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. |
|---|---|---|---|---|---|---|---|---|
| IFMEFEAN_56 | 109517 | 110950 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.00 | JYFL01000006.1 |
| IFMEFEAN_21 | 58875 | 59213 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| IFMEFEAN_21 | 58558 | 58875 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| IFMEFEAN_56 | 46431 | 47024 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| IFMEFEAN_103 | 22555 | 23475 | mphK | ARO:3004541 | mphK | 98.68 | 100.00 | CP010314.1 |
| IFMEFEAN_65 | 18786 | 19955 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| IFMEFEAN_6 | 8777 | 11347 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| IFMEFEAN_36 | 7706 | 8557 | aadK | ARO:3002627 | aadK | 98.24 | 99.65 | AL009126.1 |
| IFMEFEAN_26 | 5905 | 7548 | vmlR | ARO:3004476 | vmlR | 98.32 | 100.00 | NC_000964.3 |
| IFMEFEAN_81 | 654 | 1856 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
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. |
|---|---|---|---|---|---|---|---|
| IFMEFEAN_36 | 7706 | 8557 | aadK | Streptomycin | 98.48 | 99.65 | M26879 |
| IFMEFEAN_103 | 22555 | 23475 | 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. |
|---|---|---|---|---|---|---|---|---|
| IFMEFEAN_103 | 22555 | 23463 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.68 | 99.02 | WP_003246254.1 |
| IFMEFEAN_36 | 7709 | 8557 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| IFMEFEAN_26 | 5908 | 7548 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 96.71 | 99.82 | WP_003234144.1 |
| IFMEFEAN_54 | 17246 | 17638 | satA | streptothricin N-acetyltransferase SatA | PARTIALX | 91.60 | 75.72 | WP_003242546.1 |
| IFMEFEAN_16 | 70921 | 73518 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.48 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| IFMEFEAN_124 | 1857 | 3038 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| IFMEFEAN_76 | 63427 | 64212 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| IFMEFEAN_124 | 232 | 1374 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| IFMEFEAN_16 | 18071 | 19834 | dep/capD | 0.0 | Capsule | Immune modulation | 98.98 | 100.00 | NP_389723 |
| IFMEFEAN_76 | 59602 | 60540 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.94 | 100.00 | NP_391077 |
| IFMEFEAN_55 | 1201 | 1842 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 98.91 | 100.00 | NP_390062 |
| IFMEFEAN_124 | 1393 | 1842 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| IFMEFEAN_76 | 62205 | 63401 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.75 | 100.00 | NP_391079 |
| IFMEFEAN_76 | 52446 | 59582 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.56 | 100.00 | NP_391076 |
| IFMEFEAN_76 | 60568 | 62187 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.28 | 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 |
|---|---|---|---|---|---|---|---|---|
| IFMEFEAN_45 | 28055 | 26919 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| IFMEFEAN_32 | 4533 | 5402 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| IFMEFEAN_4 | 73982 | 74758 | CodY | 1.27e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| IFMEFEAN_18 | 93967 | 94536 | ClpP | 8.34e-100 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| IFMEFEAN_72 | 23294 | 23686 | spxA1 | 4.11e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| IFMEFEAN_72 | 23294 | 23686 | spx | 2.45e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| IFMEFEAN_9 | 20501 | 20743 | SpoVG | 6.43e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| IFMEFEAN_35 | 2108 | 1911 | CspA | 3.36e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| IFMEFEAN_55 | 13073 | 13267 | CspD | 5.57e-29 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| IFMEFEAN_5 | 49220 | 49414 | CspB | 6.81e-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. |
|---|---|---|---|---|---|---|
| IFMEFEAN_49 | 9113 | 9607 | rep21 | 495 / 717 | 90.51 | FR821780 |
| IFMEFEAN_49 | 1410 | 1574 | Col(SD853) | 165 / 194 | 86.06 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| IFMEFEAN_1 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_2 | 1.0 | 0.0 | 1.0 |
| IFMEFEAN_3 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_4 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_5 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_6 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_7 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_8 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_9 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_10 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_11 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_12 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_13 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_14 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_15 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_16 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_17 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_18 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_20 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_21 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_22 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_23 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_24 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_25 | 1.0 | 0.0 | 1.0 |
| IFMEFEAN_26 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_27 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_28 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_29 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_30 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_31 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_32 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_33 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_34 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_35 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_36 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_37 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_38 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_39 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_40 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_42 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_43 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_44 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_45 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_46 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_47 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_48 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_49 | 1.0 | 0.0 | 1.0 |
| IFMEFEAN_50 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_51 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_52 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_53 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_54 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_55 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_56 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_57 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_58 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_59 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_60 | 1.0 | 0.0 | 1.0 |
| IFMEFEAN_61 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_62 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_63 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_64 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_65 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_66 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_67 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_68 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_69 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_70 | 1.0 | 0.0 | 1.0 |
| IFMEFEAN_72 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_73 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_74 | 1.0 | 0.0 | 1.0 |
| IFMEFEAN_75 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_76 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_77 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_78 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_79 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_80 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_81 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_82 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_83 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_84 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_85 | 1.0 | 0.0 | 1.0 |
| IFMEFEAN_86 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_87 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_88 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_89 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_90 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_91 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_92 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_93 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_94 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_95 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_96 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_97 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_98 | 1.0 | 0.0 | 1.0 |
| IFMEFEAN_99 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_100 | 1.0 | 0.0 | 1.0 |
| IFMEFEAN_101 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_102 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_103 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_104 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_105 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_106 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_107 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_108 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_109 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_110 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_111 | 1.0 | 0.0 | 1.0 |
| IFMEFEAN_112 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_113 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_114 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_115 | 1.0 | 0.0 | 1.0 |
| IFMEFEAN_116 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_117 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_118 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_119 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_120 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_121 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_122 | 1.0 | 0.0 | 1.0 |
| IFMEFEAN_123 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_124 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_125 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_126 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_128 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_129 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_132 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_133 | 1.0 | 0.0 | 1.0 |
| IFMEFEAN_135 | 1.0 | 0.0 | 1.0 |
| IFMEFEAN_136 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_137 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_138 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_139 | 1.0 | 0.0 | 1.0 |
| IFMEFEAN_140 | 0.0 | 1.0 | 0.0 |
| IFMEFEAN_142 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| IFMEFEAN_12 | 10178 | 20091 | False | Siphoviridae | VOG6513, VOG0275, VOG4602, VOG9667, VOG9667, VOG0650, VOG4552, VOG4603, VOG8233, VOG0186 |
| IFMEFEAN_12 | 22086 | 42621 | False | Siphoviridae | VOG1985, VOG0198, VOG0713, VOG4841, VOG4581, VOG1886, VOG0202, VOG4556, VOG4573, VOG4553, VOG5361, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG5910, VOG6163, VOG0801 |
| IFMEFEAN_18 | 3991 | 10406 | True | Siphoviridae | VOG1563, VOG0275, VOG0275 |
| IFMEFEAN_21 | 88677 | 114840 | False | Myoviridae | VOG0753, VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490 |
| IFMEFEAN_52 | 2213 | 24530 | False | Myoviridae | VOG0720, VOG4555, VOG4553, VOG4564, VOG4623, VOG1353, VOG1881, VOG1883, VOG1352, VOG4699, VOG6163, VOG1956, VOG1433, VOG1348, VOG0573, VOG4550, VOG4691, VOG4845, VOG7718, VOG3390, VOG4705, VOG5008, VOG0753, VOG0136, VOG4574, VOG10547 |
Phigaro v2.4.0 (Database: Jan. 2024 release)