TABLE 2.
Primers for PCR and oligonucleotides used in this study
| Primer | Sequencea (5′–3′) | Purpose |
|---|---|---|
| priG20T-F | agctGGCAGGGACGACGCCGGGGT | Point mutation |
| priG40T-F | agctCGGTGCTGCGGCAGGGACGACGCCGGGGTGCTCTACAATA | Point mutation |
| priG60T-F | agctGGCGCGCTTTCGGTGCTGCGGCAGGGACGACGCCGGGGTGCTCTACAATAACCCGGATGC | Point mutation |
| priG80T-F | agctTGGGGCAGAGGGCGCGCTTTCGGTGCTGCGGCAGGGACGACGCCGGGGTGCTCTACAATAACCCGGATGCCTGGGAATAT | Point mutation |
| priG20T-R | aattACCCCGGCGTCGTCCCTGCC | Point mutation |
| priG40T-R | aattTATTGTAGAGCACCCCGGCGTCGTCCCTGCCGCAGCACCG | Point mutation |
| priG60T-R | aattGCATCCGGGTTATTGTAGAGCACCCCGGCGTCGTCCCTGCCGCAGCACCGAAAGCGCGCC | Point mutation |
| priG80T-R | aattATATTCCCAGGCATCCGGGTTATTGTAGAGCACCCCGGCGTCGTCCCTGCCGCAGCACCGAAAGCGCGCCCTCTGCCCCA | Point mutation |
| proG20T-F | agctGTCCTACGGGTCGCTATGTG | Point mutation |
| proG40T-F | agctGCCTATAGCGTCCTACGGGTCGCTATGTGAATGCAACTAG | Point mutation |
| proG60T-F | agctTATAGTAGCAAGCCTATAGCGTCCTACGGGTCGCTATGTGAATGCAACTAGCGTATGAGG | Point mutation |
| proG80T-F | agctGGTGAGTACGTATAGTAGCAAGCCTATAGCGTCCTACGGGTCGCTATGTGAATGCAACTAGCGTATGAGGTTTCATATGA | Point mutation |
| proG20T-R | aattCACATAGCGACCCGTAGGAC | Point mutation |
| proG40T-R | aattCTAGTTGCATTCACATAGCGACCCGTAGGACGCTATAGGC | Point mutation |
| proG60T-R | aattCCTCATACGCTAGTTGCATTCACATAGCGACCCGTAGGACGCTATAGGCTTGCTACTATA | Point mutation |
| proG80T-R | aattTCATATGAAACCTCATACGCTAGTTGCATTCACATAGCGACCCGTAGGACGCTATAGGCTTGCTACTATACGTACTCACC | Point mutation |
| icpG20T-F | agctTTCCGGTGCAGGATGCAGAG | Point mutation |
| priG40T-F | agctGGTCGCGCTGTTCCGGTGCAGGATGCAGAGATTGCTCCGC | Point mutation |
| priG60T-F | agctCGACGTAAACGGTCGCGCTGTTCCGGTGCAGGATGCAGAGATTGCTCCGCTGGTTGATGC | Point mutation |
| priG80T-F | agctCTTATAGCGCCGACGTAAACGGTCGCGCTGTTCCGGTGCAGGATGCAGAGATTGCTCCGCTGGTTGATGCTTACCGTCGC | Point mutation |
| priG20T-R | aattCTCTGCATCCTGCACCGGAA | Point mutation |
| priG40T-R | aattGCGGAGCAATCTCTGCATCCTGCACCGGAACAGCGCGACC | Point mutation |
| priG60T-R | aattGCATCAACCAGCGGAGCAATCTCTGCATCCTGCACCGGAACAGCGCGACCGTTTACGTCG | Point mutation |
| priG80T-R | aattGCGACGGTAAGCATCAACCAGCGGAGCAATCTCTGCATCCTGCACCGGAACAGCGCGACCGTTTACGTCGGCGCTATAAG | Point mutation |
| F-del30proT1 | agctGTTAAAAACGCCATCAAGAAGGCTAAAGAGTGGTTAACGTGTTCAACATCATTGTGACCA | Gene deletion |
| R-del30proT1 | aattTGGTCACAATGATGTTGAACACGTTAACCACTCTTTAGCCTTCTTGATGGCGTTTTTAAC | Gene deletion |
| F-del40proT1 | agctGCTGGGGCGCGTTAAAAACGCCATCAAGAAGGCTAAAGAGTGGTTAACGTGTTCAACATCATTGTGACCAGCGCTATGCT | Gene deletion |
| R-del40proT1 | aattAGCATAGCGCTGGTCACAATGATGTTGAACACGTTAACCACTCTTTAGCCTTCTTGATGGCGTTTTTAACGCGCCCCAGC | Gene deletion |
| F-del50proT1 | agctGCTTGCAAGCGCTGGGGCGCGTTAAAAACGCCATCAAGAAGGCTAAAGAGTGGTTAACGTGTTCAACATCATTGTGACCAGCGCTATGCTGGTGCTGGGC | Gene deletion |
| R-del50proT1 | aattGCCCAGCACCAGCATAGCGCTGGTCACAATGATGTTGAACACGTTAACCACTCTTTAGCCTTCTTGATGGCGTTTTTAACGCGCCCCAGCGCTTGCAAGC | Gene deletion |
| Del1k40-F | agctGTACTCTGCTGCCTATCAAGTTCAACAAAGAGTCCGGCAACAACGATATTTGAGGTGGGGTATGCACGGAAAGAATCCTG | Gene deletion |
| Del1k40-R | aattCAGGATTCTTTCCGTGCATACCCCACCTCAAATATCGTTGTTGCCGGACTCTTTGTTGAACTTGATAGGCAGCAGAGTAC | Gene deletion |
| Del2k40-F | agctAATCATTAACTTTGAGGTGCAATATGAAATACAGAGATAATCGTGCCGGTCGAGCGTAGAATCCTCCGAGTTCGTAAGCA | Gene deletion |
| Del2k40-R | aattTGCTTACGAACTCGGAGGATTCTACGCTCGACCGGCACGATTATCTCTGTATTTCATATTGCACCTCAAAGTTAATGATT | Gene deletion |
| Delgp8-F | agctATTACCAGAAGGTGCAAACGCACTGCCAATGAAATGTTCGATGTTCTTGAATCCGCACGGGATTGATATGCAGCTGCTCT | Gene deletion |
| Delgp8-R | aattAGAGCAGCTGCATATCAATCCCGTGCGGATTCAAGAACATCGAACATTTCATTGGCAGTGCGTTTGCACCTTCTGGTAAT | Gene deletion |
| Delgp51-F | agctTCGTAAACTGTTCAGGAAGAAGGGGCAGCAGGATGATTAAATGAGTTTAAGGACTAAGGTTATTGCGGCCCTCACGGGGGCC | Gene deletion |
| Delgp51-R | aattGGCCCCCGTGAGGGCCGCAATAACCTTAGTCCTTAAACTCATTTAATCATCCTGCTGCCCCTTCTTCCTGAACAGTTTACGA | Gene deletion |
| pro80GG-F | agctGGTGAGTACGTATAGTAGCAAGCCTATAGCGTCCTACGGCGCTATGTGAATGCAACTAGCGTATGAGGTTTCATATGA | Small frameshift deletion |
| pro80GG-R | aattTCATATGAAACCTCATACGCTAGTTGCATTCACATAGCGCCGTAGGACGCTATAGGCTTGCTACTATACGTACTCACC | Small frameshift deletion |
| pri80GG-F | agctTGGGGCAGAGGGCGCGCTTTCGGTGCTGCGGCAGGGACGGCCGGGGTGCTCTACAATAACCCGGATGCCTGGGAATAT | Small frameshift deletion |
| pri80GG-R | aattATATTCCCAGGCATCCGGGTTATTGTAGAGCACCCCGGCCGTCCCTGCCGCAGCACCGAAAGCGCGCCCTCTGCCCCA | Small frameshift deletion |
| ICP80GG-F | agctCGCTTATAGCGCCGACGTAAACGGTCGCGCTGTTCCGGTGGGATGCAGAGATTGCTCCGCTGGTTGATGCTTACCGTCGC | Small frameshift deletion |
| ICP80GG-R | aattGCGACGGTAAGCATCAACCAGCGGAGCAATCTCTGCATCCCACCGGAACAGCGCGACCGTTTACGTCGGCGCTATAAGCG | Small frameshift deletion |
| H280GG-F | agctAAGAAGGGGCAGCAGGATGATTAAAGTAGGGGACATGGTTATCTGACCTCGCTACCCGGGCAGGTGCAGCAGTTACCGGC | Small frameshift deletion |
| H280GG-R | aattGCCGGTAACTGCTGCACCTGCCCGGGTAGCGAGGTCAGATAACCATGTCCCCTACTTTAATCATCCTGCTGCCCCTTCTT | Small frameshift deletion |
| gp280GG-F | agctATCATGACTAATTCAACTGGTAAAGTATTCAAGTTAACTGGCTGGCAGCATTCGTAAAGCTCTGGGCGATGTAGTGGAAG | Small frameshift deletion |
| gp280GG-R | aattCTTCCACTACATCGCCCAGAGCTTTACGAATGCTGCCAGCCAGTTAACTTGAATACTTTACCAGTTGAATTAGTCATGAT | Small frameshift deletion |
| In40RFP-F | CCGgaattcGCTGGGGCGCGTTAAAAACGCCATCAAGAAGGCTAAAGAGGACTGGAAAGCGGGCAGTGA | Gene swap |
| In40RFP-R | GCtctagaAGCATAGCGCTGGTCACAATGATGTTGAACACGTTAACCATTAAGCACCGGTGGAGTGACG | Gene swap |
| In50RFP-F | CCGgaattcGCTTGCAAGCGCTGGGGCGCGTTAAAAACGCCATCAAGAAGGCTAAAGAGGACTGGAAAGCGGGCAGTGA | Gene swap |
| In50RFP-R | GctctagaGCCCAGCACCAGCATAGCGCTGGTCACAATGATGTTGAACACGTTAACCATTAAGCACCGGTGGAGTGACG | Gene swap |
| In60RFP-F | CCGgaattcGATGCAGTGCGCTTGCAAGCGCTGGGGCGCGTTAAAAACGCCATCAAGAAGGCTAAAGAGGACTGGAAAGCGGGCAGTGA | Gene swap |
| In60RFP-R | GCtctagaTTACGTCGTTGCCCAGCACCAGCATAGCGCTGGTCACAATGATGTTGAACACGTTAACCATTAAGCACCGGTGGAGTGACG | Gene swap |
| F-sgRNA | GAGTCAGCTAGGAGGTGACTAAC | Spacer cloning check |
| R-sgRNA | TGCCATTGGGATATATCAACGG | Spacer cloning check |
| Test-Pro-F | GCTGGGCATCGAACTGGAC | Phage mutant check |
| Test-Pro-R | GCATCAGCAGCGTCTCAGG | Phage mutant check |
| F-priNT3 | CCGACCGCACCTATACGGTC | Phage mutant check |
| R-priNT3 | ACGACACCGCATGAACGGAC | Phage mutant check |
| F-icpNT1 | GCCCAAGCTATGCTGGACGG | Phage mutant check |
| R-icpNT1 | TGCTGCCGGATTCTCGTACG | Phage mutant check |
| F2-Ba7 | CGGCTAACCTGGGCACTACC | Phage mutant check |
| R2-Ba7 | CGGAAGTCTACGCCGTTGCc | Phage mutant check |
| Holin-F | GTTACAGTCTTATCCTCGCCGG | Phage mutant check |
| Holin-R | GTCTTTGTAGGCGGTAAGGCTC | Phage mutant check |
| F-Ba7 | GTTCCACGGTAGTGCAGTGGG | Phage mutant check |
| R-gp8 | GTGCATACCACTACCCAGCGC | Phage mutant check |
a
Lowercase letters represent sticky ends or restriction enzyme sites.