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. |
|---|---|---|---|---|---|---|---|---|
| NGNDDPCD_1 | 281691 | 282545 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| NGNDDPCD_69 | 177706 | 179352 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.18 | NC_000964.3 |
| NGNDDPCD_1 | 98453 | 99622 | bmr | ARO:3003007 | bmr | 99.23 | 100.00 | M33768.1 |
| NGNDDPCD_7 | 63703 | 64623 | mphK | ARO:3004541 | mphK | 97.39 | 100.00 | CP010314.1 |
| NGNDDPCD_7 | 50371 | 51810 | lmrB | ARO:3002813 | lmrB | 98.53 | 100.42 | JYFL01000006.1 |
| NGNDDPCD_80 | 39484 | 39801 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| NGNDDPCD_80 | 39146 | 39484 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| NGNDDPCD_29 | 8168 | 10738 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| NGNDDPCD_7 | 853 | 1446 | tmrB | ARO:3003059 | tmrB | 98.98 | 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. |
|---|---|---|---|---|---|---|---|
| NGNDDPCD_1 | 281691 | 282545 | aadK | Streptomycin | 98.71 | 100.00 | M26879 |
| NGNDDPCD_7 | 63703 | 64623 | 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. |
|---|---|---|---|---|---|---|---|---|
| NGNDDPCD_1 | 281694 | 282545 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| NGNDDPCD_69 | 177709 | 179352 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| NGNDDPCD_7 | 63706 | 64623 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.39 | 100.00 | WP_003246254.1 |
| NGNDDPCD_8 | 3016 | 5613 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.17 | 100.00 | WP_087347987.1 |
| NGNDDPCD_36 | 36075 | 36407 | satA | streptothricin N-acetyltransferase SatA | PARTIALX | 92.79 | 64.16 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| NGNDDPCD_5 | 118197 | 119378 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| NGNDDPCD_91 | 103686 | 104471 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| NGNDDPCD_5 | 119393 | 119842 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| NGNDDPCD_91 | 92694 | 99830 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.27 | 100.00 | NP_391076 |
| NGNDDPCD_58 | 116751 | 117392 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.22 | 100.00 | NP_390062 |
| NGNDDPCD_91 | 102464 | 103660 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.17 | 100.00 | NP_391079 |
| NGNDDPCD_6 | 78266 | 80029 | dep/capD | 0.0 | Capsule | Immune modulation | 98.98 | 100.00 | NP_389723 |
| NGNDDPCD_5 | 119861 | 121003 | capA | 0.0 | Capsule | Immune modulation | 98.86 | 100.00 | NP_391469 |
| NGNDDPCD_91 | 99850 | 100788 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.83 | 100.00 | NP_391077 |
| NGNDDPCD_91 | 100816 | 102435 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.39 | 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 |
|---|---|---|---|---|---|---|---|---|
| NGNDDPCD_16 | 28021 | 26885 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| NGNDDPCD_41 | 11247 | 10378 | pdxS | 1.11e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| NGNDDPCD_2 | 61049 | 60273 | CodY | 1.09e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| NGNDDPCD_14 | 97464 | 96895 | ClpP | 1.85e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| NGNDDPCD_11 | 51396 | 51788 | spxA1 | 5.11e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| NGNDDPCD_11 | 51396 | 51788 | spx | 3.05e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| NGNDDPCD_19 | 20478 | 20720 | SpoVG | 7.49e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| NGNDDPCD_69 | 135259 | 135456 | CspA | 8.11e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| NGNDDPCD_58 | 104791 | 104597 | CspD | 1.17e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| NGNDDPCD_25 | 191405 | 191599 | CspB | 2.05e-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. |
|---|---|---|---|---|---|---|
| NGNDDPCD_55 | 3441 | 3722 | Col440II | 282 / 282 | 97.52 | CP023921.1 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| NGNDDPCD_1 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_2 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_5 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_6 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_7 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_8 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_9 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_10 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_11 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_12 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_13 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_14 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_15 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_16 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_17 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_18 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_19 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_20 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_21 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_22 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_23 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_24 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_25 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_26 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_27 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_28 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_29 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_30 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_31 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_32 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_33 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_34 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_35 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_36 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_37 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_38 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_39 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_40 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_41 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_42 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_43 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_44 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_45 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_46 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_47 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_48 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_49 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_50 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_51 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_52 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_53 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_54 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_55 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_56 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_57 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_58 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_59 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_60 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_61 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_62 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_63 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_64 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_65 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_66 | 1.0 | 0.0 | 1.0 |
| NGNDDPCD_69 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_80 | 0.0 | 1.0 | 0.0 |
| NGNDDPCD_91 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| NGNDDPCD_1 | 450027 | 475925 | False | Myoviridae | VOG0221, VOG6116, VOG6422, VOG4574, VOG0136, VOG0753, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG4550, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG4553, VOG4555, VOG0720, VOG10227 |
| NGNDDPCD_17 | 38210 | 53779 | True | Myoviridae | VOG8484, VOG0275, VOG11077, VOG1563, VOG6362, VOG0705, VOG1026, VOG6282, VOG5219, VOG5220, VOG5243, VOG5356, VOG4910, VOG5208, VOG1013 |
| NGNDDPCD_28 | 7909 | 19748 | False | Myoviridae / Siphoviridae | VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG9315, VOG1328 |
| NGNDDPCD_28 | 29704 | 34500 | False | Unknown | VOG1292, VOG1309, VOG0083 |
| NGNDDPCD_30 | 8688 | 28679 | False | Siphoviridae | VOG1198, VOG4581, VOG1886, VOG4556, VOG4573, VOG4553, VOG0204, VOG4589, VOG0704, VOG4586, VOG0541, VOG0801, VOG4619, VOG4626, VOG4612, VOG3390, VOG4705 |
| NGNDDPCD_58 | 150479 | 161467 | False | Unknown | VOG5042, VOG3389, VOG4910 |
| NGNDDPCD_80 | 2816 | 4693 | False | Myoviridae | VOG4691, VOG4862 |
Phigaro v2.4.0 (Database: Jan. 2024 release)