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. |
|---|---|---|---|---|---|---|---|---|
| ODIOELCO_22 | 501284 | 502138 | aadK | ARO:3002627 | aadK | 97.89 | 100.00 | AL009126.1 |
| ODIOELCO_22 | 473701 | 474903 | blt | ARO:3003006 | blt | 98.50 | 100.00 | L32599.1 |
| ODIOELCO_44 | 349951 | 350871 | mphK | ARO:3004541 | mphK | 96.08 | 100.00 | CP010314.1 |
| ODIOELCO_44 | 336655 | 338088 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.00 | JYFL01000006.1 |
| ODIOELCO_22 | 291637 | 292806 | bmr | ARO:3003007 | bmr | 99.23 | 100.00 | M33768.1 |
| ODIOELCO_76 | 263397 | 265967 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.65 | 100.00 | AL009126.3 |
| ODIOELCO_77 | 143781 | 144119 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| ODIOELCO_77 | 143464 | 143781 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| ODIOELCO_44 | 28569 | 30197 | vmlR | ARO:3004476 | vmlR | 95.19 | 99.09 | 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. |
|---|---|---|---|---|---|---|---|
| ODIOELCO_22 | 501284 | 502138 | aadK | Streptomycin | 98.25 | 100.00 | M26879 |
| ODIOELCO_44 | 349951 | 350871 | mph(K) | Spiramycin, Telithromycin | 96.31 | 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. |
|---|---|---|---|---|---|---|---|---|
| ODIOELCO_22 | 501287 | 502138 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.89 | 100.00 | WP_003229862.1 |
| ODIOELCO_44 | 349954 | 350871 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 96.08 | 100.00 | WP_003246254.1 |
| ODIOELCO_44 | 28569 | 30191 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 95.19 | 98.90 | WP_003234144.1 |
| ODIOELCO_11 | 48192 | 48710 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 91.33 | 100.00 | WP_003242546.1 |
| ODIOELCO_78 | 54435 | 57032 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.94 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| ODIOELCO_11 | 538495 | 538944 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| ODIOELCO_11 | 537299 | 538480 | capB | 0.0 | Capsule | Immune modulation | 99.49 | 100.00 | NP_391471 |
| ODIOELCO_11 | 538963 | 540105 | capA | 0.0 | Capsule | Immune modulation | 99.12 | 100.00 | NP_391469 |
| ODIOELCO_22 | 92243 | 92884 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 98.91 | 100.00 | NP_390062 |
| ODIOELCO_11 | 952706 | 953491 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.86 | 100.00 | NP_391080 |
| ODIOELCO_11 | 956389 | 957327 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.83 | 100.00 | NP_391077 |
| ODIOELCO_11 | 957347 | 964483 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.44 | 100.00 | NP_391076 |
| ODIOELCO_11 | 953517 | 954713 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.25 | 100.00 | NP_391079 |
| ODIOELCO_78 | 9255 | 11018 | dep/capD | 0.0 | Capsule | Immune modulation | 97.73 | 100.00 | NP_389723 |
| ODIOELCO_11 | 954742 | 956361 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.59 | 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 |
|---|---|---|---|---|---|---|---|---|
| ODIOELCO_1 | 28102 | 26966 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| ODIOELCO_4 | 4356 | 5225 | pdxS | 6.88e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| ODIOELCO_33 | 322156 | 321380 | CodY | 3.83e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| ODIOELCO_11 | 692292 | 691723 | ClpP | 6.41e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| ODIOELCO_66 | 86117 | 85725 | spxA1 | 2.29e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| ODIOELCO_66 | 86117 | 85725 | spx | 1.37e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| ODIOELCO_2 | 20605 | 20847 | SpoVG | 7.51e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| ODIOELCO_44 | 79727 | 79530 | CspA | 1.92e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| ODIOELCO_22 | 104848 | 105042 | CspD | 3.46e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| ODIOELCO_66 | 328585 | 328779 | CspB | 3.30e-27 | 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. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| ODIOELCO_1 | 0.0 | 1.0 | 0.0 |
| ODIOELCO_2 | 0.0 | 1.0 | 0.0 |
| ODIOELCO_3 | 0.0 | 1.0 | 0.0 |
| ODIOELCO_4 | 0.0 | 1.0 | 0.0 |
| ODIOELCO_5 | 0.0 | 1.0 | 0.0 |
| ODIOELCO_6 | 0.0 | 1.0 | 0.0 |
| ODIOELCO_11 | 0.0 | 1.0 | 0.0 |
| ODIOELCO_22 | 0.0 | 1.0 | 0.0 |
| ODIOELCO_33 | 0.0 | 1.0 | 0.0 |
| ODIOELCO_44 | 0.0 | 1.0 | 0.0 |
| ODIOELCO_55 | 0.0 | 1.0 | 0.0 |
| ODIOELCO_66 | 0.0 | 1.0 | 0.0 |
| ODIOELCO_76 | 0.0 | 1.0 | 0.0 |
| ODIOELCO_77 | 0.0 | 1.0 | 0.0 |
| ODIOELCO_78 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| ODIOELCO_33 | 94803 | 119281 | False | Siphoviridae | VOG4705, VOG3390, VOG4612, VOG4705, VOG3390, VOG4626, VOG4772, VOG0801, VOG5910, VOG0541, VOG4586, VOG0704, VOG9583, VOG0204, VOG10223, VOG4553, VOG4568, VOG4556, VOG3607, VOG1886, VOG4581, VOG0713, VOG0083, VOG3691, VOG0275 |
| ODIOELCO_77 | 173604 | 201143 | False | Myoviridae | VOG0753, VOG4705, VOG4612, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4843, VOG0189, VOG3490, VOG9667 |
Phigaro v2.4.0 (Database: Jan. 2024 release)