Table 1.
Detection of enriched prophages from extra-chromosomal DNA sequencing.
| Strain | Resistances | #Prophage regions | Notes |
|---|---|---|---|
| Enriched prophage elements detected | |||
| BK2529 | MRSA | 3 | • One enriched prophage: Sa7-like integrase, intergenic between rpmF and isdB |
| HPV107 | MRSA | 3 | Three enriched prophages: • Sa2-like integrase, intragenic in RL05_04730 (6-phospho-β-galactosidase) • Sa3-like integrase, hlb-converting phage (ϕHPV107.1) • Unclear integrase type, intergenic between RL05_02285 (tRNA-Ser) and RL05_01940 (enterotoxin) |
| MSSA476 | MSSA | 2 | • ΦSa4ms enriched, integrates 30 bp upstream of htrA2
• ΦSa3ms not enriched, hlb-converting |
| NRS22 | VISA/MRSA | 4 | Three enriched prophages: • Sa2-like integrase, intragenic in RK87_02365 (hypothetical protein) • Sa5-like integrase, intragenic in RK87_04825 (radical SAM) • Sa7-like integrase, intergenic between rpmF and isdB |
| NRS143 | MSSA | 2 | • One enriched prophage: Sa6-like integrase, geh-converting |
| Unclear enriched prophage elements | |||
| NRS2 | VISA/MRSA | 2 | • Unclear enrichment of Sa7-like integrase prophage, intergenic between rpmF and isdB |
| NRS153 | MSSA | 3 | • Unclear enrichment of Sa1-like integrase prophage, intergenic between sufB and RK79_06750 (transposon-encoded integrase) |
| NRS387 | MRSA | 1 | • Unclear enrichment of Sa3-like integrase prophage, hlb-converting |
| No enriched prophage elements detected | |||
| BAA-42 | MRSA | 3 | |
| E2125 | MRSA | 3 | |
| HDE288 | MRSA | 3 | |
| NRS127 | MRSA | 5 | |
| NRS156 | MSSA | 1 | |
| NRS158 | MSSA | 2 | |
| NRS271 | MRSA | 2 | • Enriched ICE (ICE6013-like) within RK77_00405 (membrane protein) |
Relevant resistances (MSSA, MRSA, VISA, VRSA) and total number of predicted chromosomal prophages for each strain are listed.