOG4841, VOG4581, VOG1886, VOG0202, VOG4556, VOG4573, VOG4553, VOG5361, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG5910, VOG6163, VOG0801, VOG4619, VOG4626, VOG3390, VOG4705, VOG4612, VOG3390, VOG4705, VOG5221 |
| GLNFELJB_11 | 1336329 | 1355637 | False | Unknown | VOG0275, VOG9667, VOG9312, VOG4910, VOG3389, VOG5042, VOG9712, VOG5070, VOG8440 |
Phigaro v2.4.0 (Database: Jan. 2024 release)