Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 10 | 10 | 9 | 16.76 |
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. |
|---|---|---|---|---|---|---|---|---|
| DNAOPGNN_27 | 507092 | 508294 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
| DNAOPGNN_27 | 333832 | 335001 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| DNAOPGNN_37 | 162032 | 162349 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| DNAOPGNN_37 | 161694 | 162032 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| DNAOPGNN_24 | 72022 | 72942 | mphK | ARO:3004541 | mphK | 99.67 | 100.00 | CP010314.1 |
| DNAOPGNN_24 | 58693 | 60132 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.42 | JYFL01000006.1 |
| DNAOPGNN_4 | 29104 | 30750 | vmlR | ARO:3004476 | vmlR | 97.99 | 100.18 | NC_000964.3 |
| DNAOPGNN_24 | 8992 | 9585 | tmrB | ARO:3003059 | tmrB | 99.49 | 100.00 | AL009126.3 |
| DNAOPGNN_14 | 30 | 2600 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 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. |
|---|---|---|---|---|---|---|---|
| DNAOPGNN_24 | 72022 | 72942 | mph(K) | Spiramycin, Telithromycin | 99.46 | 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. |
|---|---|---|---|---|---|---|---|---|
| DNAOPGNN_24 | 72025 | 72942 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.67 | 100.00 | WP_003246254.1 |
| DNAOPGNN_4 | 29104 | 30747 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 97.99 | 100.00 | WP_003234144.1 |
| DNAOPGNN_69 | 1139 | 1657 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 91.33 | 100.00 | WP_003242546.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| DNAOPGNN_46 | 35955 | 36740 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| DNAOPGNN_23 | 2984 | 3433 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| DNAOPGNN_23 | 3448 | 4629 | capB | 0.0 | Capsule | Immune modulation | 99.49 | 100.00 | NP_391471 |
| DNAOPGNN_27 | 132413 | 133054 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.38 | 100.00 | NP_390062 |
| DNAOPGNN_23 | 1823 | 2965 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| DNAOPGNN_46 | 32119 | 33057 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391077 |
| DNAOPGNN_15 | 75708 | 77471 | dep/capD | 0.0 | Capsule | Immune modulation | 98.98 | 100.00 | NP_389723 |
| DNAOPGNN_46 | 24963 | 32099 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.70 | 100.00 | NP_391076 |
| DNAOPGNN_46 | 34733 | 35929 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.58 | 100.00 | NP_391079 |
| DNAOPGNN_46 | 33085 | 34704 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.53 | 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 |
|---|---|---|---|---|---|---|---|---|
| DNAOPGNN_34 | 28056 | 26920 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| DNAOPGNN_40 | 4386 | 5255 | pdxS | 1.13e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| DNAOPGNN_22 | 125659 | 124883 | CodY | 2.24e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| DNAOPGNN_16 | 132061 | 131492 | ClpP | 1.71e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| DNAOPGNN_37 | 8158 | 8550 | spxA1 | 1.34e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| DNAOPGNN_37 | 8158 | 8550 | spx | 7.97e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| DNAOPGNN_1 | 34766 | 34524 | SpoVG | 7.50e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| DNAOPGNN_4 | 74537 | 74340 | CspA | 3.31e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| DNAOPGNN_7 | 32008 | 31814 | CspB | 3.66e-28 | cold shock protein | 83.08 | 98.48 | CAD00094 |
| DNAOPGNN_27 | 145014 | 145208 | CspD | 4.86e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)
Plasmid
PlasmidFinder
| Query ID | Begin | End | Plasmid | Query / Template | Identity | Accession no. |
|---|---|---|---|---|---|---|
| DNAOPGNN_25 | 4823 | 5317 | rep21 | 495 / 717 | 90.51 | FR821780 |
| DNAOPGNN_50 | 769 | 955 | Col(SD853) | 187 / 194 | 86.63 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| DNAOPGNN_1 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_2 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_3 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_4 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_7 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_8 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_9 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_10 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_11 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_12 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_13 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_14 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_15 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_16 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_17 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_18 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_19 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_20 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_21 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_22 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_23 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_24 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_25 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_26 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_27 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_28 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_29 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_30 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_31 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_32 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_33 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_34 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_35 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_36 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_37 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_38 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_40 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_41 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_42 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_43 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_44 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_45 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_46 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_47 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_48 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_49 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_50 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_51 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_52 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_53 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_54 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_55 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_56 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_57 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_58 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_59 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_60 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_61 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_62 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_63 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_64 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_66 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_67 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_68 | 1.0 | 0.0 | 1.0 |
| DNAOPGNN_69 | 0.0 | 1.0 | 0.0 |
| DNAOPGNN_72 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| DNAOPGNN_16 | 256698 | 279536 | False | Siphoviridae | VOG4841, VOG0713, VOG4581, VOG1886, VOG3607, VOG4556, VOG4568, VOG4553, VOG5361, VOG0204, VOG9583, VOG0704, VOG4586, VOG0541, VOG5910, VOG0801, VOG4772, VOG4626, VOG3390, VOG4705, VOG4612, VOG3390 |
| DNAOPGNN_17 | 38656 | 60903 | False | Siphoviridae | VOG4574, VOG0136, VOG0753, VOG5615, VOG4705, VOG3390, VOG4599, VOG4605, VOG4545, VOG0725, VOG2621, VOG0799, VOG0724, VOG5660, VOG0816, VOG4623, VOG3480, VOG1329, VOG4555, VOG4564, VOG0720, VOG10227 |
| DNAOPGNN_27 | 63926 | 68794 | False | Unknown | VOG7483, VOG0094, VOG9030, VOG7567, VOG4570 |
| DNAOPGNN_27 | 85827 | 102967 | False | Siphoviridae | VOG9312, VOG4910, VOG3389, VOG5042, VOG9712, VOG4626, VOG3390, VOG4705, VOG8440 |
| DNAOPGNN_37 | 107167 | 132463 | 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, VOG7895, VOG0753 |
Phigaro v2.4.0 (Database: Jan. 2024 release)