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. |
|---|---|---|---|---|---|---|---|---|
| BJJLHDMD_86 | 62392 | 62709 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| BJJLHDMD_86 | 62054 | 62392 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| BJJLHDMD_92 | 59499 | 62069 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.53 | 100.00 | AL009126.3 |
| BJJLHDMD_59 | 35292 | 36731 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.42 | JYFL01000006.1 |
| BJJLHDMD_21 | 24063 | 24917 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| BJJLHDMD_59 | 22477 | 23397 | mphK | ARO:3004541 | mphK | 98.68 | 100.00 | CP010314.1 |
| BJJLHDMD_21 | 6966 | 8168 | blt | ARO:3003006 | blt | 98.00 | 100.00 | L32599.1 |
| BJJLHDMD_161 | 5743 | 7389 | vmlR | ARO:3004476 | vmlR | 98.36 | 100.18 | NC_000964.3 |
| BJJLHDMD_50 | 992 | 1585 | tmrB | ARO:3003059 | tmrB | 99.49 | 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. |
|---|---|---|---|---|---|---|---|
| BJJLHDMD_21 | 24063 | 24917 | aadK | Streptomycin | 98.83 | 100.00 | M26879 |
| BJJLHDMD_59 | 22477 | 23397 | mph(K) | Spiramycin, Telithromycin | 98.05 | 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. |
|---|---|---|---|---|---|---|---|---|
| BJJLHDMD_59 | 22477 | 23385 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.68 | 99.02 | WP_003246254.1 |
| BJJLHDMD_21 | 24066 | 24917 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| BJJLHDMD_161 | 5746 | 7389 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.36 | 100.00 | WP_003234144.1 |
| BJJLHDMD_110 | 51061 | 51579 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.75 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| BJJLHDMD_141 | 22052 | 23233 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| BJJLHDMD_70 | 112875 | 113660 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| BJJLHDMD_141 | 23716 | 24858 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| BJJLHDMD_70 | 101883 | 109019 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.30 | 100.00 | NP_391076 |
| BJJLHDMD_127 | 1515 | 3278 | dep/capD | 0.0 | Capsule | Immune modulation | 99.04 | 100.00 | NP_389723 |
| BJJLHDMD_70 | 111653 | 112849 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.00 | 100.00 | NP_391079 |
| BJJLHDMD_70 | 109039 | 109977 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.94 | 100.00 | NP_391077 |
| BJJLHDMD_99 | 2876 | 3517 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 98.91 | 100.00 | NP_390062 |
| BJJLHDMD_141 | 23248 | 23697 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| BJJLHDMD_70 | 110005 | 111624 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 96.73 | 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 |
|---|---|---|---|---|---|---|---|---|
| BJJLHDMD_44 | 28124 | 26988 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| BJJLHDMD_104 | 11309 | 10440 | pdxS | 1.89e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| BJJLHDMD_98 | 7728 | 8504 | CodY | 8.21e-126 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| BJJLHDMD_69 | 17493 | 16924 | ClpP | 1.24e-100 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| BJJLHDMD_95 | 23404 | 23796 | spxA1 | 4.13e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| BJJLHDMD_95 | 23404 | 23796 | spx | 2.46e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| BJJLHDMD_149 | 34715 | 34473 | SpoVG | 7.51e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| BJJLHDMD_24 | 9856 | 9659 | CspA | 1.02e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| BJJLHDMD_46 | 132730 | 132536 | CspD | 8.69e-29 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| BJJLHDMD_62 | 31277 | 31083 | CspB | 4.06e-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. |
|---|---|---|---|---|---|---|
| BJJLHDMD_79 | 1376 | 1543 | Col(SD853) | 168 / 194 | 86.90 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| BJJLHDMD_1 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_2 | 1.0 | 0.0 | 1.0 |
| BJJLHDMD_3 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_4 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_5 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_6 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_8 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_10 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_11 | 1.0 | 0.0 | 1.0 |
| BJJLHDMD_12 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_15 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_18 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_19 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_20 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_21 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_24 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_25 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_30 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_32 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_34 | 1.0 | 0.0 | 1.0 |
| BJJLHDMD_36 | 1.0 | 0.0 | 1.0 |
| BJJLHDMD_39 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_40 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_43 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_44 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_46 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_48 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_49 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_50 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_52 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_53 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_54 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_57 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_58 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_59 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_60 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_62 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_63 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_64 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_65 | 1.0 | 0.0 | 1.0 |
| BJJLHDMD_66 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_68 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_69 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_70 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_72 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_73 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_74 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_77 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_79 | 1.0 | 0.0 | 1.0 |
| BJJLHDMD_82 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_83 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_86 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_87 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_88 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_89 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_91 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_92 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_93 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_94 | 1.0 | 0.0 | 1.0 |
| BJJLHDMD_95 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_96 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_98 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_99 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_100 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_101 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_103 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_104 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_105 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_106 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_107 | 1.0 | 0.0 | 1.0 |
| BJJLHDMD_108 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_109 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_110 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_111 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_112 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_117 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_118 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_119 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_120 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_121 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_122 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_124 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_125 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_126 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_127 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_128 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_129 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_130 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_134 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_135 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_136 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_137 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_139 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_141 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_142 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_144 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_146 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_147 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_149 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_150 | 1.0 | 0.0 | 1.0 |
| BJJLHDMD_152 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_154 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_155 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_158 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_159 | 1.0 | 0.0 | 1.0 |
| BJJLHDMD_161 | 0.0 | 1.0 | 0.0 |
| BJJLHDMD_162 | 1.0 | 0.0 | 1.0 |
| BJJLHDMD_164 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| BJJLHDMD_58 | 92686 | 103216 | True | Siphoviridae | VOG3490, VOG0275, VOG0275, VOG1563, VOG9667, VOG9667, VOG7581, VOG4566, VOG0189, VOG6587 |
| BJJLHDMD_86 | 5907 | 32590 | False | Myoviridae | VOG9667, VOG3490, VOG0189, VOG4843, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
| BJJLHDMD_125 | 3 | 25799 | False | Siphoviridae | VOG4626, VOG4619, VOG0801, VOG6163, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG3644, VOG4544, VOG4581, VOG7403, VOG4841, VOG0198, VOG7372, VOG2752, VOG4606, VOG1227, VOG1936, VOG0535, VOG0650 |
Phigaro v2.4.0 (Database: Jan. 2024 release)