Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 8 | 18.25 |
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. |
|---|---|---|---|---|---|---|---|---|
| ACCHCDKJ_24 | 490957 | 491295 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| ACCHCDKJ_24 | 490640 | 490957 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| ACCHCDKJ_47 | 304883 | 305737 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| ACCHCDKJ_47 | 286214 | 287416 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
| ACCHCDKJ_61 | 256484 | 259054 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| ACCHCDKJ_128 | 108123 | 109043 | mphK | ARO:3004541 | mphK | 97.71 | 100.00 | CP010314.1 |
| ACCHCDKJ_128 | 94790 | 96229 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.42 | JYFL01000006.1 |
| ACCHCDKJ_47 | 59203 | 60372 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| ACCHCDKJ_128 | 45158 | 45751 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| ACCHCDKJ_6 | 29204 | 30850 | vmlR | ARO:3004476 | vmlR | 98.54 | 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. |
|---|---|---|---|---|---|---|---|
| ACCHCDKJ_110 | 36333 | 37709 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.84 | 100.00 | X08034 |
| ACCHCDKJ_47 | 304885 | 305737 | aadK | Streptomycin | 98.71 | 99.77 | M26879 |
| ACCHCDKJ_128 | 108123 | 109043 | mph(K) | Spiramycin, Telithromycin | 97.72 | 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. |
|---|---|---|---|---|---|---|---|---|
| ACCHCDKJ_110 | 36333 | 37706 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.69 | 100.00 | WP_003242953.1 |
| ACCHCDKJ_6 | 29204 | 30847 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| ACCHCDKJ_47 | 304886 | 305737 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| ACCHCDKJ_128 | 108126 | 109043 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| ACCHCDKJ_110 | 39662 | 40180 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| ACCHCDKJ_5 | 56284 | 58881 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.60 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| ACCHCDKJ_133 | 109285 | 110223 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| ACCHCDKJ_110 | 520995 | 522176 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| ACCHCDKJ_133 | 110251 | 111870 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.26 | 100.00 | NP_391078 |
| ACCHCDKJ_133 | 113121 | 113906 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.24 | 100.00 | NP_391080 |
| ACCHCDKJ_5 | 152431 | 153072 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.22 | 100.00 | NP_390062 |
| ACCHCDKJ_110 | 522659 | 523801 | capA | 0.0 | Capsule | Immune modulation | 98.95 | 100.00 | NP_391469 |
| ACCHCDKJ_133 | 111899 | 113095 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.91 | 100.00 | NP_391079 |
| ACCHCDKJ_5 | 9343 | 11106 | dep/capD | 0.0 | Capsule | Immune modulation | 98.87 | 100.00 | NP_389723 |
| ACCHCDKJ_133 | 102129 | 109265 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.82 | 100.00 | NP_391076 |
| ACCHCDKJ_110 | 522191 | 522640 | capC | 0.0 | Capsule | Immune modulation | 98.67 | 100.00 | NP_391470 |
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 |
|---|---|---|---|---|---|---|---|---|
| ACCHCDKJ_57 | 28062 | 26926 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| ACCHCDKJ_121 | 11310 | 10441 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| ACCHCDKJ_24 | 181094 | 180318 | CodY | 7.45e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| ACCHCDKJ_133 | 375409 | 375978 | ClpP | 2.95e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| ACCHCDKJ_24 | 642452 | 642060 | spxA1 | 5.85e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| ACCHCDKJ_24 | 642452 | 642060 | spx | 3.49e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| ACCHCDKJ_93 | 34715 | 34473 | SpoVG | 7.52e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| ACCHCDKJ_6 | 77605 | 77408 | CspA | 9.24e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| ACCHCDKJ_5 | 165036 | 165230 | CspD | 1.79e-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. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| ACCHCDKJ_5 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_6 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_8 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_23 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_24 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_25 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_40 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_44 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_47 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_56 | 1.0 | 0.0 | 1.0 |
| ACCHCDKJ_57 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_61 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_68 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_74 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_93 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_99 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_101 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_110 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_116 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_121 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_128 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_133 | 0.0 | 1.0 | 0.0 |
| ACCHCDKJ_134 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| ACCHCDKJ_24 | 520775 | 547934 | False | Myoviridae | VOG0753, VOG4705, VOG4612, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
| ACCHCDKJ_47 | 237234 | 269366 | False | Myoviridae | VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG9315, VOG0796, VOG7060, VOG4673, VOG4567, VOG4693, VOG0189, VOG11060, VOG1309 |
| ACCHCDKJ_56 | 12091 | 29649 | False | Siphoviridae | VOG2352, VOG0397, VOG1198, VOG4561, VOG4714, VOG2352, VOG3851, VOG2725, VOG4549, VOG5292, VOG1574, VOG0918, VOG4551 |
| ACCHCDKJ_56 | 51561 | 78236 | False | Siphoviridae | VOG0221, VOG4581, VOG5819, VOG1886, VOG4556, VOG4568, VOG4553, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG5852, VOG6163, VOG4605, VOG4599, VOG9244, VOG10944, VOG1024, VOG3616, VOG0703 |
| ACCHCDKJ_99 | 71472 | 99288 | False | Siphoviridae | VOG7134, VOG9867, VOG6036, VOG5495, VOG9219, VOG9713, VOG6940, VOG5534, VOG7718, VOG3390, VOG4705, VOG5008, VOG8610, VOG7930, VOG0275, VOG9312, VOG4910, VOG3389, VOG5042, VOG9712, VOG4660 |
Phigaro v2.4.0 (Database: Jan. 2024 release)