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. |
|---|---|---|---|---|---|---|---|---|
| MNMMHPDN_1 | 721872 | 722726 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| MNMMHPDN_1 | 703118 | 704320 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
| MNMMHPDN_23 | 596420 | 596758 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| MNMMHPDN_23 | 596103 | 596420 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| MNMMHPDN_1 | 481869 | 483038 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| MNMMHPDN_30 | 256157 | 258727 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.53 | 100.00 | AL009126.3 |
| MNMMHPDN_32 | 108004 | 108924 | mphK | ARO:3004541 | mphK | 97.71 | 100.00 | CP010314.1 |
| MNMMHPDN_32 | 94672 | 96111 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.42 | JYFL01000006.1 |
| MNMMHPDN_32 | 44997 | 45590 | tmrB | ARO:3003059 | tmrB | 97.46 | 100.00 | AL009126.3 |
| MNMMHPDN_31 | 28972 | 30615 | vmlR | ARO:3004476 | vmlR | 98.35 | 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. |
|---|---|---|---|---|---|---|---|
| MNMMHPDN_1 | 721872 | 722726 | aadK | Streptomycin | 98.71 | 100.00 | M26879 |
| MNMMHPDN_32 | 108004 | 108924 | mph(K) | Spiramycin, Telithromycin | 97.50 | 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. |
|---|---|---|---|---|---|---|---|---|
| MNMMHPDN_1 | 721875 | 722726 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| MNMMHPDN_31 | 28972 | 30612 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.35 | 100.00 | WP_003234144.1 |
| MNMMHPDN_32 | 108007 | 108924 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| MNMMHPDN_12 | 1025825 | 1026343 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 93.64 | 100.00 | WP_003242546.1 |
| MNMMHPDN_1 | 62596 | 65193 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| MNMMHPDN_12 | 535613 | 536794 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| MNMMHPDN_12 | 112970 | 113755 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| MNMMHPDN_1 | 284557 | 285198 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.69 | 100.00 | NP_390062 |
| MNMMHPDN_12 | 111748 | 112944 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.33 | 100.00 | NP_391079 |
| MNMMHPDN_1 | 8352 | 10115 | dep/capD | 0.0 | Capsule | Immune modulation | 99.32 | 100.00 | NP_389723 |
| MNMMHPDN_12 | 535149 | 535598 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| MNMMHPDN_12 | 533988 | 535130 | capA | 0.0 | Capsule | Immune modulation | 98.78 | 100.00 | NP_391469 |
| MNMMHPDN_12 | 101978 | 109114 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.74 | 100.00 | NP_391076 |
| MNMMHPDN_12 | 109134 | 110072 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.40 | 100.00 | NP_391077 |
| MNMMHPDN_12 | 110100 | 111719 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.41 | 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 |
|---|---|---|---|---|---|---|---|---|
| MNMMHPDN_33 | 28109 | 26973 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| MNMMHPDN_35 | 11302 | 10433 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| MNMMHPDN_23 | 285004 | 284228 | CodY | 8.33e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| MNMMHPDN_12 | 376343 | 376912 | ClpP | 6.40e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| MNMMHPDN_23 | 749457 | 749065 | spxA1 | 6.55e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| MNMMHPDN_23 | 749457 | 749065 | spx | 3.90e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| MNMMHPDN_34 | 34768 | 34526 | SpoVG | 7.52e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| MNMMHPDN_31 | 79029 | 78832 | CspA | 9.71e-32 | 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 |
|---|---|---|---|
| MNMMHPDN_1 | 0.0 | 1.0 | 0.0 |
| MNMMHPDN_2 | 0.0 | 1.0 | 0.0 |
| MNMMHPDN_3 | 0.0 | 1.0 | 0.0 |
| MNMMHPDN_4 | 0.0 | 1.0 | 0.0 |
| MNMMHPDN_12 | 0.0 | 1.0 | 0.0 |
| MNMMHPDN_23 | 0.0 | 1.0 | 0.0 |
| MNMMHPDN_30 | 0.0 | 1.0 | 0.0 |
| MNMMHPDN_31 | 0.0 | 1.0 | 0.0 |
| MNMMHPDN_32 | 0.0 | 1.0 | 0.0 |
| MNMMHPDN_33 | 0.0 | 1.0 | 0.0 |
| MNMMHPDN_34 | 0.0 | 1.0 | 0.0 |
| MNMMHPDN_35 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| MNMMHPDN_1 | 234979 | 239581 | False | Siphoviridae | VOG7134, VOG9867, VOG6036, VOG5495, VOG9219, VOG9713 |
| MNMMHPDN_1 | 653533 | 683423 | False | Myoviridae | VOG7718, VOG4862, VOG4691, VOG3894, VOG4885, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG10227, VOG0796, VOG4673, VOG9587, VOG4693, VOG0189, VOG11060, VOG1309, VOG4600 |
| MNMMHPDN_23 | 626302 | 652614 | False | Myoviridae | VOG0753, VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
Phigaro v2.4.0 (Database: Jan. 2024 release)