Table 2.

Oligonucleotides used for the PCR amplifications

Primer5′- or 3′-linked restriction site sequenceNucleotide sequenceaCoordinatesbor source
Amplification of deoR
 15′BamHI5′-CGCGGATCC ATGGATCGGGAAAAACAG-3′4052107–4052088
 25′HindIII5′-GCCG AAGCTT TCACAAATCATTAACAAG-3′4051166–4051187
 35′PstI5′-GAACTGCAG ATTAAAGAGGAGAAATTAAC-3′Qiagen
Mobility shift assay
 45′EcoRI5′-GCCG GAATTC GTGACACGTTCAAACCTT-3′−80
 55′KpnI5′-GCCG GGTACC ATCCTTCGCACACTTCC-3′+30
 65′KpnI5′-CGGC GGTACC CTTTTGAACATATGTAAATTGGTAATTG-3′−19
 75′EcoRI5′-GCCG GAATTC TTCAATTACCAATTTACATATG-3′−48
 85′KpnI5′-CGGC GGTACC CATATGTAAATTGGTAATTG-3′−27
 95′EcoRI5′-GCCG GAATTC CCTTTCATTGAACAAAATTTCAATTACC-3′−66
  • a Italic letters indicate nucleotides of the linker sequences. Underlined letters indicate nucleotides of the restriction site sequence.

  • b The number indicates the position of the 5′-proximal nucleotide (14) of the primer except for primers 1 and 2, for which the nucleotide numbering of genome sequence (5) has been used.