KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Bacterial and Virus Strains | ||
| ΦN4220 | Kreiswirth et al., 1983 | N/A |
| sPM02 | This paper | N/A |
| TB4 | Bae et al., 2006 | N/A |
| ΦNM4γ4 | Goldberg et al., 2014 | N/A |
| ΦFNM4γ4-ΔdnaC | This paper N/A | |
| ΦFNM4γ4-ΔBglII | This paper | N/A |
| ΦFNM4γ 4-BglIIAB | This paper | N/A |
| ΦFNM4γ 4-BglIIAC | This paper | N/A |
| ΦFNM4γ 4-BglIIB | This paper | N/A |
| ΦFNM4γ 4-BglIIC | This paper | N/A |
| ΦFNM4γ4-I-sceI | This paper | N/A |
| ΦF12γ3 | Modell et al., 2017 | N/A |
| ΦF12ρ1 | This paper | N/A |
|
Chemicals, Peptides, and Recombinant Proteins | ||
| Brain-Heart Infusion (BHI) Broth | Becton Dickson | Catalog No. 238400 |
| BglII Restriction Enzyme | New England Biolabs | Catalog No. R0144 |
| BsrBI Restriction Enzyme | New England Biolabs | Catalog No. R0102 |
| BssHII Restriction Enzyme | New England Biolabs | Catalog No. R0199 |
| DNase I | Sigma | Catalog No. AMPD1-1KT |
| Heart Infusion (HI) Agar | Becton Dickson | Catalog No. 244400 |
| Lysostaphin | Ambi Products | Catalog No. LSPN-50 |
| Lysozyme | Sigma-Aldrich | Catalog No. L6876 |
| N-Lauroylsarcosine Sodium Salt | Sigma-Aldrich | Catalog No. L9150 |
| Phenol/Chloroform/Isoamyl Alcohol | Fisher Scientific | Catalog No. BP1752I-400 |
| Sodium Acetate Anhydrous | Fisher Scientific | Catalog No. S210-500 |
|
Critical Commercial Assays | ||
| 2 % Agarose Gel Cassette, Pippin HT | Sage Science | Catalog No. HTC2010 |
| Amicon®Ultra-15 Centrifugal Filter Unit | Millipore | Catalog No. UFC9100 |
| EpiTect Bisulfite Kit | Qiagen | Catalog No. 59104 |
| Fast SYBR™ Green Master Mix | Applied Biosystems | Catalog No. 4385612 |
| Minelute PCR Purification Kit | Qiagen | Catalog No. 28004 |
| MiSeq reagent Kit v3 (150-cycle) | Illumina | Catalog No. MS-102-3001 |
| NovaSeq SP Reagent kit (500-cycle) | Illumina | Catalog No. 20029137 |
| Phusion High-Fidelity PCR Kit | Thermo Fisher Scientific | Catalog No. F530 |
| QIAprep Spin Miniprep Kit | Qiagen | Catalog No. 27104 |
| QIAquick Gel Extraction Kit | Qiagen | Catalog No. 28115 |
| TopTaq PCR Kit | Qiagen | Catalog No. 200403 |
| TruSeq Nano DNA LT Library Prep Kit | Illumina | Catalog No. 20015964 |
|
Deposited Data | ||
| Next-generation Sequencing Files | This paper | PNRJNA782062 |
| Unprocessed images | This paper; Mendeley Data | https://doi.org/10.17632/gnhrzd5sny.1 |
|
Oligonucleotides | ||
| See Methods S1 | This paper | N/A |
|
Recombinant DNA | ||
| pAV268 | This paper | N/A |
| pC194 | Horinouchi and Weisblum, 1982a | N/A |
| pDB114 | Bikard et al., 2014 | N/A |
| pE194 | Horinouchi and Weisblum, 1982b | N/A |
| pGG32 | Heler et al., 2015 | N/A |
| pJW215 | Modell et al., 2017 | N/A |
| pJW237 | This paper | N/A |
| pJW241 | This paper | N/A |
| pJW250 | This paper | N/A |
| pJW259 | Modell et al., 2017 | N/A |
| pLM9B | Jiang et al., 2013b | N/A |
| pLZ12 | Perez-Casal et al., 1991 | N/A |
| pPM48 | This paper | N/A |
| pPM49 | This paper | N/A |
| pPM61 | This paper | N/A |
| pPM82 | This paper | N/A |
| pPM96 | This paper | N/A |
| pPM98 | This paper | N/A |
| pPM116 | This paper | N/A |
| pPM117 | This paper | N/A |
| pPM118 | This paper | N/A |
| pPM120 | This paper | N/A |
| pPM134 | This paper | N/A |
| pPM135 | This paper | N/A |
| pPM166 | This paper | N/A |
| pPM167 | This paper | N/A |
| pPM168 | This paper | N/A |
| pPM169 | This paper | N/A |
| pPM170 | This paper | N/A |
| pPM171 | This paper | N/A |
| pPM176 | This paper | N/A |
| pPM177 | This paper | N/A |
| pPM179 | This paper | N/A |
| pPM180 | This paper | N/A |
| pPM212 | This paper | N/A |
| pPM235 | This paper | N/A |
| pT181 | Khan and Novick, 1983 | N/A |
| pWJ244 | Modell et al., 2017 | N/A |
| pWJ326 | Modell et al., 2017 | N/A |
|
Software and Algorithms | ||
| Illustrator | Adobe | N/A |
| Prism 9 | GraphPad | N/A |
| Python scripts for NGS data (Maguin_etal_2022-v1.0) |
This paper | https://doi.org/10.5281/zenodo.5831938 |