Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 11 | 10 | 9 | 17.38 |
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. |
|---|---|---|---|---|---|---|---|---|
| DODHPINN_23 | 64881 | 65732 | aadK | ARO:3002627 | aadK | 97.89 | 99.65 | AL009126.1 |
| DODHPINN_53 | 62272 | 62589 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| DODHPINN_53 | 61934 | 62272 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| DODHPINN_6 | 45656 | 47095 | lmrB | ARO:3002813 | lmrB | 98.74 | 100.42 | JYFL01000006.1 |
| DODHPINN_46 | 27255 | 29825 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.65 | 100.00 | AL009126.3 |
| DODHPINN_39 | 18885 | 19478 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| DODHPINN_103 | 6844 | 8046 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
| DODHPINN_57 | 5889 | 7535 | vmlR | ARO:3004476 | vmlR | 98.18 | 100.18 | 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. |
|---|---|---|---|---|---|---|---|
| DODHPINN_23 | 64881 | 65732 | aadK | Streptomycin | 98.36 | 99.65 | M26879 |
| DODHPINN_6 | 32844 | 33763 | mph(K) | Spiramycin, Telithromycin | 97.72 | 99.89 | 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. |
|---|---|---|---|---|---|---|---|---|
| DODHPINN_57 | 5889 | 7532 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.18 | 100.00 | WP_003234144.1 |
| DODHPINN_23 | 64881 | 65729 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.89 | 100.00 | WP_003229862.1 |
| DODHPINN_4 | 58153 | 58671 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 93.06 | 100.00 | WP_003242546.1 |
| DODHPINN_75 | 39076 | 41673 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.48 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| DODHPINN_44 | 23842 | 25023 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| DODHPINN_48 | 143839 | 144624 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| DODHPINN_44 | 22217 | 23359 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| DODHPINN_30 | 12292 | 14055 | dep/capD | 0.0 | Capsule | Immune modulation | 99.09 | 100.00 | NP_389723 |
| DODHPINN_48 | 140014 | 140952 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.94 | 100.00 | NP_391077 |
| DODHPINN_44 | 23378 | 23827 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| DODHPINN_48 | 142617 | 143813 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.58 | 100.00 | NP_391079 |
| DODHPINN_48 | 132858 | 139994 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.56 | 100.00 | NP_391076 |
| DODHPINN_47 | 29032 | 29673 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 97.66 | 100.00 | NP_390062 |
| DODHPINN_48 | 140980 | 142599 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.28 | 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 |
|---|---|---|---|---|---|---|---|---|
| DODHPINN_49 | 31658 | 32794 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| DODHPINN_89 | 11496 | 10627 | pdxS | 6.93e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| DODHPINN_12 | 112596 | 111820 | CodY | 1.86e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| DODHPINN_32 | 79473 | 78904 | ClpP | 6.83e-100 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| DODHPINN_26 | 83780 | 84172 | spxA1 | 6.08e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| DODHPINN_26 | 83780 | 84172 | spx | 3.62e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| DODHPINN_76 | 11068 | 11310 | SpoVG | 6.22e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| DODHPINN_57 | 51322 | 51125 | CspA | 2.45e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| DODHPINN_47 | 40902 | 41096 | CspD | 7.80e-29 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| DODHPINN_11 | 17228 | 17422 | CspB | 4.41e-28 | cold shock protein | 83.08 | 98.48 | 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. |
|---|---|---|---|---|---|---|
| DODHPINN_41 | 8149 | 8342 | Col(SD853) | 194 / 194 | 97.42 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| DODHPINN_1 | 0.0 | 1.0 | 0.0 |
| DODHPINN_2 | 0.0 | 1.0 | 0.0 |
| DODHPINN_3 | 0.0 | 1.0 | 0.0 |
| DODHPINN_4 | 0.0 | 1.0 | 0.0 |
| DODHPINN_5 | 1.0 | 0.0 | 1.0 |
| DODHPINN_6 | 0.0 | 1.0 | 0.0 |
| DODHPINN_7 | 0.0 | 1.0 | 0.0 |
| DODHPINN_8 | 0.0 | 1.0 | 0.0 |
| DODHPINN_9 | 0.0 | 1.0 | 0.0 |
| DODHPINN_10 | 0.0 | 1.0 | 0.0 |
| DODHPINN_11 | 0.0 | 1.0 | 0.0 |
| DODHPINN_12 | 0.0 | 1.0 | 0.0 |
| DODHPINN_13 | 0.0 | 1.0 | 0.0 |
| DODHPINN_14 | 0.0 | 1.0 | 0.0 |
| DODHPINN_15 | 0.0 | 1.0 | 0.0 |
| DODHPINN_16 | 0.0 | 1.0 | 0.0 |
| DODHPINN_17 | 0.0 | 1.0 | 0.0 |
| DODHPINN_18 | 0.0 | 1.0 | 0.0 |
| DODHPINN_19 | 0.0 | 1.0 | 0.0 |
| DODHPINN_20 | 0.0 | 1.0 | 0.0 |
| DODHPINN_21 | 0.0 | 1.0 | 0.0 |
| DODHPINN_22 | 0.0 | 1.0 | 0.0 |
| DODHPINN_23 | 0.0 | 1.0 | 0.0 |
| DODHPINN_24 | 0.0 | 1.0 | 0.0 |
| DODHPINN_25 | 0.0 | 1.0 | 0.0 |
| DODHPINN_26 | 0.0 | 1.0 | 0.0 |
| DODHPINN_27 | 1.0 | 0.0 | 1.0 |
| DODHPINN_28 | 0.0 | 1.0 | 0.0 |
| DODHPINN_29 | 0.0 | 1.0 | 0.0 |
| DODHPINN_30 | 0.0 | 1.0 | 0.0 |
| DODHPINN_31 | 0.0 | 1.0 | 0.0 |
| DODHPINN_32 | 0.0 | 1.0 | 0.0 |
| DODHPINN_34 | 0.0 | 1.0 | 0.0 |
| DODHPINN_35 | 0.0 | 1.0 | 0.0 |
| DODHPINN_36 | 0.0 | 1.0 | 0.0 |
| DODHPINN_37 | 1.0 | 0.0 | 1.0 |
| DODHPINN_38 | 0.0 | 1.0 | 0.0 |
| DODHPINN_39 | 0.0 | 1.0 | 0.0 |
| DODHPINN_40 | 0.0 | 1.0 | 0.0 |
| DODHPINN_41 | 1.0 | 0.0 | 1.0 |
| DODHPINN_42 | 1.0 | 0.0 | 1.0 |
| DODHPINN_43 | 1.0 | 0.0 | 1.0 |
| DODHPINN_44 | 0.0 | 1.0 | 0.0 |
| DODHPINN_45 | 1.0 | 0.0 | 1.0 |
| DODHPINN_46 | 0.0 | 1.0 | 0.0 |
| DODHPINN_47 | 0.0 | 1.0 | 0.0 |
| DODHPINN_48 | 0.0 | 1.0 | 0.0 |
| DODHPINN_49 | 0.0 | 1.0 | 0.0 |
| DODHPINN_50 | 1.0 | 0.0 | 1.0 |
| DODHPINN_51 | 0.0 | 1.0 | 0.0 |
| DODHPINN_52 | 1.0 | 0.0 | 1.0 |
| DODHPINN_53 | 0.0 | 1.0 | 0.0 |
| DODHPINN_54 | 1.0 | 0.0 | 1.0 |
| DODHPINN_55 | 1.0 | 0.0 | 1.0 |
| DODHPINN_56 | 1.0 | 0.0 | 1.0 |
| DODHPINN_57 | 0.0 | 1.0 | 0.0 |
| DODHPINN_58 | 1.0 | 0.0 | 1.0 |
| DODHPINN_59 | 0.0 | 1.0 | 0.0 |
| DODHPINN_60 | 0.0 | 1.0 | 0.0 |
| DODHPINN_61 | 0.0 | 1.0 | 0.0 |
| DODHPINN_62 | 0.0 | 1.0 | 0.0 |
| DODHPINN_63 | 0.0 | 1.0 | 0.0 |
| DODHPINN_64 | 0.0 | 1.0 | 0.0 |
| DODHPINN_65 | 0.0 | 1.0 | 0.0 |
| DODHPINN_66 | 0.0 | 1.0 | 0.0 |
| DODHPINN_67 | 0.0 | 1.0 | 0.0 |
| DODHPINN_69 | 0.0 | 1.0 | 0.0 |
| DODHPINN_70 | 1.0 | 0.0 | 1.0 |
| DODHPINN_71 | 0.0 | 1.0 | 0.0 |
| DODHPINN_72 | 0.0 | 1.0 | 0.0 |
| DODHPINN_73 | 0.0 | 1.0 | 0.0 |
| DODHPINN_74 | 0.0 | 1.0 | 0.0 |
| DODHPINN_75 | 0.0 | 1.0 | 0.0 |
| DODHPINN_76 | 0.0 | 1.0 | 0.0 |
| DODHPINN_77 | 0.0 | 1.0 | 0.0 |
| DODHPINN_78 | 0.0 | 1.0 | 0.0 |
| DODHPINN_79 | 0.0 | 1.0 | 0.0 |
| DODHPINN_80 | 0.0 | 1.0 | 0.0 |
| DODHPINN_81 | 0.0 | 1.0 | 0.0 |
| DODHPINN_82 | 0.0 | 1.0 | 0.0 |
| DODHPINN_83 | 0.0 | 1.0 | 0.0 |
| DODHPINN_84 | 0.0 | 1.0 | 0.0 |
| DODHPINN_85 | 0.0 | 1.0 | 0.0 |
| DODHPINN_86 | 0.0 | 1.0 | 0.0 |
| DODHPINN_87 | 0.0 | 1.0 | 0.0 |
| DODHPINN_88 | 0.0 | 1.0 | 0.0 |
| DODHPINN_89 | 0.0 | 1.0 | 0.0 |
| DODHPINN_90 | 0.0 | 1.0 | 0.0 |
| DODHPINN_91 | 1.0 | 0.0 | 1.0 |
| DODHPINN_92 | 0.0 | 1.0 | 0.0 |
| DODHPINN_93 | 0.0 | 1.0 | 0.0 |
| DODHPINN_94 | 0.0 | 1.0 | 0.0 |
| DODHPINN_95 | 0.0 | 1.0 | 0.0 |
| DODHPINN_96 | 0.0 | 1.0 | 0.0 |
| DODHPINN_98 | 1.0 | 0.0 | 1.0 |
| DODHPINN_99 | 1.0 | 0.0 | 1.0 |
| DODHPINN_100 | 1.0 | 0.0 | 1.0 |
| DODHPINN_101 | 0.0 | 1.0 | 0.0 |
| DODHPINN_102 | 0.0 | 1.0 | 0.0 |
| DODHPINN_103 | 0.0 | 1.0 | 0.0 |
| DODHPINN_104 | 0.0 | 1.0 | 0.0 |
| DODHPINN_105 | 1.0 | 0.0 | 1.0 |
| DODHPINN_106 | 0.0 | 1.0 | 0.0 |
| DODHPINN_107 | 0.0 | 1.0 | 0.0 |
| DODHPINN_108 | 0.0 | 1.0 | 0.0 |
| DODHPINN_109 | 0.0 | 1.0 | 0.0 |
| DODHPINN_110 | 0.0 | 1.0 | 0.0 |
| DODHPINN_111 | 0.0 | 1.0 | 0.0 |
| DODHPINN_112 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| DODHPINN_16 | 53404 | 61138 | True | Siphoviridae | VOG3490, VOG0275, VOG0275, VOG1563, VOG9667, VOG9667, VOG7581 |
| DODHPINN_16 | 67958 | 90763 | False | Siphoviridae | VOG0198, VOG0275, VOG4841, VOG0713, VOG4581, VOG1886, VOG3607, VOG4556, VOG4568, VOG4553, VOG5361, VOG0204, VOG9583, VOG0704, VOG4586, VOG0541, VOG5910, VOG0801, VOG4772, VOG4626, VOG4612, VOG6243, VOG4705 |
| DODHPINN_48 | 8203 | 34199 | False | Siphoviridae | VOG4574, VOG0641, VOG4705, VOG6243, VOG4612, VOG4626, VOG4619, VOG0801, VOG6163, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4573, VOG4556, VOG0202, VOG1886, VOG4581, VOG4841, VOG7884, VOG0275, VOG0198, VOG0044 |
| DODHPINN_53 | 6309 | 32470 | False | Myoviridae | 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)