Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 8 | 17.55 |
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. |
|---|---|---|---|---|---|---|---|---|
| NMBHHDAG_1 | 439918 | 440256 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| NMBHHDAG_1 | 439601 | 439918 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| NMBHHDAG_12 | 333374 | 334543 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| NMBHHDAG_34 | 299523 | 302093 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.65 | 100.00 | AL009126.3 |
| NMBHHDAG_64 | 172726 | 173319 | tmrB | ARO:3003059 | tmrB | 98.98 | 100.00 | AL009126.3 |
| NMBHHDAG_12 | 142526 | 143728 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
| NMBHHDAG_12 | 125746 | 126600 | aadK | ARO:3002627 | aadK | 99.30 | 100.00 | AL009126.1 |
| NMBHHDAG_2 | 77107 | 78753 | vmlR | ARO:3004476 | vmlR | 98.91 | 100.18 | NC_000964.3 |
| NMBHHDAG_65 | 31912 | 32832 | mphK | ARO:3004541 | mphK | 99.01 | 100.00 | CP010314.1 |
| NMBHHDAG_65 | 18584 | 20017 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.00 | JYFL01000006.1 |
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. |
|---|---|---|---|---|---|---|---|
| NMBHHDAG_12 | 125746 | 126600 | aadK | Streptomycin | 99.18 | 100.00 | M26879 |
| NMBHHDAG_65 | 31912 | 32832 | mph(K) | Spiramycin, Telithromycin | 98.91 | 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. |
|---|---|---|---|---|---|---|---|---|
| NMBHHDAG_12 | 125746 | 126597 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 99.30 | 100.00 | WP_003229862.1 |
| NMBHHDAG_65 | 31924 | 32832 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.01 | 99.02 | WP_003246254.1 |
| NMBHHDAG_2 | 77110 | 78753 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.91 | 100.00 | WP_003234144.1 |
| NMBHHDAG_23 | 39795 | 40313 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 91.91 | 100.00 | WP_003242546.1 |
| NMBHHDAG_12 | 656769 | 659366 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.94 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| NMBHHDAG_12 | 531170 | 531811 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.84 | 100.00 | NP_390062 |
| NMBHHDAG_56 | 133506 | 134291 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| NMBHHDAG_5 | 30176 | 31357 | capB | 0.0 | Capsule | Immune modulation | 99.58 | 100.00 | NP_391471 |
| NMBHHDAG_56 | 134317 | 135513 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.33 | 100.00 | NP_391079 |
| NMBHHDAG_5 | 31372 | 31821 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| NMBHHDAG_56 | 137189 | 138127 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.04 | 100.00 | NP_391077 |
| NMBHHDAG_5 | 31840 | 32982 | capA | 0.0 | Capsule | Immune modulation | 98.95 | 100.00 | NP_391469 |
| NMBHHDAG_12 | 703462 | 705225 | dep/capD | 0.0 | Capsule | Immune modulation | 98.92 | 100.00 | NP_389723 |
| NMBHHDAG_56 | 138147 | 145283 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.50 | 100.00 | NP_391076 |
| NMBHHDAG_56 | 135542 | 137161 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.16 | 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 |
|---|---|---|---|---|---|---|---|---|
| NMBHHDAG_6 | 28175 | 27039 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| NMBHHDAG_8 | 11297 | 10428 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| NMBHHDAG_1 | 131121 | 130345 | CodY | 7.01e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| NMBHHDAG_63 | 117084 | 116515 | ClpP | 1.48e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| NMBHHDAG_1 | 587236 | 586844 | spxA1 | 5.51e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| NMBHHDAG_1 | 587236 | 586844 | spx | 3.28e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| NMBHHDAG_7 | 34812 | 34570 | SpoVG | 7.55e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| NMBHHDAG_2 | 30719 | 30916 | CspA | 4.66e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| NMBHHDAG_12 | 519939 | 519745 | CspD | 1.84e-27 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| NMBHHDAG_12 | 519939 | 519742 | CspB | 3.81e-27 | cold shock protein | 80.30 | 100.00 | 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 |
|---|---|---|---|
| NMBHHDAG_1 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_2 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_3 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_4 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_5 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_6 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_7 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_8 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_9 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_10 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_11 | 1.0 | 0.0 | 1.0 |
| NMBHHDAG_12 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_15 | 1.0 | 0.0 | 1.0 |
| NMBHHDAG_23 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_34 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_45 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_56 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_63 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_64 | 0.0 | 1.0 | 0.0 |
| NMBHHDAG_65 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| NMBHHDAG_1 | 469498 | 494039 | False | Myoviridae | VOG0136, VOG0753, VOG4705, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490 |
Phigaro v2.4.0 (Database: Jan. 2024 release)