Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 12 | 8 | 19.42 |
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. |
|---|---|---|---|---|---|---|---|---|
| EDEIJIOG_111 | 1666604 | 1666942 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| EDEIJIOG_111 | 1666287 | 1666604 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| EDEIJIOG_111 | 679122 | 680291 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| EDEIJIOG_111 | 457721 | 458923 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| EDEIJIOG_111 | 439380 | 440234 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| EDEIJIOG_332 | 344612 | 345532 | mphK | ARO:3004541 | mphK | 99.02 | 100.00 | CP010314.1 |
| EDEIJIOG_332 | 331275 | 332714 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.42 | JYFL01000006.1 |
| EDEIJIOG_332 | 281559 | 282152 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| EDEIJIOG_371 | 249802 | 252372 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| EDEIJIOG_332 | 29140 | 30783 | vmlR | ARO:3004476 | vmlR | 98.90 | 100.00 | NC_000964.3 |
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. |
|---|---|---|---|---|---|---|---|
| EDEIJIOG_221 | 34652 | 36028 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 99.42 | 100.00 | D12567 |
| EDEIJIOG_111 | 439380 | 440232 | aadK | Streptomycin | 99.30 | 99.77 | M26879 |
| EDEIJIOG_332 | 344612 | 345532 | 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. |
|---|---|---|---|---|---|---|---|---|
| EDEIJIOG_221 | 34652 | 36025 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 99.13 | 100.00 | WP_063856081.1 |
| EDEIJIOG_332 | 344615 | 345532 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.02 | 100.00 | WP_003246254.1 |
| EDEIJIOG_332 | 29140 | 30780 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.90 | 100.00 | WP_003234144.1 |
| EDEIJIOG_111 | 439380 | 440231 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| EDEIJIOG_221 | 38031 | 38549 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| EDEIJIOG_111 | 985090 | 987687 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.17 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| EDEIJIOG_221 | 957198 | 957983 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| EDEIJIOG_221 | 960881 | 961819 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| EDEIJIOG_221 | 961839 | 968973 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.61 | 99.97 | NP_391076 |
| EDEIJIOG_254 | 400 | 800 | tssE | 0.0 | T6SS | Effector delivery system | 99.50 | 82.51 | WP_006477092 |
| EDEIJIOG_221 | 542545 | 543725 | capB | 0.0 | Capsule | Immune modulation | 99.49 | 99.92 | NP_391471 |
| EDEIJIOG_221 | 544208 | 545350 | capA | 0.0 | Capsule | Immune modulation | 99.39 | 100.00 | NP_391469 |
| EDEIJIOG_111 | 879046 | 879687 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.38 | 100.00 | NP_390062 |
| EDEIJIOG_221 | 543740 | 544189 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| EDEIJIOG_221 | 958009 | 959205 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391079 |
| EDEIJIOG_111 | 1035917 | 1037680 | dep/capD | 0.0 | Capsule | Immune modulation | 98.87 | 100.00 | NP_389723 |
| EDEIJIOG_221 | 959234 | 960853 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.33 | 100.00 | NP_391078 |
| EDEIJIOG_243 | 1 | 716 | pmlR/bspR1 | 0.0 | Quorum-sensing | Biofilm | 97.21 | 99.44 | WP_011547409 |
| EDEIJIOG_383 | 29 | 639 | flgJ | 0.0 | Flagella | Motility | 94.25 | 62.44 | WP_011546411 |
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 |
|---|---|---|---|---|---|---|---|---|
| EDEIJIOG_382 | 28141 | 27005 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| EDEIJIOG_243 | 716 | 3 | cepR | 1.23e-180 | N-acylhomoserine lactone dependent regulatory protein | 99.58 | 99.58 | CAR55726 |
| EDEIJIOG_415 | 4391 | 5260 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| EDEIJIOG_111 | 1356429 | 1355653 | CodY | 1.70e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| EDEIJIOG_221 | 705898 | 705329 | ClpP | 6.44e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| EDEIJIOG_111 | 1816727 | 1816335 | spxA1 | 1.33e-69 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| EDEIJIOG_111 | 1816727 | 1816335 | spx | 7.96e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| EDEIJIOG_393 | 34760 | 34518 | SpoVG | 7.52e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| EDEIJIOG_332 | 79154 | 78957 | CspA | 1.88e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| EDEIJIOG_75 | 2 | 475 | PidR | 1.18e-112 | response regulator/ two-component regulatory | 98.73 | 68.70 | bglu_1g00500 |
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 |
|---|---|---|---|
| EDEIJIOG_11 | 0.0 | 1.0 | 0.0 |
| EDEIJIOG_33 | 1.0 | 0.0 | 1.0 |
| EDEIJIOG_55 | 0.0 | 1.0 | 0.0 |
| EDEIJIOG_66 | 1.0 | 0.0 | 1.0 |
| EDEIJIOG_77 | 0.0 | 1.0 | 0.0 |
| EDEIJIOG_88 | 0.0 | 1.0 | 0.0 |
| EDEIJIOG_99 | 0.0 | 1.0 | 0.0 |
| EDEIJIOG_111 | 0.0 | 1.0 | 0.0 |
| EDEIJIOG_221 | 0.0 | 1.0 | 0.0 |
| EDEIJIOG_332 | 0.0 | 1.0 | 0.0 |
| EDEIJIOG_371 | 0.0 | 1.0 | 0.0 |
| EDEIJIOG_382 | 0.0 | 1.0 | 0.0 |
| EDEIJIOG_393 | 0.0 | 1.0 | 0.0 |
| EDEIJIOG_404 | 0.0 | 1.0 | 0.0 |
| EDEIJIOG_415 | 0.0 | 1.0 | 0.0 |
| EDEIJIOG_426 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| EDEIJIOG_111 | 478586 | 508622 | False | Myoviridae | VOG4600, VOG1309, VOG11060, VOG0189, VOG4693, VOG9587, VOG4673, VOG0796, VOG10227, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4691, VOG4862 |
| EDEIJIOG_111 | 1696743 | 1722873 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
| EDEIJIOG_404 | 6159 | 8813 | False | Unknown | VOG4600, VOG1309 |
| EDEIJIOG_404 | 12412 | 33854 | False | Siphoviridae | VOG0397, VOG0044, VOG0198, VOG7983, VOG0796, VOG10227, VOG0691, VOG0692, VOG9317, VOG4572, VOG2621, VOG0695, VOG0696, VOG0697, VOG6548, VOG10044, VOG0701, VOG9745, VOG4605, VOG4599, VOG5535, VOG10940, VOG0753 |
Phigaro v2.4.0 (Database: Jan. 2024 release)