Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 11 | 10 | 8 | 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. |
|---|---|---|---|---|---|---|---|---|
| NBDGHGEL_50 | 157812 | 158405 | tmrB | ARO:3003059 | tmrB | 96.95 | 100.00 | AL009126.3 |
| NBDGHGEL_7 | 157170 | 158339 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| NBDGHGEL_50 | 109940 | 111379 | lmrB | ARO:3002813 | lmrB | 98.74 | 100.42 | JYFL01000006.1 |
| NBDGHGEL_4 | 90482 | 90820 | ykkC | ARO:3003063 | ykkC | 99.11 | 100.00 | AL009126.1 |
| NBDGHGEL_4 | 90165 | 90482 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| NBDGHGEL_49 | 17417 | 18619 | blt | ARO:3003006 | blt | 100.00 | 100.00 | L32599.1 |
| NBDGHGEL_1 | 9388 | 11958 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| NBDGHGEL_65 | 285 | 1139 | aadK | ARO:3002627 | aadK | 97.89 | 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. |
|---|---|---|---|---|---|---|---|
| NBDGHGEL_65 | 287 | 1139 | aadK | Streptomycin | 98.48 | 99.77 | M26879 |
| NBDGHGEL_50 | 97129 | 98048 | 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. |
|---|---|---|---|---|---|---|---|---|
| NBDGHGEL_65 | 288 | 1139 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.89 | 100.00 | WP_003229862.1 |
| NBDGHGEL_14 | 28943 | 30583 | vmlR | ABC-F type ribosomal protection protein VmlR | INTERNAL_STOP | 97.62 | 100.00 | WP_003234144.1 |
| NBDGHGEL_9 | 87978 | 88496 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 93.06 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| NBDGHGEL_63 | 1649 | 2791 | capA | 0.0 | Capsule | Immune modulation | 99.65 | 100.00 | NP_391469 |
| NBDGHGEL_63 | 3274 | 4455 | capB | 0.0 | Capsule | Immune modulation | 99.58 | 100.00 | NP_391471 |
| NBDGHGEL_51 | 99916 | 100854 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.57 | 100.00 | NP_391077 |
| NBDGHGEL_51 | 103741 | 104526 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| NBDGHGEL_40 | 21414 | 23177 | dep/capD | 0.0 | Capsule | Immune modulation | 99.26 | 100.00 | NP_389723 |
| NBDGHGEL_63 | 2810 | 3259 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| NBDGHGEL_51 | 92760 | 99896 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.03 | 100.00 | NP_391076 |
| NBDGHGEL_51 | 102519 | 103715 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.58 | 100.00 | NP_391079 |
| NBDGHGEL_57 | 97596 | 98237 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 97.82 | 100.00 | NP_390062 |
| NBDGHGEL_51 | 100882 | 102501 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.78 | 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 |
|---|---|---|---|---|---|---|---|---|
| NBDGHGEL_64 | 31706 | 32842 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| NBDGHGEL_29 | 11187 | 10318 | pdxS | 1.94e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| NBDGHGEL_20 | 154854 | 154078 | CodY | 2.84e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| NBDGHGEL_34 | 185809 | 186378 | ClpP | 1.50e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| NBDGHGEL_41 | 46116 | 45724 | spxA1 | 3.54e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| NBDGHGEL_41 | 46116 | 45724 | spx | 2.11e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| NBDGHGEL_44 | 34640 | 34398 | SpoVG | 7.49e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| NBDGHGEL_37 | 4026 | 4223 | CspA | 6.69e-32 | cold shock protein | 89.39 | 100.00 | CAA62903 |
| NBDGHGEL_57 | 85744 | 85550 | CspD | 3.36e-28 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| NBDGHGEL_57 | 85744 | 85547 | CspB | 6.97e-28 | cold shock protein | 80.30 | 100.00 | CAD00094 |
| NBDGHGEL_37 | 4026 | 4220 | CspR | 2.10e-27 | cold shock protein | 80.00 | 98.48 | AAO82613 |
BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)
Plasmid
PlasmidFinder
| Query ID | Begin | End | Plasmid | Query / Template | Identity | Accession no. |
|---|---|---|---|---|---|---|
| NBDGHGEL_25 | 5462 | 5655 | 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 |
|---|---|---|---|
| NBDGHGEL_1 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_2 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_4 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_5 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_7 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_8 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_9 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_11 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_12 | 1.0 | 0.0 | 1.0 |
| NBDGHGEL_13 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_14 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_15 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_16 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_18 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_20 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_21 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_23 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_24 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_25 | 1.0 | 0.0 | 1.0 |
| NBDGHGEL_26 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_27 | 1.0 | 0.0 | 1.0 |
| NBDGHGEL_28 | 1.0 | 0.0 | 1.0 |
| NBDGHGEL_29 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_30 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_31 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_32 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_33 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_34 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_35 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_37 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_38 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_39 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_40 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_41 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_42 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_43 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_44 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_45 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_47 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_48 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_49 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_50 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_51 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_52 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_53 | 1.0 | 0.0 | 1.0 |
| NBDGHGEL_54 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_55 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_56 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_57 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_58 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_59 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_60 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_63 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_64 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_65 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_66 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_67 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_68 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_70 | 0.0 | 1.0 | 0.0 |
| NBDGHGEL_72 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| NBDGHGEL_4 | 120306 | 146722 | False | Myoviridae | VOG0753, VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
| NBDGHGEL_15 | 5259 | 29596 | False | Myoviridae | VOG0136, VOG0753, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG4550, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG1350, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG1643, VOG4572, VOG4555, VOG0720, VOG10227, VOG0796, VOG4681 |
| NBDGHGEL_15 | 37525 | 46660 | False | Siphoviridae | VOG1309, VOG4600, VOG1878, VOG4552, VOG4322, VOG0806, VOG9667, VOG9667, VOG8483, VOG4602 |
| NBDGHGEL_20 | 7566 | 30643 | False | Myoviridae / Siphoviridae | VOG9219, VOG9713, VOG6940, VOG5534, VOG7718, VOG3390, VOG7895, VOG8610, VOG7930, VOG0275, VOG3129, VOG9312, VOG4910, VOG3389, VOG5042, VOG9712 |
| NBDGHGEL_38 | 44742 | 48907 | False | Unknown | VOG0322, VOG7476, VOG0025 |
Phigaro v2.4.0 (Database: Jan. 2024 release)