Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 7 | 17.83 |
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. |
|---|---|---|---|---|---|---|---|---|
| ALCOHFDP_1 | 674560 | 675729 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| ALCOHFDP_1 | 455379 | 456581 | blt | ARO:3003006 | blt | 99.50 | 100.00 | L32599.1 |
| ALCOHFDP_1 | 437354 | 438208 | aadK | ARO:3002627 | aadK | 98.94 | 100.00 | AL009126.1 |
| ALCOHFDP_7 | 431812 | 432129 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| ALCOHFDP_7 | 431474 | 431812 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| ALCOHFDP_9 | 300881 | 303451 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| ALCOHFDP_8 | 161272 | 161865 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| ALCOHFDP_8 | 110709 | 112148 | lmrB | ARO:3002813 | lmrB | 99.79 | 100.42 | JYFL01000006.1 |
| ALCOHFDP_8 | 97894 | 98814 | mphK | ARO:3004541 | mphK | 98.02 | 100.00 | CP010314.1 |
| ALCOHFDP_10 | 29341 | 30984 | vmlR | ARO:3004476 | vmlR | 98.35 | 100.00 | 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. |
|---|---|---|---|---|---|---|---|
| ALCOHFDP_1 | 437354 | 438206 | aadK | Streptomycin | 98.94 | 99.77 | M26879 |
| ALCOHFDP_6 | 38217 | 39593 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.91 | 100.00 | D12567 |
| ALCOHFDP_8 | 97894 | 98814 | 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. |
|---|---|---|---|---|---|---|---|---|
| ALCOHFDP_1 | 437354 | 438205 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.94 | 100.00 | WP_003229862.1 |
| ALCOHFDP_6 | 38217 | 39590 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.91 | 100.00 | WP_063856081.1 |
| ALCOHFDP_10 | 29341 | 30981 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.35 | 100.00 | WP_003234144.1 |
| ALCOHFDP_8 | 97894 | 98802 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.02 | 99.02 | WP_003246254.1 |
| ALCOHFDP_6 | 41546 | 42064 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| ALCOHFDP_1 | 980951 | 983548 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.83 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| ALCOHFDP_1 | 1031088 | 1032851 | dep/capD | 0.0 | Capsule | Immune modulation | 99.94 | 100.00 | NP_389723 |
| ALCOHFDP_6 | 938786 | 939724 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.89 | 100.00 | NP_391077 |
| ALCOHFDP_6 | 939744 | 946880 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.78 | 100.00 | NP_391076 |
| ALCOHFDP_6 | 520796 | 521977 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| ALCOHFDP_6 | 521992 | 522441 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| ALCOHFDP_6 | 935103 | 935888 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| ALCOHFDP_6 | 522460 | 523602 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| ALCOHFDP_1 | 875052 | 875693 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.22 | 100.00 | NP_390062 |
| ALCOHFDP_6 | 935914 | 937110 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.17 | 100.00 | NP_391079 |
| ALCOHFDP_6 | 937139 | 938758 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.64 | 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 |
|---|---|---|---|---|---|---|---|---|
| ALCOHFDP_11 | 31937 | 33073 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| ALCOHFDP_13 | 4530 | 5399 | pdxS | 2.02e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| ALCOHFDP_7 | 745101 | 745877 | CodY | 7.19e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| ALCOHFDP_6 | 681177 | 680608 | ClpP | 6.31e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| ALCOHFDP_7 | 276610 | 277002 | spxA1 | 5.65e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| ALCOHFDP_7 | 276610 | 277002 | spx | 3.37e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| ALCOHFDP_12 | 20847 | 21089 | SpoVG | 7.57e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| ALCOHFDP_10 | 78910 | 78713 | CspA | 3.50e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
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 |
|---|---|---|---|
| ALCOHFDP_1 | 0.0 | 1.0 | 0.0 |
| ALCOHFDP_6 | 0.0 | 1.0 | 0.0 |
| ALCOHFDP_7 | 0.0 | 1.0 | 0.0 |
| ALCOHFDP_8 | 0.0 | 1.0 | 0.0 |
| ALCOHFDP_9 | 0.0 | 1.0 | 0.0 |
| ALCOHFDP_10 | 0.0 | 1.0 | 0.0 |
| ALCOHFDP_11 | 0.0 | 1.0 | 0.0 |
| ALCOHFDP_12 | 0.0 | 1.0 | 0.0 |
| ALCOHFDP_13 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| ALCOHFDP_1 | 473242 | 503145 | False | Myoviridae | VOG4600, VOG1309, VOG11060, VOG0189, VOG4693, VOG9587, VOG4673, VOG0796, VOG10227, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4691, VOG4862 |
| ALCOHFDP_1 | 1192433 | 1195645 | False | Unknown | VOG4551, VOG0025 |
| ALCOHFDP_7 | 374255 | 401986 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
| ALCOHFDP_9 | 13409 | 17180 | False | Siphoviridae | VOG4602, VOG9607, VOG9667, VOG4603, VOG0650 |
| ALCOHFDP_9 | 29473 | 55896 | False | Siphoviridae | VOG0796, VOG10227, VOG0720, VOG4564, VOG4555, VOG4553, VOG1125, VOG0815, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG0725, VOG4545, VOG4605, VOG4599, VOG5535, VOG0753, VOG0136, VOG4707, VOG1993, VOG2703, VOG9953, VOG3477, VOG3490 |
Phigaro v2.4.0 (Database: Jan. 2024 release)