. 2012 Feb 16;8(2):e1002518. doi: 10.1371/journal.ppat.1002518

Table 1. Bacterial strains and plasmids.

Strains, Plasmids	Description	Source and reference
Bacterial strains
E. coli K-12
CC118 λpir	F⁻ Δ(ara-leu)7697 Δ(lacZ)74 Δ(phoA)20 araD139	[82]
	galE galK thi rpsE rpoB arfE ^am recA1, λpir
BL21 λDE3	F⁻ ompT gal dcm lon hsdSB(r_B ⁻ m_B ⁻) gal λDE3	[83]
KB1	BL21 λDE3 (ΔstpA)	This work
KB3	KB1 (Δhns)	This work
KB4	KB3 (Δhha)	This work
Y. pseudotuberculosis
IP32953	pYV, wildtype	[84]
YPIP01	IP32953, yscW-lcrF (UU-28/-27CC)	This work
YPIP02	IP32953, yscW-lcrF (GUU-30/-28AAA)	This work
YPIII	pIB1, wildtype	[85]
YP50	YPIII, ΔymoA, Kn^R	This work
YP66	YPIII, ΔlcrF, Ap^R	This work
YP82	YPIII, yscW-lcrF (AG-46/-45CC), Kn^R	This work
YP83	YPIII, yscW-lcrF (UU-28/-27CC), Kn^R	This work
YP84	YPIII, yscW-lcrF (GUU-30/-28AAA), Kn^R	This work
YP85	YPIII, yscW-lcrF (AUA-36/-34CCC), Kn^R	This work
YP86	YPIII, yscW-lcrF (Δloop1 −111/−57), Kn^R	This work
YP90	YPIII, yscW-lcrF (UU-28/-27CC)	This work
YP94	YPIII, yscW-lcrF (Δloop2 −44/−25)	This work
YP95	YPIII, yscW-lcrF (GUU-30/-28AAA)	This work
YP96	YPIII, yscW(Δ271–651)-lcrF	This work
Plasmids
pACYC177	cloning vector, p15A, Ap^R, Kan^R	[86]
pACYC184	cloning vector, p15A, Cm^R, Tet^R	[86]
pAKH11	pET28, hns ⁺, Kn^R	[76]
pAKH71	pACYC184, ymoA ⁺, Cm^R	This work
pAKH74	pACYC184, hns+, Cm^R	[74]
pAKH77	pASK-IBA5plus, ymoA ⁺, Ap^R	This work
pASK-IBA5plus	tetR, tet p/o, N-terminal-Strep-Taq-fusion, Ap^R	IBA GmbH
pBAD18-lacZ(481)	pBAD18, P_BAD::lacZ, Ap^R	[55]
pBO1817	pUC18, T7-lcrF′ (−123 to 10), Ap^R	This work
pBO1818	pUC18, T7-lcrF′ (−123 to 63), Ap^R	This work
pBO1823	pUC18, T7-lcrF′ (−123 to 10, UU-28/-27CC), Ap^R	This work
pBO1824	pUC18, T7-lcrF′ (−123 to 63, GUU-30/-28AAA), Ap^R	This work
pBO1833	pUC18, T7-lcrF′ (−123 to 63, UU-28/-27CC), Ap^R	This work
pBO1855	pUC18, T7-lcrF′ (−123 to 10, GUU-30/-28AAA), Ap^R	This work
pCP20	FLP recombinase expression vector, Ap^R, Cm^R	[75]
pDM4	R6K derivative, sacB, Cm^R	Debra Milton
pED05	pBAD18-lacZ(481), P_BAD::gnd-lacZ, Ap^R	This work
pED06	pKB14, P_BAD::lcrF-lacZ (AG-46/-45CC)^a, Ap^R	This work
pED07	pKB14, P_BAD::lcrF-lacZ (GUU-30/-28AAA)^a, Ap^R	This work
pED08	pKB14, P_BAD::lcrF-lacZ (UU-28/-27CC)^a, Ap^R	This work
pED10	pBAD18, yscW-lcrF-lacZ (+269^b; +74^a), Ap^R	This work
pED11	pBAD18, yscW-lcrF-lacZ (+510^b; +74^a), Ap^R	This work
pED13	pKB14, P_BAD::lcrF-lacZ (AUA-36/-34CCC)^a, Ap^R	This work
pET28a	T7 overexpression vector, Kn^R	Novagen
pFU68	pSC101, lacZ*, Ap^R	[87]
pGP20	pSC101, promoterless lacZ gene, Tet^R	P. Gerlach
pKB10	pGP20, yscW-lacZ (−310 to +281)^b, Ap^R	This work
pKB12	pGP20, yscW(Δ378–564)-lcrF-lacZ, Tet^R	This work
pKB13	pBAD18, lcrF-lacZ (Δloop2 −44/−25)^a, Ap^R	This work
pKB14	pBAD18-lacZ(481), P_BAD::lcrF-lacZ (−124;+74)^b, Ap^R	This work
pKB18	pKB14, P_BAD::lcrF-lacZ (Δloop1 −111/−57)^a, Ap^R	This work
pKB34	pTS02, yscW-lcrF-lacZ (−310)^b, Ap^R	This work
pKB39	pTS02, yscW-lcrF-lacZ (−211)^b, Ap^R	This work
pKB40	pTS02, yscW-lcrF-lacZ (−103)^b, Ap^R	This work
pKB41	pTS02, yscW-lcrF-lacZ (−2)^b, Ap^R	This work
pKB42	pTS02, yscW-lcrF-lacZ (+94)^b, Ap^R	This work
pKB84	pFU68, yscW-lacZ (−1016 to −265)^b, Ap^R	This work
pKB85	pFU68, yscW-lacZ (−1016 to −15)^b, Ap^R	This work
pKB90	pTS02, yscW-lcrF-lacZ (−310, Δ13–241), Ap^R	This work
pKD4	kanamycin cassette template, Kn^R	[75]
pKD46	recombination vector, λ RED recombinase, Ap^R	[75]
pKOBEG-sacB	recombination vector, sacB ⁺, Cm^R	[73]
pRS29	pDM4, yscW(Δ271–651), Cm^R	This work
pRS41	pDM4, lcrF (AG-46/-45CC)^a, Cm^R	This work
pRS42	pDM4, lcrF (GUU-30/-28AAA)^a, Cm^R	This work
pRS43	pDM4, lcrF (UU-28/-27CC)^a, Cm^R	This work
pRS44	pDM4, lcrF (AUA-36/-34CCC)^a, Cm^R	This work
pRS45	pDM4, lcrF (Δloop2 −44/−25)^a, Cm^R	This work
pRS46	pDM4, lcrF (Δloop1 −111/−57)^a, Cm^R	This work
pSF1	pGP20, yadA-lacZ, Tet^R	This work
pSF3	pGP20, lcrF-lacZ (+257^b; +74^a), Tet^R	This work
pSF4	pGP20, yscW-lcrF-lacZ (−310^b;+74^a), Tet^R	This work
pTS02	pGP20, Ap^R	Tatjana Stolz
pWO34	pSC101, yopE-luxCDABE*, Cm^R	[87]

The number indicates the nucleotide of lcrF, relative to the lcrF start codon.

The number indicates the nucleotide of yscW, relative to the yscW transcriptional start site.