Table 1.

E. coli strains, phages, plasmids, and oligonucleotides

Strain, phage, plasmid, or oligonucleotideRelevant genotype, description, or sequenceReference or source
Strains
 SP1312Fzah-735::Tn10Δ(argF-lac)U16918
 SP1313Fzah-735::Tn10Δ(argF-lac)U169 ΔtyrR18
 SP1626As SP1312 but with Δcrp-39 rpsL136This work
 SP1627As SP1313 but with Δcrp-39 rpsL136This work
 SP1628As SP1312 but withhimD::CmThis work
 SP1629As SP1313 but withhimD::CmThis work
 SP1630As SP1626 but withhimD::CmThis work
 SP1631As SP1627 but withhimD::CmThis work
 NK5031Δ(lacIZY)MS265 gyrA supF34
 CA8439λrelA1 rpsL136 Δcrp-39 spoT1 ΔcyaA854 thi-144
 CA8445Δcrp-45 Δcya-854 strA (=rpsL)thi44
 CSH26(λRZ11)ara Δ(lac-pro)thiplac5 cI857Sam7)63
 BW12848lac-169 hip(himD)::cat pho-510 thiB. Wanner
 XL1-BluerecA1 endA1 gyrA96 thi-1 hsdR17 supE44 relA1 lac [F′ proAB lacIqZΔM15 Tn10(Tetr)]Stratagene
 BL21(DE3)FompT (lon) hsdSB(rB mB) with DE3, a λ prophage carrying the T7 RNA polymerase gene52
Phages
 λHQS10tpl-lacZ reporter; Ptpl-lacZ+50
 λHQS10mut1tpl-lacZ reporter with G→A mutation in box A50
 λHQS10mut2tpl-lacZ reporter with G→A mutation in box B50
 λHQS10mut3tpl-lacZ reporter with G→A and C→T mutations in box CThis work
 λHQS10mut2,3tpl-lacZ reporter with G→A mutation in box A and with G→A and C→T mutations in box CThis work
 λHQS10Δ64tpl-lacZ reporter with 64-nucleotide deletion50
 λHQS10Δ130tpl-lacZ reporter with 130-nucleotide deletion50
 λHQS10Δ64Ctpl-lacZ reporter with 64-nucleotide deletion; box C replaced by box AThis work
 λHQS10Δ179Ctpl-lacZ reporter with 179-nucleotide deletion; box C replaced by box AThis work
 λHQS10IHFmuttpl-lacZ reporter; T→C and A→C mutations in IHF siteThis work
Plasmids
 pHA5Derived from pBR322; insert of 3.6-kb BamHI fragment containing crp gene and promoterR. Ebright
 pXZCRPDerived from pHA5 by inserting an EcoRI fragment of 500 bp containing the f1 originR. Ebright
 pJC100pET3a-tyrR+51
 pJC136pACYC184-tyrR+This work
 pET3aT7 vector43
 pHNβαDerivative of pHX3-8 by conditional digestion ofHindIII which yield incomplete digests28
 pHNβ2αDerivative of pHNβα, containing two copies of himD gene28
 pUC19Cloning vector63
 pUC19tplWild-type tpl promoter in pUC1950
 pUC19tplmut1G→A change in box A of the tpl promoter in pUC1950
 pUC19tplΔ6464-nucleotide deletion derivative of pUC19tplThis work
 pUC19tplΔ64C64-nucleotide deletion; box C is replaced by box A of tpl promoter in pUC19tplThis work
 pUC19tplΔ179179-nucleotide deletion derivative of pUC19-tpl50
 pUC19mut3G→A and C→T changes in box C of tplpromoterThis work
 pUC19mut1,3G→A in box A; G→A and C→T changes in box C of tpl promoterThis work
 pUC19mut2,3G→A in box B; G→A and C→T changes in box C of tpl promoterThis work
 pUC19tplIHFmutT→C and A→C mutations in IHF siteThis work
 pMLB1034Promoterless lacZ6
 pMLB1034tplmut3G→A and C→T changes in box C oftpl promoter in pMLB1034This work
 pMLB1034tplmut2,3G→A in box B; G→A and C→T changes in box C of tpl promoter in pMLB1034This work
 pMLB1034tplIHFmutT→C and A→C mutations in IHF siteThis work
 pMLB1034tplΔ64C64-nucleotide deletion; box C is replaced by box A of tpl promoter in pMLB1034This work
 pMLB1034tplΔ179C179-nucleotide deletion; box C is replaced by box A of tpl promoter in pMLB1034This work
Oligonucleotides
 351KGCTGTAAATATAGGTGATGCAAATTACACGTC
 352KGACGTGTAATTTGCATCACCTATATTTACAGC
 488KCGGGTAAAAAAATGACGTGTGTAAAGCATCATTTACATTTACAGC
 489KGCTGTAAATGTAAATGATGCTTTACACACGTCATTTTTTTACCCG
 IHFcCACGCAAAAAAAAACTTGTCGACTATGAACGGG
 IHFdCCCGTTCATAGTCGACAAGTTTTTTTTTGCGTG