Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 9 | 18.71 |
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. |
|---|---|---|---|---|---|---|---|---|
| IGLMPPEH_2 | 622117 | 622455 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| IGLMPPEH_2 | 621800 | 622117 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| IGLMPPEH_6 | 277041 | 279611 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| IGLMPPEH_1 | 237601 | 238770 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| IGLMPPEH_10 | 162235 | 162828 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| IGLMPPEH_10 | 111757 | 113196 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.42 | JYFL01000006.1 |
| IGLMPPEH_10 | 98943 | 99863 | mphK | ARO:3004541 | mphK | 97.71 | 100.00 | CP010314.1 |
| IGLMPPEH_7 | 32960 | 33814 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| IGLMPPEH_4 | 28992 | 30635 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.00 | NC_000964.3 |
| IGLMPPEH_7 | 14299 | 15501 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
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. |
|---|---|---|---|---|---|---|---|
| IGLMPPEH_11 | 36212 | 37588 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.84 | 100.00 | X08034 |
| IGLMPPEH_7 | 32962 | 33814 | aadK | Streptomycin | 98.71 | 99.77 | M26879 |
| IGLMPPEH_10 | 98943 | 99863 | 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. |
|---|---|---|---|---|---|---|---|---|
| IGLMPPEH_11 | 36212 | 37585 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.69 | 100.00 | WP_003242953.1 |
| IGLMPPEH_4 | 28992 | 30632 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| IGLMPPEH_7 | 32963 | 33814 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| IGLMPPEH_10 | 98943 | 99860 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| IGLMPPEH_11 | 39541 | 40059 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| IGLMPPEH_22 | 57415 | 60012 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| IGLMPPEH_1 | 36155 | 36796 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.69 | 100.00 | NP_390062 |
| IGLMPPEH_8 | 250224 | 251162 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| IGLMPPEH_11 | 520978 | 522159 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| IGLMPPEH_8 | 248577 | 250196 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.26 | 100.00 | NP_391078 |
| IGLMPPEH_8 | 246541 | 247326 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.24 | 100.00 | NP_391080 |
| IGLMPPEH_11 | 522642 | 523784 | capA | 0.0 | Capsule | Immune modulation | 98.95 | 100.00 | NP_391469 |
| IGLMPPEH_8 | 247352 | 248548 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.91 | 100.00 | NP_391079 |
| IGLMPPEH_22 | 105180 | 106943 | dep/capD | 0.0 | Capsule | Immune modulation | 98.87 | 100.00 | NP_389723 |
| IGLMPPEH_8 | 251182 | 258318 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.82 | 100.00 | NP_391076 |
| IGLMPPEH_11 | 522174 | 522623 | 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 |
|---|---|---|---|---|---|---|---|---|
| IGLMPPEH_18 | 27942 | 26806 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| IGLMPPEH_20 | 11190 | 10321 | pdxS | 1.10e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| IGLMPPEH_2 | 312255 | 311479 | CodY | 5.38e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| IGLMPPEH_11 | 663576 | 663007 | ClpP | 4.30e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| IGLMPPEH_9 | 109894 | 109502 | spxA1 | 2.46e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| IGLMPPEH_9 | 109894 | 109502 | spx | 1.47e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| IGLMPPEH_15 | 20508 | 20750 | SpoVG | 7.48e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| IGLMPPEH_4 | 77366 | 77169 | CspA | 9.25e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| IGLMPPEH_1 | 48758 | 48952 | CspD | 2.41e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| IGLMPPEH_9 | 353142 | 353336 | CspB | 3.55e-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 |
|---|---|---|---|
| IGLMPPEH_1 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_2 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_3 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_4 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_5 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_6 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_7 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_8 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_9 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_10 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_11 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_12 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_13 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_14 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_15 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_17 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_18 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_19 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_20 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_21 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_22 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_24 | 0.0 | 1.0 | 0.0 |
| IGLMPPEH_25 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| IGLMPPEH_2 | 33720 | 39275 | False | Unknown | VOG4551, VOG0025, VOG7476, VOG0322, VOG6211 |
| IGLMPPEH_2 | 87330 | 115146 | False | Siphoviridae | VOG7134, VOG9867, VOG6036, VOG5495, VOG9219, VOG9713, VOG6940, VOG5534, VOG7718, VOG3390, VOG4705, VOG5008, VOG8610, VOG7930, VOG0275, VOG9312, VOG4910, VOG3389, VOG5042, VOG9712, VOG4660 |
| IGLMPPEH_2 | 652261 | 659356 | False | Myoviridae | VOG4705, VOG4612, VOG4862, VOG4691, VOG4550, VOG3894 |
| IGLMPPEH_6 | 7929 | 30969 | False | Siphoviridae | VOG0796, VOG10227, VOG0720, VOG4564, VOG4555, VOG1329, VOG1329, VOG3480, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG2621, VOG0725, VOG4545, VOG4605, VOG4599, VOG5535, VOG4728, VOG0753, VOG0136, VOG4574 |
| IGLMPPEH_7 | 188149 | 217309 | False | Siphoviridae | VOG3490, VOG4574, VOG0641, VOG5008, VOG4705, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG1886, VOG4581, VOG4841, VOG0198, VOG6517 |
| IGLMPPEH_8 | 147386 | 181393 | False | Siphoviridae | VOG4602, VOG9667, VOG5353, VOG0181, VOG4556, VOG0787, VOG1638, VOG4552, VOG4566, VOG9600, VOG0025, VOG1884, VOG9091, VOG4841, VOG4581, VOG4544, VOG4556, VOG4568, VOG4553, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG6163, VOG0801, VOG4619, VOG4660, VOG4612, VOG3390, VOG4705, VOG5008, VOG0641, VOG4574 |
| IGLMPPEH_9 | 5460 | 15381 | False | Siphoviridae | VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
| IGLMPPEH_12 | 24638 | 48886 | False | Myoviridae | VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG9315, VOG0796 |
| IGLMPPEH_13 | 6656 | 31317 | False | Myoviridae | VOG4705, VOG7718, VOG0906, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG1581, VOG0749, VOG4685, VOG4688, VOG4773 |
| IGLMPPEH_13 | 44484 | 49926 | False | Unknown | VOG11060, VOG1292, VOG1309, VOG0083 |
Phigaro v2.4.0 (Database: Jan. 2024 release)