Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 14 | 10 | 4 | 17.66 |
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. |
|---|---|---|---|---|---|---|---|---|
| GDGJMGLJ_1 | 2673287 | 2674141 | aadK | ARO:3002627 | aadK | 98.94 | 100.00 | AL009126.1 |
| GDGJMGLJ_1 | 2654584 | 2655786 | blt | ARO:3003006 | blt | 99.50 | 100.00 | L32599.1 |
| GDGJMGLJ_1 | 2428157 | 2429326 | bmr | ARO:3003007 | bmr | 99.23 | 100.00 | M33768.1 |
| GDGJMGLJ_1 | 1456789 | 1457106 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| GDGJMGLJ_1 | 1456451 | 1456789 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| GDGJMGLJ_1 | 960551 | 963121 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| GDGJMGLJ_1 | 649710 | 651353 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.00 | NC_000964.3 |
| GDGJMGLJ_1 | 394393 | 394986 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| GDGJMGLJ_1 | 382788 | 383438 | Streptococcus suis chloramphenicol acetyltransferase | ARO:3004455 | Ssui_ACT_CHL | 94.91 | 100.00 | AB080798.1 |
| GDGJMGLJ_1 | 341486 | 342919 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.00 | JYFL01000006.1 |
| GDGJMGLJ_1 | 328669 | 329589 | 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. |
|---|---|---|---|---|---|---|---|
| GDGJMGLJ_1 | 382788 | 383438 | cat(pC194) | Chloramphenicol | 100.00 | 100.00 | NC_002013 |
| GDGJMGLJ_1 | 2673287 | 2674141 | aadK | Streptomycin | 99.30 | 100.00 | M26879 |
| GDGJMGLJ_1 | 4135254 | 4136630 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 98.77 | 100.00 | D12567 |
| GDGJMGLJ_1 | 328669 | 329589 | 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. |
|---|---|---|---|---|---|---|---|---|
| GDGJMGLJ_1 | 382788 | 383435 | catA | type A-9 chloramphenicol O-acetyltransferase | EXACTX | 100.00 | 100.00 | WP_001010387.1 |
| GDGJMGLJ_1 | 328669 | 329586 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.02 | 100.00 | WP_003246254.1 |
| GDGJMGLJ_1 | 2673290 | 2674141 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.94 | 100.00 | WP_003229862.1 |
| GDGJMGLJ_1 | 4135257 | 4136630 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.69 | 100.00 | WP_063856081.1 |
| GDGJMGLJ_1 | 649713 | 651353 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| GDGJMGLJ_1 | 4132733 | 4133251 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| GDGJMGLJ_1 | 2124439 | 2127036 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| GDGJMGLJ_1 | 2228997 | 2229638 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 100.00 | 100.00 | NP_390062 |
| GDGJMGLJ_1 | 3652305 | 3653486 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| GDGJMGLJ_1 | 3227092 | 3234228 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.54 | 100.00 | NP_391076 |
| GDGJMGLJ_1 | 3650680 | 3651822 | capA | 0.0 | Capsule | Immune modulation | 99.39 | 100.00 | NP_391469 |
| GDGJMGLJ_1 | 3238084 | 3238869 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| GDGJMGLJ_1 | 3651841 | 3652290 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| GDGJMGLJ_1 | 3234248 | 3235186 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391077 |
| GDGJMGLJ_1 | 3236862 | 3238058 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.17 | 100.00 | NP_391079 |
| GDGJMGLJ_1 | 2074358 | 2076121 | dep/capD | 0.0 | Capsule | Immune modulation | 99.15 | 100.00 | NP_389723 |
| GDGJMGLJ_1 | 3235214 | 3236833 | 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 |
|---|---|---|---|---|---|---|---|---|
| GDGJMGLJ_1 | 132400 | 133536 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| GDGJMGLJ_1 | 18665 | 19534 | pdxS | 3.09e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| GDGJMGLJ_1 | 1766597 | 1767373 | CodY | 3.38e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| GDGJMGLJ_1 | 3490945 | 3491514 | ClpP | 2.51e-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 |
|---|---|---|---|
| GDGJMGLJ_1 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| GDGJMGLJ_1 | 169147 | 176997 | False | Unknown | VOG3549, VOG1878, VOG0083, VOG1309, VOG1292, VOG11060, VOG9600 |
| GDGJMGLJ_1 | 180185 | 214149 | False | Myoviridae | VOG10058, VOG0198, VOG6242, VOG4618, VOG4567, VOG1328, VOG5361, VOG9315, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG5668, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG10120, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705, VOG0753 |
| GDGJMGLJ_1 | 1399394 | 1426967 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705 |
| GDGJMGLJ_1 | 2606116 | 2635965 | 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 |
Phigaro v2.4.0 (Database: Jan. 2024 release)