TABLE 3

Primers used in this study

OligonucleotideSpecificityOrientationSequencea
Δ1124-aPGN_1124 upstream flanking sequenceForwardAGACTCAATAGCAGATCGACG
Δ1124-bPGN_1124 upstream flanking sequenceReverseTTCATACCGCCCAAGgatCCTGTTGCTGTCATA
Δ1124-cPGN_1124 downstream flanking sequenceForwardTATGACAGCAACAGGatcCTTGGGCGGTATGAA
Δ1124-dPGN_1124 downstream flanking sequenceReverseGACCCAAACATCCATTCGG
Δ1124-confirmPGN_1124ReverseTCTCATACATGGCACGCAT
Δ1123-aPGN_1123 upstream flanking sequenceForwardATGCGTGCCATGTATGAGA
Δ1123-bPGN_1123 upstream flanking sequenceReverseGGACTGTCAAAGGAGgatcCTAAGCACAGCAGG
Δ1123-cPGN_1123 downstream flanking sequenceForwardCCTGCTGTGCTTAGgatcCTCCTTTGACAGTCC
Δ1123-dPGN_1123 downstream flanking sequenceReverseCCGTAACCGGGTACGAT
Δ1123-confirmPGN_1123ReverseGACCCAAACATCCATTCGG
Δkgp-akgp upstream flanking sequenceForwardatccatggACGCCCGATACCCATACTC
Δkgp-bkgp upstream flanking sequenceReverseCACAAAGTCTCCGAGTggatccATTCAGAGAACCACG
Δkgp-ckgp downstream flanking sequenceForwardCGTGGTTCTCTGAATggatccACTCGGAGACTTTGTG
Δkgp-dkgp downstream flanking sequenceReversetatgtcgacAACAGGTTGTCCGTCAGC
Δkgp-confirmkgpReverseAACTTCCTAACTGCTGGCAC
ΔTn1-aTn1 upstream flanking sequenceForwardAAGGCTTGATGCTGAAGACC
ΔTn1-bTn1 upstream flanking sequenceReverseGTCATTTCTTATTAAGAATAggatccTATTTACGTTGCGAGC
ΔTn1-cTn1 downstream flanking sequenceForwardGCTCGCAACGTAAATAggatccTATTCTTAATAAGAAATGAC
ΔTn1-dTn1 downstream flanking sequenceReverseTCTTTGCCGGCATCTTTGC
1123-startPGN_1123ForwardataggcctATGAGATTCTCTGCCATTATTATCG
1123-stopPGN_1123ReverseattctaGAGGAATCCACTCGCAAATATC
SJ59ermF promoterForwardggaattcggccgCCGATAGCTTCCGCTATTG
SJ60ermF promoterReversetaggtaccaggcctGTAACTTCTTACAGGTGAATAC
  • a Lowercase indicates bases that add or complete a restriction site.