Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 9 | 10 | 8 | 15.65 |
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. |
|---|---|---|---|---|---|---|---|---|
| OPMDHAHO_89 | 51725 | 52579 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| OPMDHAHO_112 | 39161 | 41731 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| OPMDHAHO_101 | 25318 | 26757 | lmrB | ARO:3002813 | lmrB | 98.74 | 100.42 | JYFL01000006.1 |
| OPMDHAHO_137 | 22792 | 23109 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| OPMDHAHO_137 | 22454 | 22792 | ykkC | ARO:3003063 | ykkC | 99.11 | 100.00 | AL009126.1 |
| OPMDHAHO_171 | 9512 | 10105 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| OPMDHAHO_15 | 1863 | 3494 | vmlR | ARO:3004476 | vmlR | 97.97 | 99.27 | 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. |
|---|---|---|---|---|---|---|---|
| OPMDHAHO_89 | 51725 | 52579 | aadK | Streptomycin | 98.71 | 100.00 | M26879 |
| OPMDHAHO_101 | 12506 | 13425 | mph(K) | Spiramycin, Telithromycin | 97.83 | 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. |
|---|---|---|---|---|---|---|---|---|
| OPMDHAHO_89 | 51725 | 52576 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| OPMDHAHO_15 | 1863 | 3506 | vmlR | ABC-F type ribosomal protection protein VmlR | INTERNAL_STOP | 97.08 | 100.00 | WP_003234144.1 |
| OPMDHAHO_135 | 72214 | 72732 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 91.91 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| OPMDHAHO_125 | 28942 | 30123 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| OPMDHAHO_125 | 30606 | 31748 | capA | 0.0 | Capsule | Immune modulation | 99.65 | 100.00 | NP_391469 |
| OPMDHAHO_125 | 30138 | 30587 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| OPMDHAHO_100 | 39219 | 39860 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 100.00 | NP_390062 |
| OPMDHAHO_146 | 30151 | 30936 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| OPMDHAHO_143 | 19284 | 21047 | dep/capD | 0.0 | Capsule | Immune modulation | 99.04 | 100.00 | NP_389723 |
| OPMDHAHO_146 | 33823 | 34761 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.72 | 100.00 | NP_391077 |
| OPMDHAHO_146 | 30962 | 32158 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.58 | 100.00 | NP_391079 |
| OPMDHAHO_146 | 34781 | 41917 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.05 | 100.00 | NP_391076 |
| OPMDHAHO_146 | 32176 | 33795 | 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 |
|---|---|---|---|---|---|---|---|---|
| OPMDHAHO_96 | 31740 | 32876 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| OPMDHAHO_159 | 4266 | 5135 | pdxS | 1.10e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| OPMDHAHO_2 | 18975 | 19751 | CodY | 5.86e-126 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| OPMDHAHO_168 | 50894 | 51463 | ClpP | 4.38e-100 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| OPMDHAHO_46 | 40087 | 40479 | spxA1 | 4.20e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| OPMDHAHO_46 | 40087 | 40479 | spx | 2.50e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| OPMDHAHO_104 | 20499 | 20741 | SpoVG | 7.49e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| OPMDHAHO_100 | 51824 | 52018 | CspD | 3.44e-29 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| OPMDHAHO_157 | 29179 | 28985 | CspB | 6.83e-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. |
|---|---|---|---|---|---|---|
| OPMDHAHO_11 | 5361 | 5554 | Col(SD853) | 194 / 194 | 97.94 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| OPMDHAHO_1 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_2 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_3 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_4 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_5 | 1.0 | 0.0 | 1.0 |
| OPMDHAHO_6 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_7 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_8 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_9 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_10 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_11 | 1.0 | 0.0 | 1.0 |
| OPMDHAHO_12 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_13 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_14 | 1.0 | 0.0 | 1.0 |
| OPMDHAHO_15 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_16 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_17 | 1.0 | 0.0 | 1.0 |
| OPMDHAHO_18 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_19 | 1.0 | 0.0 | 1.0 |
| OPMDHAHO_20 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_21 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_22 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_23 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_24 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_25 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_26 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_27 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_28 | 1.0 | 0.0 | 1.0 |
| OPMDHAHO_29 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_30 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_31 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_32 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_34 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_35 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_36 | 1.0 | 0.0 | 1.0 |
| OPMDHAHO_38 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_39 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_41 | 1.0 | 0.0 | 1.0 |
| OPMDHAHO_46 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_57 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_68 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_79 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_89 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_90 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_91 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_92 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_93 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_94 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_95 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_96 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_97 | 1.0 | 0.0 | 1.0 |
| OPMDHAHO_98 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_99 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_100 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_101 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_102 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_103 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_104 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_105 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_106 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_107 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_108 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_109 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_110 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_111 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_112 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_113 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_114 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_115 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_116 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_117 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_118 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_119 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_120 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_121 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_122 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_123 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_124 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_125 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_126 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_127 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_128 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_129 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_130 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_131 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_132 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_133 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_134 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_135 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_136 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_137 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_138 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_139 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_140 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_141 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_142 | 1.0 | 0.0 | 1.0 |
| OPMDHAHO_143 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_144 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_145 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_146 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_147 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_148 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_149 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_150 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_151 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_152 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_153 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_154 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_155 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_156 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_157 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_158 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_159 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_160 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_161 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_162 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_163 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_164 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_165 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_166 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_167 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_168 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_169 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_170 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_171 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_172 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_173 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_174 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_175 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_176 | 1.0 | 0.0 | 1.0 |
| OPMDHAHO_177 | 0.0 | 1.0 | 0.0 |
| OPMDHAHO_178 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| OPMDHAHO_1 | 43923 | 53912 | False | Siphoviridae | VOG0918, VOG4551, VOG0025, VOG7627, VOG0322, VOG6464 |
| OPMDHAHO_1 | 89257 | 97775 | False | Unknown | VOG7567, VOG4570, VOG5722, VOG4544, VOG5721, VOG10940 |
| OPMDHAHO_1 | 107046 | 125050 | False | Siphoviridae | VOG8465, VOG9312, VOG4910, VOG3389, VOG5042, VOG9712, VOG4660, VOG4574 |
| OPMDHAHO_95 | 885 | 22187 | False | Myoviridae | VOG0641, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG5205, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG1350, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG4553, VOG4555, VOG0720, VOG0720 |
| OPMDHAHO_99 | 25264 | 51959 | False | Myoviridae | VOG0101, VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718 |
| OPMDHAHO_103 | 4697 | 10252 | False | Unknown | VOG0083, VOG1309, VOG1292 |
| OPMDHAHO_103 | 22574 | 47726 | False | Myoviridae | VOG9315, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG10095, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG0906, VOG7718, VOG7895 |
| OPMDHAHO_122 | 15301 | 23313 | False | Siphoviridae | VOG4600, VOG4552, VOG0650, VOG4603, VOG9667, VOG3304, VOG4602 |
Phigaro v2.4.0 (Database: Jan. 2024 release)