Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 4 | 16.88 |
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. |
|---|---|---|---|---|---|---|---|---|
| FONEBEOO_1 | 2602007 | 2602861 | aadK | ARO:3002627 | aadK | 97.89 | 100.00 | AL009126.1 |
| FONEBEOO_1 | 2583272 | 2584474 | blt | ARO:3003006 | blt | 100.00 | 100.00 | L32599.1 |
| FONEBEOO_1 | 2358737 | 2359906 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| FONEBEOO_1 | 1369336 | 1369653 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| FONEBEOO_1 | 1368998 | 1369336 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| FONEBEOO_1 | 867363 | 869933 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 100.00 | 100.00 | AL009126.3 |
| FONEBEOO_1 | 576060 | 577706 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.18 | NC_000964.3 |
| FONEBEOO_1 | 329140 | 329760 | tmrB | ARO:3003059 | tmrB | 97.97 | 104.57 | AL009126.3 |
| FONEBEOO_1 | 278616 | 280049 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.00 | JYFL01000006.1 |
| FONEBEOO_1 | 265802 | 266722 | mphK | ARO:3004541 | mphK | 98.69 | 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. |
|---|---|---|---|---|---|---|---|
| FONEBEOO_1 | 4052117 | 4053493 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 99.93 | 100.00 | X08034 |
| FONEBEOO_1 | 265802 | 266722 | mph(K) | Spiramycin, Telithromycin | 99.02 | 100.00 | NC_000964 |
| FONEBEOO_1 | 2602009 | 2602861 | aadK | Streptomycin | 98.59 | 99.77 | M26879 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| FONEBEOO_1 | 4052120 | 4053493 | tet(L) | tetracycline efflux MFS transporter Tet(L) | EXACTX | 100.00 | 100.00 | WP_003242953.1 |
| FONEBEOO_1 | 265802 | 266719 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.69 | 100.00 | WP_003246254.1 |
| FONEBEOO_1 | 576063 | 577706 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| FONEBEOO_1 | 2602010 | 2602861 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.89 | 100.00 | WP_003229862.1 |
| FONEBEOO_1 | 4049646 | 4050164 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| FONEBEOO_1 | 2051537 | 2054134 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.40 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| FONEBEOO_1 | 3580002 | 3581183 | capB | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | NP_391471 |
| FONEBEOO_1 | 3147100 | 3154236 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.55 | 100.00 | NP_391076 |
| FONEBEOO_1 | 2159353 | 2159994 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 100.00 | NP_390062 |
| FONEBEOO_1 | 3158092 | 3158877 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| FONEBEOO_1 | 3154256 | 3155194 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391077 |
| FONEBEOO_1 | 3578377 | 3579519 | capA | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_391469 |
| FONEBEOO_1 | 3579538 | 3579987 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| FONEBEOO_1 | 2004684 | 2006447 | dep/capD | 0.0 | Capsule | Immune modulation | 98.92 | 100.00 | NP_389723 |
| FONEBEOO_1 | 3156870 | 3158066 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.66 | 100.00 | NP_391079 |
| FONEBEOO_1 | 3155222 | 3156841 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.52 | 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 |
|---|---|---|---|---|---|---|---|---|
| FONEBEOO_1 | 132722 | 133858 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| FONEBEOO_1 | 18991 | 19860 | pdxS | 3.03e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| FONEBEOO_1 | 1679387 | 1680163 | CodY | 3.31e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| FONEBEOO_1 | 3426049 | 3426618 | ClpP | 2.45e-98 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
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 |
|---|---|---|---|
| FONEBEOO_1 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| FONEBEOO_1 | 1216525 | 1219903 | False | Siphoviridae | VOG9667, VOG9667, VOG2687, VOG4552, VOG4603 |
| FONEBEOO_1 | 1230387 | 1250035 | False | Siphoviridae | VOG0796, VOG0720, VOG4564, VOG4555, VOG1329, VOG5872, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG0725, VOG4605, VOG4599 |
| FONEBEOO_1 | 1310928 | 1338014 | 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 |
| FONEBEOO_1 | 2536823 | 2566428 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG10227, VOG0796, VOG4673, VOG4693, VOG0189, VOG11060, VOG1309 |
Phigaro v2.4.0 (Database: Jan. 2024 release)