Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 7 | 17.12 |
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. |
|---|---|---|---|---|---|---|---|---|
| EACFOLNF_2 | 1622668 | 1623522 | aadK | ARO:3002627 | aadK | 97.89 | 100.00 | AL009126.1 |
| EACFOLNF_2 | 1605538 | 1606740 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
| EACFOLNF_2 | 1432267 | 1433436 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| EACFOLNF_2 | 424848 | 425165 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| EACFOLNF_2 | 424510 | 424848 | ykkC | ARO:3003063 | ykkC | 99.11 | 100.00 | AL009126.1 |
| EACFOLNF_3 | 398981 | 400627 | vmlR | ARO:3004476 | vmlR | 99.45 | 100.18 | NC_000964.3 |
| EACFOLNF_5 | 279151 | 281721 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| EACFOLNF_3 | 151967 | 152560 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| EACFOLNF_3 | 101412 | 102851 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.42 | JYFL01000006.1 |
| EACFOLNF_3 | 88598 | 89518 | mphK | ARO:3004541 | mphK | 97.71 | 100.00 | CP010314.1 |
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. |
|---|---|---|---|---|---|---|---|
| EACFOLNF_2 | 1622668 | 1623522 | aadK | Streptomycin | 98.48 | 100.00 | M26879 |
| EACFOLNF_3 | 88598 | 89518 | mph(K) | Spiramycin, Telithromycin | 98.05 | 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. |
|---|---|---|---|---|---|---|---|---|
| EACFOLNF_3 | 398984 | 400627 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 99.45 | 100.00 | WP_003234144.1 |
| EACFOLNF_2 | 1622671 | 1623522 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.89 | 100.00 | WP_003229862.1 |
| EACFOLNF_3 | 88598 | 89515 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| EACFOLNF_1 | 38105 | 38623 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 94.22 | 100.00 | WP_003242546.1 |
| EACFOLNF_2 | 1137249 | 1139846 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.06 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| EACFOLNF_2 | 1234940 | 1235581 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.84 | 100.00 | NP_390062 |
| EACFOLNF_1 | 524629 | 525810 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| EACFOLNF_1 | 942152 | 942937 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| EACFOLNF_1 | 525825 | 526274 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| EACFOLNF_2 | 1082830 | 1084593 | dep/capD | 0.0 | Capsule | Immune modulation | 99.04 | 100.00 | NP_389723 |
| EACFOLNF_1 | 526293 | 527435 | capA | 0.0 | Capsule | Immune modulation | 98.95 | 100.00 | NP_391469 |
| EACFOLNF_1 | 945835 | 946773 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.94 | 100.00 | NP_391077 |
| EACFOLNF_1 | 942963 | 944159 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.91 | 100.00 | NP_391079 |
| EACFOLNF_1 | 944188 | 945807 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.46 | 100.00 | NP_391078 |
| EACFOLNF_1 | 946793 | 953929 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.40 | 100.00 | NP_391076 |
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 |
|---|---|---|---|---|---|---|---|---|
| EACFOLNF_8 | 28049 | 26913 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| EACFOLNF_12 | 11190 | 10321 | pdxS | 1.11e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| EACFOLNF_2 | 736310 | 737086 | CodY | 1.67e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| EACFOLNF_1 | 680021 | 679452 | ClpP | 6.35e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| EACFOLNF_2 | 277755 | 278147 | spxA1 | 1.31e-69 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| EACFOLNF_2 | 277755 | 278147 | spx | 7.81e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| EACFOLNF_10 | 34654 | 34412 | SpoVG | 7.52e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| EACFOLNF_3 | 348616 | 348813 | CspA | 1.86e-31 | 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. |
|---|---|---|---|---|---|---|
| EACFOLNF_6 | 7970 | 8163 | Col(SD853) | 194 / 194 | 97.94 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| EACFOLNF_1 | 0.0 | 1.0 | 0.0 |
| EACFOLNF_2 | 0.0 | 1.0 | 0.0 |
| EACFOLNF_3 | 0.0 | 1.0 | 0.0 |
| EACFOLNF_5 | 0.0 | 1.0 | 0.0 |
| EACFOLNF_6 | 1.0 | 0.0 | 1.0 |
| EACFOLNF_7 | 0.0 | 1.0 | 0.0 |
| EACFOLNF_8 | 0.0 | 1.0 | 0.0 |
| EACFOLNF_9 | 0.0 | 1.0 | 0.0 |
| EACFOLNF_10 | 0.0 | 1.0 | 0.0 |
| EACFOLNF_12 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| EACFOLNF_2 | 367473 | 394994 | 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 |
| EACFOLNF_2 | 927275 | 964714 | False | Siphoviridae | VOG4602, VOG9667, VOG9667, VOG4552, VOG0650, VOG0535, VOG1936, VOG6545, VOG4606, VOG2752, VOG7372, VOG0198, VOG4841, VOG4581, VOG1886, VOG2935, VOG4556, VOG4573, VOG4553, VOG5361, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG5910, VOG6163, VOG0801, VOG4619, VOG4626, VOG3390, VOG4705, VOG4612, VOG3390, VOG7896, VOG0641 |
| EACFOLNF_9 | 8883 | 39545 | False | Myoviridae | VOG7718, VOG0906, VOG4862, VOG4691, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG9315, VOG3699, VOG1328, VOG4567, VOG4618, VOG6242, VOG5826 |
| EACFOLNF_9 | 43285 | 51992 | False | Unknown | VOG10500, VOG4693, VOG10041, VOG0025, VOG9600, VOG11060, VOG1292, VOG1309, VOG0083, VOG1878 |
Phigaro v2.4.0 (Database: Jan. 2024 release)