Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 10 | 10 | 9 | 16.76 |
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. |
|---|---|---|---|---|---|---|---|---|
| PFCGLHON_13 | 107059 | 108498 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.42 | JYFL01000006.1 |
| PFCGLHON_13 | 94244 | 95164 | mphK | ARO:3004541 | mphK | 98.68 | 100.00 | CP010314.1 |
| PFCGLHON_10 | 61169 | 62371 | blt | ARO:3003006 | blt | 98.00 | 100.00 | L32599.1 |
| PFCGLHON_8 | 53768 | 54106 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| PFCGLHON_8 | 53451 | 53768 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| PFCGLHON_10 | 44420 | 45274 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| PFCGLHON_17 | 27309 | 29879 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.53 | 100.00 | AL009126.3 |
| PFCGLHON_42 | 5732 | 7378 | vmlR | ARO:3004476 | vmlR | 98.36 | 100.18 | NC_000964.3 |
| PFCGLHON_32 | 871 | 1464 | tmrB | ARO:3003059 | tmrB | 99.49 | 100.00 | AL009126.3 |
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. |
|---|---|---|---|---|---|---|---|
| PFCGLHON_10 | 44420 | 45274 | aadK | Streptomycin | 98.83 | 100.00 | M26879 |
| PFCGLHON_13 | 94244 | 95164 | 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. |
|---|---|---|---|---|---|---|---|---|
| PFCGLHON_13 | 94244 | 95152 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.68 | 99.02 | WP_003246254.1 |
| PFCGLHON_10 | 44420 | 45271 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| PFCGLHON_42 | 5735 | 7378 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.36 | 100.00 | WP_003234144.1 |
| PFCGLHON_33 | 51089 | 51607 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.75 | 100.00 | WP_003242546.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| PFCGLHON_3 | 253642 | 254823 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| PFCGLHON_45 | 36271 | 37056 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| PFCGLHON_3 | 255306 | 256448 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| PFCGLHON_45 | 25279 | 32415 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.30 | 100.00 | NP_391076 |
| PFCGLHON_20 | 19697 | 21460 | dep/capD | 0.0 | Capsule | Immune modulation | 99.04 | 100.00 | NP_389723 |
| PFCGLHON_45 | 32435 | 33373 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.04 | 100.00 | NP_391077 |
| PFCGLHON_45 | 35049 | 36245 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.00 | 100.00 | NP_391079 |
| PFCGLHON_52 | 11380 | 12021 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 98.91 | 100.00 | NP_390062 |
| PFCGLHON_3 | 254838 | 255287 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| PFCGLHON_45 | 33401 | 35020 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 96.73 | 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 |
|---|---|---|---|---|---|---|---|---|
| PFCGLHON_25 | 27937 | 26801 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| PFCGLHON_41 | 11306 | 10437 | pdxS | 1.95e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| PFCGLHON_4 | 151462 | 152238 | CodY | 2.01e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| PFCGLHON_26 | 45114 | 44545 | ClpP | 2.95e-100 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| PFCGLHON_62 | 41621 | 41229 | spxA1 | 4.14e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| PFCGLHON_62 | 41621 | 41229 | spx | 2.47e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| PFCGLHON_38 | 34745 | 34503 | SpoVG | 4.74e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| PFCGLHON_37 | 40638 | 40441 | CspA | 2.35e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| PFCGLHON_27 | 190 | 384 | CspD | 8.18e-29 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| PFCGLHON_75 | 12868 | 13062 | CspB | 4.10e-28 | 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. |
|---|---|---|---|---|---|---|
| PFCGLHON_43 | 4955 | 5122 | Col(SD853) | 168 / 194 | 86.90 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| PFCGLHON_1 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_2 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_3 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_4 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_5 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_6 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_7 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_8 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_9 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_10 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_11 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_12 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_13 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_14 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_15 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_16 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_17 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_18 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_19 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_20 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_21 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_22 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_23 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_24 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_25 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_26 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_27 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_28 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_29 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_30 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_31 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_32 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_33 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_34 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_35 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_36 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_37 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_38 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_39 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_40 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_41 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_42 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_43 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_44 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_45 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_46 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_47 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_48 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_49 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_50 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_51 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_52 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_53 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_54 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_55 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_56 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_58 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_59 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_60 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_61 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_62 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_63 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_64 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_65 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_66 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_67 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_68 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_69 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_70 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_71 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_72 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_73 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_74 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_75 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_76 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_77 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_79 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_80 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_81 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_82 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_83 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_84 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_85 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_86 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_87 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_88 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_89 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_90 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_91 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_92 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_93 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_94 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_95 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_96 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_98 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_100 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_101 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_102 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_103 | 0.0 | 1.0 | 0.0 |
| PFCGLHON_104 | 1.0 | 0.0 | 1.0 |
| PFCGLHON_108 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| PFCGLHON_8 | 83570 | 110253 | False | Myoviridae | VOG0753, VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4843, VOG0189, VOG3490 |
| PFCGLHON_21 | 92542 | 103072 | True | Siphoviridae | VOG3490, VOG0275, VOG0275, VOG1563, VOG9667, VOG9667, VOG7581, VOG4566, VOG0189, VOG6587 |
Phigaro v2.4.0 (Database: Jan. 2024 release)