Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 15 | 10 | 9 | 20.15 |
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. |
|---|---|---|---|---|---|---|---|---|
| JGKMBKEH_7 | 226082 | 227251 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| JGKMBKEH_13 | 117091 | 117429 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| JGKMBKEH_13 | 116774 | 117091 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| JGKMBKEH_3 | 97611 | 98531 | mphK | ARO:3004541 | mphK | 98.02 | 100.00 | CP010314.1 |
| JGKMBKEH_15 | 87630 | 90200 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| JGKMBKEH_1 | 50544 | 51137 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| JGKMBKEH_36 | 34491 | 36134 | vmlR | ARO:3004476 | vmlR | 98.35 | 100.00 | NC_000964.3 |
| JGKMBKEH_2 | 10521 | 11375 | aadK | ARO:3002627 | aadK | 98.94 | 100.00 | AL009126.1 |
| JGKMBKEH_7 | 6905 | 8107 | blt | ARO:3003006 | blt | 100.00 | 100.00 | L32599.1 |
| JGKMBKEH_26 | 979 | 1839 | TEM-116 | ARO:3000979 | TEM-116 | 100.00 | 100.00 | U36911.1 |
| JGKMBKEH_1 | 46 | 1479 | lmrB | ARO:3002813 | lmrB | 100.00 | 100.00 | JYFL01000006.1 |
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. |
|---|---|---|---|---|---|---|---|
| JGKMBKEH_26 | 979 | 1839 | blaTEM-116 | Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin | 100.00 | 100.00 | AY425988 |
| JGKMBKEH_23 | 38175 | 39552 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 99.42 | 100.00 | D12567 |
| JGKMBKEH_2 | 10523 | 11375 | aadK | Streptomycin | 98.94 | 99.77 | M26879 |
| JGKMBKEH_3 | 97611 | 98531 | mph(K) | Spiramycin, Telithromycin | 97.61 | 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. |
|---|---|---|---|---|---|---|---|---|
| JGKMBKEH_26 | 979 | 1836 | blaTEM-116 | broad-spectrum class A beta-lactamase TEM-116 | ALLELEX | 100.00 | 100.00 | WP_000027050.1 |
| JGKMBKEH_23 | 38175 | 39272 | tet(L) | tetracycline efflux MFS transporter Tet(L) | PARTIALX | 99.18 | 79.91 | WP_003242953.1 |
| JGKMBKEH_2 | 10524 | 11375 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.94 | 100.00 | WP_003229862.1 |
| JGKMBKEH_36 | 34494 | 36134 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.35 | 100.00 | WP_003234144.1 |
| JGKMBKEH_3 | 97611 | 98519 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.02 | 99.02 | WP_003246254.1 |
| JGKMBKEH_23 | 41505 | 42023 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| JGKMBKEH_34 | 561075 | 563672 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.71 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| JGKMBKEH_35 | 109093 | 110031 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.89 | 100.00 | NP_391077 |
| JGKMBKEH_12 | 23751 | 24932 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| JGKMBKEH_35 | 101937 | 109073 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.65 | 100.00 | NP_391076 |
| JGKMBKEH_35 | 110059 | 111678 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.57 | 100.00 | NP_391078 |
| JGKMBKEH_35 | 112929 | 113714 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| JGKMBKEH_34 | 510614 | 512377 | dep/capD | 0.0 | Capsule | Immune modulation | 99.38 | 100.00 | NP_389723 |
| JGKMBKEH_35 | 111707 | 112903 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391079 |
| JGKMBKEH_7 | 425808 | 426449 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.22 | 100.00 | NP_390062 |
| JGKMBKEH_12 | 22126 | 23268 | capA | 0.0 | Capsule | Immune modulation | 98.69 | 100.00 | NP_391469 |
| JGKMBKEH_12 | 23287 | 23736 | 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 |
|---|---|---|---|---|---|---|---|---|
| JGKMBKEH_10 | 27998 | 26862 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| JGKMBKEH_19 | 11206 | 10337 | pdxS | 1.10e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| JGKMBKEH_34 | 195758 | 196534 | CodY | 4.69e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| JGKMBKEH_4 | 81242 | 81811 | ClpP | 1.29e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| JGKMBKEH_32 | 276321 | 276713 | spxA1 | 1.96e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| JGKMBKEH_32 | 276321 | 276713 | spx | 1.17e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| JGKMBKEH_31 | 34656 | 34414 | SpoVG | 7.50e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| JGKMBKEH_1 | 251443 | 251640 | CspA | 1.16e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| JGKMBKEH_7 | 413845 | 413651 | CspD | 3.18e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| JGKMBKEH_32 | 33106 | 32912 | CspB | 2.82e-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. |
|---|---|---|---|---|---|---|
| JGKMBKEH_26 | 255 | 385 | ColRNAI | 131 / 130 | 87.02 | DQ298019 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| JGKMBKEH_1 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_2 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_3 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_4 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_5 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_6 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_7 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_8 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_9 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_10 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_11 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_12 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_13 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_14 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_15 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_16 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_18 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_19 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_20 | 1.0 | 0.0 | 1.0 |
| JGKMBKEH_23 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_24 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_25 | 1.0 | 0.0 | 1.0 |
| JGKMBKEH_26 | 1.0 | 0.0 | 1.0 |
| JGKMBKEH_31 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_32 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_34 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_35 | 0.0 | 1.0 | 0.0 |
| JGKMBKEH_36 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| JGKMBKEH_5 | 37767 | 59632 | False | Siphoviridae | VOG6842, VOG4574, VOG0136, VOG0753, VOG10940, VOG5535, VOG4599, VOG4605, VOG9745, VOG0701, VOG10044, VOG6548, VOG0697, VOG0696, VOG0695, VOG2621, VOG4572, VOG9317, VOG0692, VOG0691, VOG10227, VOG0796, VOG7983, VOG0198 |
| JGKMBKEH_5 | 66239 | 72868 | False | Siphoviridae | VOG1309, VOG4600, VOG4552, VOG0650, VOG9667, VOG9667, VOG4662 |
| JGKMBKEH_7 | 24772 | 54667 | False | Myoviridae | VOG4600, VOG1309, VOG11060, VOG0189, VOG4693, VOG9587, VOG4673, VOG0796, VOG9315, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4691, VOG4862 |
| JGKMBKEH_9 | 9271 | 32835 | False | Myoviridae | VOG7718, VOG4862, VOG4691, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773 |
| JGKMBKEH_9 | 44152 | 50690 | False | Unknown | VOG11060, VOG1292, VOG1309, VOG0083, VOG1878, VOG3549 |
| JGKMBKEH_13 | 147239 | 154336 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894 |
| JGKMBKEH_18 | 66883 | 76805 | False | Siphoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685 |
Phigaro v2.4.0 (Database: Jan. 2024 release)