Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 9 | 18.71 |
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. |
|---|---|---|---|---|---|---|---|---|
| FGNAGLGP_56 | 520658 | 521827 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| FGNAGLGP_57 | 410049 | 411695 | vmlR | ARO:3004476 | vmlR | 99.45 | 100.18 | NC_000964.3 |
| FGNAGLGP_34 | 258746 | 261316 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| FGNAGLGP_2 | 178990 | 179328 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| FGNAGLGP_2 | 178673 | 178990 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| FGNAGLGP_57 | 153497 | 154090 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| FGNAGLGP_57 | 102943 | 104382 | lmrB | ARO:3002813 | lmrB | 98.95 | 100.42 | JYFL01000006.1 |
| FGNAGLGP_57 | 90133 | 91053 | mphK | ARO:3004541 | mphK | 99.01 | 100.00 | CP010314.1 |
| FGNAGLGP_59 | 32253 | 33107 | aadK | ARO:3002627 | aadK | 97.54 | 100.00 | AL009126.1 |
| FGNAGLGP_59 | 15621 | 16823 | blt | ARO:3003006 | blt | 99.25 | 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. |
|---|---|---|---|---|---|---|---|
| FGNAGLGP_57 | 90133 | 91053 | mph(K) | Spiramycin, Telithromycin | 99.02 | 100.00 | NC_000964 |
| FGNAGLGP_12 | 521290 | 522666 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 98.98 | 100.00 | D12567 |
| FGNAGLGP_59 | 32253 | 33107 | aadK | Streptomycin | 98.25 | 100.00 | 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. |
|---|---|---|---|---|---|---|---|---|
| FGNAGLGP_57 | 410052 | 411695 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 99.45 | 100.00 | WP_003234144.1 |
| FGNAGLGP_12 | 521293 | 522666 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 99.13 | 100.00 | WP_063856081.1 |
| FGNAGLGP_57 | 90133 | 91041 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.01 | 99.02 | WP_003246254.1 |
| FGNAGLGP_59 | 32256 | 33107 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.54 | 100.00 | WP_003229862.1 |
| FGNAGLGP_12 | 518804 | 519322 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 93.06 | 100.00 | WP_003242546.1 |
| FGNAGLGP_56 | 58665 | 61262 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.65 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| FGNAGLGP_12 | 32428 | 33609 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| FGNAGLGP_23 | 386432 | 387217 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| FGNAGLGP_56 | 323345 | 323986 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.69 | 100.00 | NP_390062 |
| FGNAGLGP_56 | 8220 | 9983 | dep/capD | 0.0 | Capsule | Immune modulation | 99.26 | 100.00 | NP_389723 |
| FGNAGLGP_23 | 390115 | 391053 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391077 |
| FGNAGLGP_12 | 30803 | 31945 | capA | 0.0 | Capsule | Immune modulation | 99.12 | 100.00 | NP_391469 |
| FGNAGLGP_12 | 31964 | 32413 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| FGNAGLGP_23 | 391073 | 398209 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.66 | 100.00 | NP_391076 |
| FGNAGLGP_23 | 387243 | 388439 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.50 | 100.00 | NP_391079 |
| FGNAGLGP_23 | 388468 | 390087 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.10 | 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 |
|---|---|---|---|---|---|---|---|---|
| FGNAGLGP_20 | 351 | 1364 | Xoo3654 | 0.0 | negative regulator of Xoo virulence | 98.22 | 84.92 | AAW76908 |
| FGNAGLGP_7 | 31902 | 33038 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| FGNAGLGP_1 | 4373 | 5242 | pdxS | 1.11e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| FGNAGLGP_58 | 132668 | 133444 | CodY | 3.45e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| FGNAGLGP_23 | 124119 | 123550 | ClpP | 3.01e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| FGNAGLGP_2 | 327263 | 326871 | spxA1 | 3.91e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| FGNAGLGP_2 | 327263 | 326871 | spx | 2.33e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| FGNAGLGP_3 | 20923 | 21165 | SpoVG | 7.55e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| FGNAGLGP_57 | 360609 | 360806 | CspA | 1.90e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| FGNAGLGP_56 | 335216 | 335410 | CspD | 1.74e-27 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| FGNAGLGP_56 | 335216 | 335413 | CspB | 3.61e-27 | cold shock protein | 80.30 | 100.00 | CAD00094 |
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 |
|---|---|---|---|
| FGNAGLGP_1 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_2 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_3 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_5 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_7 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_8 | 1.0 | 0.0 | 1.0 |
| FGNAGLGP_11 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_12 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_16 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_17 | 1.0 | 0.0 | 1.0 |
| FGNAGLGP_20 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_21 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_22 | 1.0 | 0.0 | 1.0 |
| FGNAGLGP_23 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_24 | 1.0 | 0.0 | 1.0 |
| FGNAGLGP_29 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_32 | 1.0 | 0.0 | 1.0 |
| FGNAGLGP_33 | 1.0 | 0.0 | 1.0 |
| FGNAGLGP_34 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_40 | 1.0 | 0.0 | 1.0 |
| FGNAGLGP_41 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_55 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_56 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_57 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_58 | 0.0 | 1.0 | 0.0 |
| FGNAGLGP_59 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| FGNAGLGP_2 | 208567 | 233866 | False | Myoviridae | VOG0136, VOG0753, VOG7895, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
| FGNAGLGP_5 | 22816 | 50154 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG10227, VOG0796, VOG4673 |
| FGNAGLGP_56 | 77986 | 99321 | False | Siphoviridae | VOG0136, VOG5221, VOG4705, VOG3390, VOG4612, VOG4626, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0704, VOG4589, VOG0204, VOG4553, VOG4568, VOG4556, VOG4544, VOG4581, VOG9029 |
| FGNAGLGP_56 | 257166 | 267471 | False | Myoviridae / Siphoviridae | VOG0937, VOG7567, VOG4570, VOG5722, VOG5779, VOG5721, VOG10940 |
| FGNAGLGP_56 | 277324 | 292129 | False | Siphoviridae | VOG9312, VOG9312, VOG4910, VOG3389, VOG5042, VOG9712, VOG4626, VOG3390 |
Phigaro v2.4.0 (Database: Jan. 2024 release)