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. |
|---|---|---|---|---|---|---|---|---|
| MAIICDAP_22 | 649185 | 650354 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| MAIICDAP_22 | 447000 | 448202 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
| MAIICDAP_22 | 430199 | 431053 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| MAIICDAP_33 | 427378 | 427695 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| MAIICDAP_33 | 427040 | 427378 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| MAIICDAP_44 | 405774 | 407420 | vmlR | ARO:3004476 | vmlR | 99.27 | 100.18 | NC_000964.3 |
| MAIICDAP_44 | 171061 | 171654 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| MAIICDAP_44 | 104429 | 105868 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.42 | JYFL01000006.1 |
| MAIICDAP_44 | 91616 | 92536 | mphK | ARO:3004541 | mphK | 99.35 | 100.00 | CP010314.1 |
| MAIICDAP_55 | 27478 | 30048 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.65 | 100.00 | AL009126.3 |
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. |
|---|---|---|---|---|---|---|---|
| MAIICDAP_44 | 91616 | 92536 | mph(K) | Spiramycin, Telithromycin | 99.46 | 100.00 | NC_000964 |
| MAIICDAP_22 | 430199 | 431053 | aadK | Streptomycin | 98.71 | 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. |
|---|---|---|---|---|---|---|---|---|
| MAIICDAP_44 | 91616 | 92533 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.35 | 100.00 | WP_003246254.1 |
| MAIICDAP_44 | 405777 | 407420 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 99.27 | 100.00 | WP_003234144.1 |
| MAIICDAP_22 | 430199 | 431050 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| MAIICDAP_11 | 38227 | 38745 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 94.22 | 100.00 | WP_003242546.1 |
| MAIICDAP_22 | 989933 | 992530 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| MAIICDAP_11 | 527910 | 529091 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| MAIICDAP_11 | 949857 | 950642 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| MAIICDAP_22 | 850157 | 850798 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.69 | 100.00 | NP_390062 |
| MAIICDAP_11 | 950668 | 951864 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.33 | 100.00 | NP_391079 |
| MAIICDAP_22 | 1045167 | 1046930 | dep/capD | 0.0 | Capsule | Immune modulation | 99.26 | 100.00 | NP_389723 |
| MAIICDAP_11 | 953540 | 954478 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.15 | 100.00 | NP_391077 |
| MAIICDAP_11 | 529574 | 530716 | capA | 0.0 | Capsule | Immune modulation | 98.86 | 100.00 | NP_391469 |
| MAIICDAP_11 | 529106 | 529555 | capC | 0.0 | Capsule | Immune modulation | 98.67 | 100.00 | NP_391470 |
| MAIICDAP_11 | 954498 | 961634 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.42 | 100.00 | NP_391076 |
| MAIICDAP_11 | 951893 | 953512 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.35 | 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 |
|---|---|---|---|---|---|---|---|---|
| MAIICDAP_64 | 31799 | 32935 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| MAIICDAP_66 | 11338 | 10469 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| MAIICDAP_33 | 738794 | 739570 | CodY | 8.30e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| MAIICDAP_11 | 687242 | 686673 | ClpP | 6.40e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| MAIICDAP_33 | 277613 | 278005 | spxA1 | 6.53e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| MAIICDAP_33 | 277613 | 278005 | spx | 3.89e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| MAIICDAP_65 | 20640 | 20882 | SpoVG | 7.53e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| MAIICDAP_44 | 358577 | 358774 | CspA | 1.89e-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 |
|---|---|---|---|
| MAIICDAP_1 | 0.0 | 1.0 | 0.0 |
| MAIICDAP_2 | 0.0 | 1.0 | 0.0 |
| MAIICDAP_4 | 0.0 | 1.0 | 0.0 |
| MAIICDAP_6 | 0.0 | 1.0 | 0.0 |
| MAIICDAP_11 | 0.0 | 1.0 | 0.0 |
| MAIICDAP_22 | 0.0 | 1.0 | 0.0 |
| MAIICDAP_33 | 0.0 | 1.0 | 0.0 |
| MAIICDAP_44 | 0.0 | 1.0 | 0.0 |
| MAIICDAP_55 | 0.0 | 1.0 | 0.0 |
| MAIICDAP_64 | 0.0 | 1.0 | 0.0 |
| MAIICDAP_65 | 0.0 | 1.0 | 0.0 |
| MAIICDAP_66 | 0.0 | 1.0 | 0.0 |
| MAIICDAP_67 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| MAIICDAP_33 | 371177 | 397489 | 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 |
Phigaro v2.4.0 (Database: Jan. 2024 release)