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. |
|---|---|---|---|---|---|---|---|---|
| FPNACLDP_6 | 255484 | 258054 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| FPNACLDP_3 | 204872 | 206041 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| FPNACLDP_8 | 183113 | 184759 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.18 | NC_000964.3 |
| FPNACLDP_11 | 161515 | 162108 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| FPNACLDP_4 | 152458 | 153312 | aadK | ARO:3002627 | aadK | 97.54 | 100.00 | AL009126.1 |
| FPNACLDP_4 | 133289 | 134491 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| FPNACLDP_11 | 110994 | 112433 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.42 | JYFL01000006.1 |
| FPNACLDP_11 | 98181 | 99101 | mphK | ARO:3004541 | mphK | 98.37 | 100.00 | CP010314.1 |
| FPNACLDP_5 | 41953 | 42270 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| FPNACLDP_5 | 41615 | 41953 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
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. |
|---|---|---|---|---|---|---|---|
| FPNACLDP_2 | 507053 | 508429 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 100.00 | 100.00 | X08034 |
| FPNACLDP_4 | 152460 | 153312 | aadK | Streptomycin | 98.12 | 99.77 | M26879 |
| FPNACLDP_11 | 98181 | 99101 | mph(K) | Spiramycin, Telithromycin | 97.94 | 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. |
|---|---|---|---|---|---|---|---|---|
| FPNACLDP_2 | 507056 | 508429 | tet(L) | tetracycline efflux MFS transporter Tet(L) | EXACTX | 100.00 | 100.00 | WP_003242953.1 |
| FPNACLDP_8 | 183116 | 184759 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| FPNACLDP_11 | 98181 | 99098 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.37 | 100.00 | WP_003246254.1 |
| FPNACLDP_4 | 152461 | 153312 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.54 | 100.00 | WP_003229862.1 |
| FPNACLDP_2 | 504582 | 505100 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| FPNACLDP_17 | 10405 | 13002 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| FPNACLDP_3 | 5743 | 6384 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 100.00 | 100.00 | NP_390062 |
| FPNACLDP_2 | 10637 | 11818 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| FPNACLDP_2 | 9012 | 10154 | capA | 0.0 | Capsule | Immune modulation | 99.39 | 100.00 | NP_391469 |
| FPNACLDP_1 | 109194 | 110132 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391077 |
| FPNACLDP_2 | 10173 | 10622 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| FPNACLDP_1 | 113030 | 113815 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.24 | 100.00 | NP_391080 |
| FPNACLDP_1 | 111808 | 113004 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.17 | 100.00 | NP_391079 |
| FPNACLDP_17 | 61320 | 63083 | dep/capD | 0.0 | Capsule | Immune modulation | 99.15 | 100.00 | NP_389723 |
| FPNACLDP_1 | 102038 | 109174 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.06 | 100.00 | NP_391076 |
| FPNACLDP_1 | 110160 | 111779 | 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 |
|---|---|---|---|---|---|---|---|---|
| FPNACLDP_10 | 28020 | 26884 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| FPNACLDP_25 | 4286 | 5155 | pdxS | 1.11e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| FPNACLDP_5 | 352103 | 352879 | CodY | 4.52e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| FPNACLDP_1 | 365944 | 366513 | ClpP | 1.05e-98 | part of proteolytic complex | 80.53 | 97.44 | BAB94595 |
| FPNACLDP_7 | 110321 | 109929 | spxA1 | 9.29e-70 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| FPNACLDP_18 | 34689 | 34447 | SpoVG | 7.50e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| FPNACLDP_8 | 136359 | 136556 | CspA | 9.24e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| FPNACLDP_3 | 18346 | 18540 | CspD | 1.84e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| FPNACLDP_7 | 353489 | 353683 | 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 |
|---|---|---|---|
| FPNACLDP_1 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_2 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_3 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_4 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_5 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_6 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_7 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_8 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_9 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_10 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_11 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_12 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_13 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_14 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_16 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_17 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_18 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_19 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_21 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_23 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_25 | 0.0 | 1.0 | 0.0 |
| FPNACLDP_26 | 1.0 | 0.0 | 1.0 |
| FPNACLDP_27 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| FPNACLDP_4 | 84017 | 106073 | False | Myoviridae | VOG7718, VOG4862, VOG4691, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773 |
| FPNACLDP_4 | 330590 | 355549 | False | Myoviridae | VOG0221, VOG6116, VOG9203, VOG10500, VOG4574, VOG0641, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG4550, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG4553, VOG4555, VOG0720 |
| FPNACLDP_5 | 4378 | 12128 | False | Myoviridae | VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705 |
| FPNACLDP_7 | 5570 | 15490 | False | Siphoviridae | VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
| FPNACLDP_12 | 3 | 25195 | False | Siphoviridae | VOG1886, VOG4556, VOG4568, VOG4553, VOG5361, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG5910, VOG6163, VOG0801, VOG4619, VOG4626, VOG3390, VOG4705, VOG4612, VOG3390, VOG4705, VOG5221, VOG0136, VOG4666, VOG6495 |
| FPNACLDP_14 | 8220 | 19786 | False | Unknown | VOG5042, VOG3389, VOG4910, VOG9312 |
| FPNACLDP_16 | 105131 | 117396 | False | Siphoviridae | VOG1198, VOG0918, VOG4551, VOG0025, VOG7476, VOG0322, VOG6211 |
Phigaro v2.4.0 (Database: Jan. 2024 release)