Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 9 | 18.03 |
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. |
|---|---|---|---|---|---|---|---|---|
| LBGNKIHB_5 | 93629 | 93946 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| LBGNKIHB_5 | 93291 | 93629 | ykkC | ARO:3003063 | ykkC | 99.11 | 100.00 | AL009126.1 |
| LBGNKIHB_46 | 39619 | 41058 | lmrB | ARO:3002813 | lmrB | 98.74 | 100.42 | JYFL01000006.1 |
| LBGNKIHB_49 | 39583 | 42153 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| LBGNKIHB_50 | 36229 | 37431 | blt | ARO:3003006 | blt | 100.00 | 100.00 | L32599.1 |
| LBGNKIHB_50 | 17813 | 18667 | aadK | ARO:3002627 | aadK | 97.54 | 100.00 | AL009126.1 |
| LBGNKIHB_122 | 9124 | 10293 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| LBGNKIHB_75 | 1490 | 2344 | aadK | ARO:3002627 | aadK | 88.03 | 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. |
|---|---|---|---|---|---|---|---|
| LBGNKIHB_28 | 34712 | 36088 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 98.77 | 100.00 | D12567 |
| LBGNKIHB_50 | 17813 | 18665 | aadK | Streptomycin | 98.48 | 99.77 | M26879 |
| LBGNKIHB_3 | 97409 | 98328 | 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. |
|---|---|---|---|---|---|---|---|---|
| LBGNKIHB_28 | 34712 | 36085 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.69 | 100.00 | WP_063856081.1 |
| LBGNKIHB_35 | 29119 | 30759 | vmlR | ABC-F type ribosomal protection protein VmlR | INTERNAL_STOP | 97.62 | 100.00 | WP_003234144.1 |
| LBGNKIHB_50 | 17813 | 18664 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.54 | 100.00 | WP_003229862.1 |
| LBGNKIHB_28 | 38063 | 38581 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| LBGNKIHB_75 | 1490 | 2341 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 88.03 | 100.00 | WP_003229862.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| LBGNKIHB_47 | 102350 | 103288 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| LBGNKIHB_60 | 3336 | 4517 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| LBGNKIHB_60 | 1711 | 2853 | capA | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391469 |
| LBGNKIHB_60 | 2872 | 3321 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| LBGNKIHB_47 | 106175 | 106960 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| LBGNKIHB_17 | 44068 | 45831 | dep/capD | 0.0 | Capsule | Immune modulation | 99.15 | 100.00 | NP_389723 |
| LBGNKIHB_47 | 95194 | 102330 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.78 | 100.00 | NP_391076 |
| LBGNKIHB_47 | 104953 | 106149 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.58 | 100.00 | NP_391079 |
| LBGNKIHB_58 | 178174 | 178815 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 97.82 | 100.00 | NP_390062 |
| LBGNKIHB_47 | 103316 | 104935 | 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 |
|---|---|---|---|---|---|---|---|---|
| LBGNKIHB_40 | 28133 | 26997 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| LBGNKIHB_73 | 4356 | 5225 | pdxS | 1.97e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| LBGNKIHB_36 | 241124 | 241900 | CodY | 2.87e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| LBGNKIHB_80 | 48004 | 48573 | ClpP | 1.04e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| LBGNKIHB_7 | 38967 | 38575 | spxA1 | 5.78e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| LBGNKIHB_7 | 38967 | 38575 | spx | 3.45e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| LBGNKIHB_45 | 34760 | 34518 | SpoVG | 7.52e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| LBGNKIHB_83 | 4087 | 4284 | CspA | 3.65e-33 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| LBGNKIHB_58 | 166322 | 166128 | CspD | 5.23e-28 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| LBGNKIHB_4 | 30485 | 30291 | CspB | 9.30e-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. |
|---|---|---|---|---|---|---|
| LBGNKIHB_79 | 1147 | 1340 | Col(SD853) | 194 / 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 |
|---|---|---|---|
| LBGNKIHB_3 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_4 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_5 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_7 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_17 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_28 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_32 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_33 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_34 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_35 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_36 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_37 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_38 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_39 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_40 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_41 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_42 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_43 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_44 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_45 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_46 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_47 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_48 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_49 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_50 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_51 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_52 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_53 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_54 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_55 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_56 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_57 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_58 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_59 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_60 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_61 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_62 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_63 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_64 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_65 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_66 | 1.0 | 0.0 | 1.0 |
| LBGNKIHB_67 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_68 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_69 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_70 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_71 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_72 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_73 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_74 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_75 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_76 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_77 | 1.0 | 0.0 | 1.0 |
| LBGNKIHB_78 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_79 | 1.0 | 0.0 | 1.0 |
| LBGNKIHB_80 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_81 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_82 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_83 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_84 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_85 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_86 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_87 | 1.0 | 0.0 | 1.0 |
| LBGNKIHB_88 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_89 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_91 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_92 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_93 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_94 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_95 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_96 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_97 | 1.0 | 0.0 | 1.0 |
| LBGNKIHB_98 | 1.0 | 0.0 | 1.0 |
| LBGNKIHB_99 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_100 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_101 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_102 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_103 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_104 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_105 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_106 | 1.0 | 0.0 | 1.0 |
| LBGNKIHB_108 | 1.0 | 0.0 | 1.0 |
| LBGNKIHB_109 | 1.0 | 0.0 | 1.0 |
| LBGNKIHB_112 | 0.0 | 1.0 | 0.0 |
| LBGNKIHB_122 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| LBGNKIHB_5 | 38215 | 64985 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705, VOG0753, VOG0136 |
| LBGNKIHB_39 | 9498 | 33462 | False | Siphoviridae | VOG4841, VOG4581, VOG1886, VOG2935, VOG4556, VOG4573, VOG4553, VOG5361, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG5910, VOG6163, VOG0801, VOG4619, VOG4660, VOG4612, VOG3390, VOG4705, VOG0641, VOG4574 |
| LBGNKIHB_51 | 14858 | 33237 | False | Siphoviridae | VOG9312, VOG0275, VOG8610, VOG5008, VOG4705, VOG3390, VOG7718, VOG5534, VOG6940, VOG9713, VOG9219, VOG5495, VOG6036, VOG9867, VOG7134, VOG10940, VOG5721, VOG5779 |
| LBGNKIHB_56 | 9175 | 33191 | False | Siphoviridae | VOG4574, VOG0136, VOG0753, VOG10940, VOG5535, VOG4599, VOG4605, VOG4545, VOG0725, VOG0799, VOG0724, VOG5660, VOG0816, VOG4623, VOG3480, VOG1329, VOG4555, VOG7363, VOG4564, VOG0720, VOG10227, VOG0796, VOG0198 |
| LBGNKIHB_64 | 5731 | 23361 | False | Myoviridae | VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718 |
Phigaro v2.4.0 (Database: Jan. 2024 release)