Probiotic potential risk score
| ARGs (CARD) | VFs (VFDB) | PGs (PHI-base) | PPRS |
|---|---|---|---|
| 2 | 22 | 28 | 35.67 |
PPRS is classified as low-risk (≤4), medium-risk (4-6), and high-risk (≥6).
Antibiotic resistance genes
Comprehensive Antibiotic Resistance Database (CARD)
| ARO accession | ARO name | Identity | Coverage | CARD name | Accession no. |
|---|---|---|---|---|---|
| ARO:3000186 | tet(M) | 99.37 | 100.00 | tet(M) | AB039845.1 |
| ARO:3000375 | ErmB | 97.96 | 98.79 | ErmB | AF242872.1 |
RGI v6.0.0 (Database: CARD Variants v4.0.0, Jul. 2022 release)
ResFinder
| Resistance gene | Identity | Coverage | Phenotype | Accession no. |
|---|---|---|---|---|
| erm(B) | 100.00 | 100.00 | Macrolide resistance | U86375 |
| mef(A) | 100.00 | 100.00 | Macrolide resistance | U83667 |
| msr(D) | 99.93 | 100.00 | Macrolide, Lincosamide and Streptogramin B resistance | AF274302 |
| tet(M) | 99.90 | 100.00 | Tetracycline resistance | X75073 |
ResFinder v4.0 (Database: resfinder_db, May 2022 release)
AMRFinderPlus
| Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|
| erm(B) | 23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(B) | EXACTX | 100.00 | 100.00 | WP_001038790.1 |
| mef(A) | macrolide efflux MFS transporter Mef(A) | EXACTX | 100.00 | 100.00 | WP_000417519.1 |
| tet(M) | tetracycline resistance ribosomal protection protein Tet(M) | EXACTX | 100.00 | 100.00 | WP_000691727.1 |
| msr(D) | ABC-F type ribosomal protection protein Msr(D) | BLASTX | 99.79 | 100.00 | WP_000420313.1 |
AMRFinderPlus v3.10.42 (Database: Oct. 2022 release)
Virulence factors
Virulence Factor Database (VFDB)
BLASTN v2.8.1+ (Database: VFDB, Jun. 2022 release)
VirulenceFinder
| Database | Virulence factor | Identity | Coverage | Protein function | Accession no. |
|---|---|---|---|---|---|
| No hit found | |||||
VirulenceFinder v2.0.3 (Database: virulencefinder_db, Dec. 2022 release)
Pathogenic genes
PHI-base
| Protein ID | Gene name | Identity | Coverage | e-value | Function | Gene ID |
|---|---|---|---|---|---|---|
| Q1JLQ2 | MntE | 96.09 | 99.44 | 0.0 | Manganese Homeostasis | ABF32167 |
| P67331 | spr0084 | 92.57 | 98.18 | 0.0 | pathogenitcity related | AAK98888 |
| Q97S31 | metE | 92.39 | 99.87 | 0.0 | Methionine biosynthesis enzymes | AAK74738 |
| Q1J943 | prsA2 | 91.88 | 98.46 | 0.0 | Ribose-phosphate pyrophosphokinase | ABF36968 |
| Q99Z66 | ptsI | 89.95 | 99.83 | 0.0 | Phosphoenolpyruvate-protein phosphotransferase | AAK34199 |
| Q8DPC2 | potA | 89.84 | 99.48 | 0.0 | ABC transporter ATP-binding protein - spermidine/putrescine transport | AAL00050 |
| Q8DYL6 | uvrB | 89.44 | 99.85 | 0.0 | Excinuclease ABC, B subunit | AE014259_2 |
| Q97S30 | metF | 88.11 | 98.96 | 0.0 | Methionine biosynthesis enzymes | AAK74739 |
| P0C0B9 | bglB | 87.88 | 99.33 | 0.0 | Putative phospho--glucosidase | AAK33487 |
| D5AF41 | IMPDH | 87.42 | 99.80 | 0.0 | Inosine-5'-monophosphate dehydrogenase | ADE32434 |
| A4VWH9 | Eno | 86.44 | 99.54 | 0.0 | Enolase | ABP90468 |
| P0A452 | recA | 85.19 | 98.46 | 0.0 | DNA recombination and repair | AAL00560 |
| B5TQV9 | PGM | 84.94 | 99.48 | 0.0 | phosphoglucomutase | ACH87041 |
| A4VYE0 | gidA | 84.94 | 98.75 | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | ABP91129 |
| Q97RW0 | SP_0676 | 83.44 | 93.50 | 0.0 | Transcription facot | AAK74821 |
| A4VY17 | pdh | 82.79 | 99.41 | 0.0 | Pyruvate dehydrogenase | ABP91006 |
| A4VWD1 | mnmE | 82.46 | 99.34 | 0.0 | Central tRNA-modifying GTPase | ABP90420 |
| Q93MY4 | covR | 85.53 | 99.58 | 4.45e-151 | Responder protein | AAK71319 |
| Q9S1K2 | rr01 | 84.82 | 99.12 | 2.14e-145 | Response regulator | CAB54566 |
| P0A4H7 | CiaR | 87.00 | 99.11 | 5.18e-143 | Two-component response regulator | AAK74935 |
| B3VA60 | CovR | 81.66 | 99.56 | 1.37e-137 | serves to repress GAS virulence factor-encoding genes | ACE75886 |
| U2W9V3 | SpxA2 | 91.67 | 99.25 | 1.84e-88 | Transcriptional regulator | ERL21461 |
| U2UML5 | SpxA1 | 82.84 | 99.26 | 1.77e-82 | Transcriptional regulator | ERL19273 |
| Q8DQV4 | spr0479 | 85.42 | 97.96 | 6.93e-58 | essential gene | AAK99283 |
| Q8DP67 | spr1327 | 92.94 | 98.84 | 1.79e-54 | essential gene | AAL00131 |
| Q8CZ89 | spr0175 | 85.23 | 98.88 | 4.22e-52 | pathogenitcity related | AAK98979 |
| Q8DRE1 | spr0177 | 83.15 | 87.25 | 1.62e-50 | essential gene | AAK98981 |
| Q04M32 | ilvC (SPD_0406) | 97.35 | 99.71 | 0.0 | Ketol-acid reductoisomerase (NADP(+)) | ABJ55451 |
BLASTP v2.8.1+ (Database: PHI-base v4.14, Nov. 2022 release)
Plasmid
PlasmidFinder
| Plasmid | Identity | Query / Template | Accession no. |
|---|---|---|---|
| repUS43 | 99.83 | 1206 / 1206 | CP003584 |
PlasmidFinder 2.0.1 (Database: plasmidfinder_db, Jan. 2023 release)
Prophage
Phigaro
| Scaffold | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| CP020451.2 | 1083869 | 1159865 | False | Siphoviridae | VOG0221, VOG4757, VOG4602, VOG0743, VOG6495, VOG7236, VOG7526, VOG4908, VOG0651, VOG5996, VOG8355, VOG1309, VOG0685, VOG0226, VOG4693, VOG0655, VOG3468, VOG0656, VOG0152, VOG0657, VOG0658, VOG0198, VOG0796, VOG4544, VOG0691, VOG0692, VOG4555, VOG4572, VOG0695, VOG0697, VOG8357, VOG0701, VOG3636, VOG3636, VOG4633, VOG4828, VOG5008, VOG0641, VOG0054, VOG5034, VOG7557, VOG7235, VOG10230, VOG0221, VOG4757, VOG4602, VOG0743, VOG6495, VOG7236, VOG7526, VOG4908, VOG0651, VOG5996, VOG8355, VOG1309, VOG0685, VOG0226, VOG4693, VOG0655, VOG3468, VOG0656, VOG0152, VOG0657, VOG0658, VOG0198, VOG0796, VOG4544, VOG0691, VOG0691, VOG0692, VOG0692, VOG4555, VOG4572, VOG0695, VOG0696, VOG0697, VOG0698, VOG8357, VOG0701, VOG3636, VOG4633, VOG4828, VOG5008, VOG0641, VOG0054, VOG5034, VOG7557, VOG7235, VOG10230, VOG3946 |
Phigaro v2.3.0 (Database: Aug. 2017 release)