Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 8 | 17.55 |
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. |
|---|---|---|---|---|---|---|---|---|
| FFMGDOCA_13 | 715315 | 716484 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| FFMGDOCA_11 | 589723 | 590061 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| FFMGDOCA_11 | 589406 | 589723 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| FFMGDOCA_13 | 484575 | 485777 | blt | ARO:3003006 | blt | 99.50 | 100.00 | L32599.1 |
| FFMGDOCA_13 | 467779 | 468633 | aadK | ARO:3002627 | aadK | 97.54 | 100.00 | AL009126.1 |
| FFMGDOCA_17 | 110056 | 110976 | mphK | ARO:3004541 | mphK | 98.68 | 100.00 | CP010314.1 |
| FFMGDOCA_17 | 96729 | 98162 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.00 | JYFL01000006.1 |
| FFMGDOCA_17 | 47071 | 47664 | tmrB | ARO:3003059 | tmrB | 96.95 | 100.00 | AL009126.3 |
| FFMGDOCA_16 | 29144 | 30790 | vmlR | ARO:3004476 | vmlR | 99.45 | 100.18 | NC_000964.3 |
| FFMGDOCA_14 | 27449 | 30019 | 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. |
|---|---|---|---|---|---|---|---|
| FFMGDOCA_17 | 110056 | 110976 | mph(K) | Spiramycin, Telithromycin | 99.02 | 100.00 | NC_000964 |
| FFMGDOCA_13 | 467779 | 468631 | aadK | Streptomycin | 98.71 | 99.77 | 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. |
|---|---|---|---|---|---|---|---|---|
| FFMGDOCA_16 | 29144 | 30787 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 99.45 | 100.00 | WP_003234144.1 |
| FFMGDOCA_17 | 110068 | 110976 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.68 | 99.02 | WP_003246254.1 |
| FFMGDOCA_13 | 467779 | 468630 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.54 | 100.00 | WP_003229862.1 |
| FFMGDOCA_7 | 44836 | 45354 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 91.91 | 100.00 | WP_003242546.1 |
| FFMGDOCA_15 | 232126 | 234723 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.83 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| FFMGDOCA_7 | 538936 | 540117 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| FFMGDOCA_15 | 137499 | 138140 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.69 | 100.00 | NP_390062 |
| FFMGDOCA_7 | 933910 | 935106 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.42 | 100.00 | NP_391079 |
| FFMGDOCA_7 | 933099 | 933884 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| FFMGDOCA_15 | 282495 | 284258 | dep/capD | 0.0 | Capsule | Immune modulation | 99.15 | 100.00 | NP_389723 |
| FFMGDOCA_7 | 936782 | 937720 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.15 | 100.00 | NP_391077 |
| FFMGDOCA_7 | 540132 | 540581 | capC | 0.0 | Capsule | Immune modulation | 98.67 | 100.00 | NP_391470 |
| FFMGDOCA_7 | 937740 | 944876 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.67 | 100.00 | NP_391076 |
| FFMGDOCA_7 | 540600 | 541742 | capA | 0.0 | Capsule | Immune modulation | 98.60 | 100.00 | NP_391469 |
| FFMGDOCA_7 | 935135 | 936754 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.04 | 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 |
|---|---|---|---|---|---|---|---|---|
| FFMGDOCA_18 | 31767 | 32903 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| FFMGDOCA_1 | 11332 | 10463 | pdxS | 1.13e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| FFMGDOCA_11 | 278180 | 277404 | CodY | 8.32e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| FFMGDOCA_7 | 682125 | 681556 | ClpP | 6.30e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| FFMGDOCA_11 | 748234 | 747842 | spxA1 | 6.54e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| FFMGDOCA_11 | 748234 | 747842 | spx | 3.90e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| FFMGDOCA_19 | 20893 | 21135 | SpoVG | 7.56e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| FFMGDOCA_16 | 84887 | 84690 | CspA | 1.04e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| FFMGDOCA_15 | 126267 | 126073 | CspD | 7.52e-28 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| FFMGDOCA_15 | 126267 | 126070 | CspB | 1.56e-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 |
|---|---|---|---|
| FFMGDOCA_1 | 0.0 | 1.0 | 0.0 |
| FFMGDOCA_2 | 0.0 | 1.0 | 0.0 |
| FFMGDOCA_3 | 0.0 | 1.0 | 0.0 |
| FFMGDOCA_7 | 0.0 | 1.0 | 0.0 |
| FFMGDOCA_8 | 0.0 | 1.0 | 0.0 |
| FFMGDOCA_11 | 0.0 | 1.0 | 0.0 |
| FFMGDOCA_13 | 0.0 | 1.0 | 0.0 |
| FFMGDOCA_14 | 0.0 | 1.0 | 0.0 |
| FFMGDOCA_15 | 0.0 | 1.0 | 0.0 |
| FFMGDOCA_16 | 0.0 | 1.0 | 0.0 |
| FFMGDOCA_17 | 0.0 | 1.0 | 0.0 |
| FFMGDOCA_18 | 0.0 | 1.0 | 0.0 |
| FFMGDOCA_19 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| FFMGDOCA_11 | 619897 | 647175 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4843, VOG0189, VOG3490, VOG9667 |
| FFMGDOCA_13 | 509765 | 538396 | False | Myoviridae | VOG3449, VOG4673, VOG0796, VOG10227, VOG4773, VOG4688, VOG8883, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
| FFMGDOCA_14 | 279002 | 303612 | False | Myoviridae | VOG3477, VOG2703, VOG1993, VOG4574, VOG0136, VOG0753, VOG5008, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG5205, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG0815, VOG4553, VOG4555, VOG0720 |
| FFMGDOCA_14 | 315847 | 322833 | False | Siphoviridae | VOG4603, VOG4552, VOG0650, VOG9667, VOG9667, VOG4662, VOG4602, VOG0275 |
Phigaro v2.4.0 (Database: Jan. 2024 release)