TABLE 1.
Oligonucleotide primers used in this study
| Primer namea | Primer sequence (5′–3′) | Target gene in D39 (reference) |
|---|---|---|
| SPD0049RTF | GAGACGCGAGCCATTAAGG | comA |
| SPD0049RTR | GGGATCTGGATCGGCAATATGA | |
| SPD0065RTF | GGACCTCTTTGTAACAGGAA | bgaC |
| SPD0065RTR | CATCTGCCAATTCCTTAGGA | |
| SPD0265RTF | CCTTGCAAAAGAAGTAGGCG | adh |
| SPD0265RTR | AGCACGAATGGAGTCAACAG | |
| SPD0287RTF | GGATTTTTATTAAACCATTAT | hyl |
| SPD0287RTR | TGCTTCCGTCCTCCGTCTGAC | |
| SPD0323RTF | TCACTTTATCGTTATGGACTGGC | cps2H |
| SPD0323RTR | CTCAAGTAACTATTGACACCACC | |
| SPD0420RTF | TGGTGTTTACGCACGTCTTG | pflB |
| SPD0420RTR | CATCAACCCCGTAAAGGTCAC | |
| SPD0420F | GACAGTTGTTGAAGCACAAG | pflB |
| SPD0420R | CTCAATGCATCCAAGGCATC | |
| SPD0636RTF | CGTCACCTTCACATGACACC | spxB |
| SPD0636RTR | CATGTTGAATGCTCCGTCAC | |
| SPD0709RTF | TCGTGTGGCTGCCAAGCGTG | gyrB |
| SPD0709RTR | GGCTGATCCACCAGCTGAGTC | |
| SPD1126RTF | TCAACTATACTTTGCCAGAAGC | adh |
| SPD1126RTR | CCATCACCACCACAACATTC | |
| SP1078F | CCAAAATTCCCATGACCATC | ldh |
| SP1078R | AAAGAGGCCTTTCCAAATCC | |
| SPD1078RTF | TGCAGCTCAATACTCTGAC | ldh |
| SPD1078RTR | GTTAGCAGCAACAAGGAAG | |
| LDHNcoI | CGCCATGGTGCCTCATTTCACAATTAG | ldh |
| LDHBamHI | ACGGGATCCTTAGTTTTTAGAAGCTTCTTGG | |
| SPD1504RTF | CGTCGTCATCACTGTAGG | nanA |
| SPD1504RTR | CAGACTATCGCGTTGTTG | |
| SPD1726RTF | AACGACAGTCGCCTCTATCC | ply |
| SPD1726RTF | AGAAAGCTATCGCTACTTGCC | |
| SPD1834RTF | TGATCGTTACTGACCATGCC | adh |
| SPD1834RTR | GCACGCATAATCTCAGTACC | |
| SPD1865RTF | AGTTATTCGCAAGCCAACAG | adh |
| SPD1865RTR | CAACAATCCCAATCCCTTCG | |
| MP 127 | CCGGGGACTTATCAGCCAACC | pR412-specific target (36) |
| MP 128 | TACTAGCGACGCCATCTATGTG | pR412-specific target (36) |
| MALF | GCTTGAAAAGGAGTATACTT | NAb |
| PCEPR | AGGAGACATTCCTTCCGTATC | NA |
a
Primers with an F or R tag were used for amplification of gene targets for mutational work, while those with RTF or RTR tags were utilized for gene expression analysis.
b
NA, not applicable; the recognition sites for MalF and pCEPR are in pCEP (19).