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. |
|---|---|---|---|---|---|---|---|---|
| HAIGGNDN_7 | 123340 | 124779 | lmrB | ARO:3002813 | lmrB | 98.74 | 100.42 | JYFL01000006.1 |
| HAIGGNDN_16 | 92362 | 94932 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| HAIGGNDN_28 | 30651 | 31505 | aadK | ARO:3002627 | aadK | 97.54 | 100.00 | AL009126.1 |
| HAIGGNDN_28 | 11887 | 13089 | blt | ARO:3003006 | blt | 100.00 | 100.00 | L32599.1 |
| HAIGGNDN_14 | 8997 | 10166 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| HAIGGNDN_17 | 6500 | 6838 | ykkC | ARO:3003063 | ykkC | 99.11 | 100.00 | AL009126.1 |
| HAIGGNDN_17 | 6183 | 6500 | ykkD | ARO:3003064 | ykkD | 98.10 | 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. |
|---|---|---|---|---|---|---|---|
| HAIGGNDN_19 | 34545 | 35921 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.77 | 100.00 | D12567 |
| HAIGGNDN_28 | 30653 | 31505 | aadK | Streptomycin | 98.48 | 99.77 | M26879 |
| HAIGGNDN_7 | 97067 | 97986 | 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. |
|---|---|---|---|---|---|---|---|---|
| HAIGGNDN_19 | 34545 | 35918 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.69 | 100.00 | WP_063856081.1 |
| HAIGGNDN_20 | 28992 | 30632 | vmlR | ABC-F type ribosomal protection protein VmlR | INTERNAL_STOP | 97.62 | 100.00 | WP_003234144.1 |
| HAIGGNDN_28 | 30654 | 31505 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.54 | 100.00 | WP_003229862.1 |
| HAIGGNDN_19 | 37896 | 38414 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| HAIGGNDN_13 | 15399 | 16337 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| HAIGGNDN_12 | 3247 | 4428 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| HAIGGNDN_12 | 1622 | 2764 | capA | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391469 |
| HAIGGNDN_12 | 2783 | 3232 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| HAIGGNDN_13 | 11727 | 12512 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| HAIGGNDN_10 | 84477 | 86240 | dep/capD | 0.0 | Capsule | Immune modulation | 99.15 | 100.00 | NP_389723 |
| HAIGGNDN_13 | 16357 | 23493 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.78 | 100.00 | NP_391076 |
| HAIGGNDN_13 | 12538 | 13734 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.58 | 100.00 | NP_391079 |
| HAIGGNDN_5 | 178015 | 178656 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 97.82 | 100.00 | NP_390062 |
| HAIGGNDN_13 | 13752 | 15371 | 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 |
|---|---|---|---|---|---|---|---|---|
| HAIGGNDN_23 | 27970 | 26834 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| HAIGGNDN_39 | 11265 | 10396 | pdxS | 1.94e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| HAIGGNDN_2 | 150400 | 151176 | CodY | 2.13e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| HAIGGNDN_1 | 150447 | 149878 | ClpP | 2.40e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| HAIGGNDN_18 | 38720 | 38328 | spxA1 | 5.76e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| HAIGGNDN_18 | 38720 | 38328 | spx | 3.43e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| HAIGGNDN_27 | 34574 | 34332 | SpoVG | 7.47e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| HAIGGNDN_20 | 75800 | 75603 | CspA | 3.44e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| HAIGGNDN_5 | 166163 | 165969 | CspD | 5.39e-28 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| HAIGGNDN_5 | 166163 | 165966 | CspB | 1.12e-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. |
|---|---|---|---|---|---|---|
| HAIGGNDN_42 | 1 | 191 | Col(SD853) | 191 / 194 | 100.00 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| HAIGGNDN_1 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_2 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_3 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_4 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_5 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_6 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_7 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_8 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_9 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_10 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_11 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_12 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_13 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_14 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_15 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_16 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_17 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_18 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_19 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_20 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_21 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_22 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_23 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_24 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_25 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_26 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_27 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_28 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_29 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_30 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_31 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_32 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_33 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_34 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_35 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_36 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_37 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_38 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_39 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_40 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_41 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_42 | 1.0 | 0.0 | 1.0 |
| HAIGGNDN_43 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_44 | 1.0 | 0.0 | 1.0 |
| HAIGGNDN_45 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_46 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_47 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_48 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_50 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_51 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_52 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_53 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_54 | 1.0 | 0.0 | 1.0 |
| HAIGGNDN_56 | 1.0 | 0.0 | 1.0 |
| HAIGGNDN_57 | 0.0 | 1.0 | 0.0 |
| HAIGGNDN_58 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| HAIGGNDN_9 | 7428 | 32755 | False | Siphoviridae | VOG4910, VOG9312, VOG0275, VOG7930, VOG8610, VOG5008, VOG4705, VOG3390, VOG7718, VOG5534, VOG6940, VOG9713, VOG9219, VOG5495, VOG6036, VOG9867, VOG7134, VOG10940, VOG5721, VOG5779 |
| HAIGGNDN_17 | 35144 | 61914 | False | Myoviridae | VOG4707, VOG0136, VOG0753, VOG4705, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
Phigaro v2.4.0 (Database: Jan. 2024 release)