## 4 Materials and Methods
### Strains Employed
\begin{table}
\begin{tabular}{l l l} \hline \hline
**Bacterial Strains** & **Characteristics of Genotype** & **Source/Ref./; Hayes Lab \# a** \\ \hline
594:_madA_:Tn10 [\(\mathtt{-}\)_clill-ren_]\({}^{\lambda}\) & Tn10 [zhb29 at 16.8 min] _bio\({}^{+}\)_ transductant = 594 & [73] = AC; this \\  & _bio275_ (\(\lambda\)_clill-cl_[Ts]857-O-P-_ren_) \(\lambda\)431 & strain = NY1057 \\ \hline W3101: _madA_:Tn10 [\(\mathtt{-}\)_clill-ren_]\({}^{\lambda}\) & Tn10 [zhb29 at 16.8 min] _bio\({}^{+}\)_ transductant = 594 & \\  & _bio275_ (\(\lambda\)_clill-cl_[Ts]857-O-P-_ren_) \(\lambda\)431 & AC, NY1057 \\ \hline CAG12147=_madA_57:Tn10 at 16.85 min & \(\lambda^{-}\)_, maA55_:Tn10, rph-1 & C.A. Gross (CAG); NY1053 \\ \hline CAG12164 & _malF_:Tn10, 4,241,898 [94] & Coli genetic stock center \\ \hline CAG12185 & _argE_:Tn10, 4,151,734 [94] & cgsec.biology.yale.edu \\ \hline CAG18500 & _titch_:Tn10, 4,192,143 [94] & cgsec.biology.yale.edu \\ \hline Y836 & SA500(\(\lambda\)_bio275 cI_Ts]857 \(\lambda\)431) _his\({}^{-}\)_ & [68,69] SH, NY1049 \\ \hline Y836 [pCI\({}^{+}\)] & \(\lambda\)_probage fragment genes rendered noninducible & [71] \\  & by WT CI\({}^{+}\) & \\ \hline Y836_dis\({}^{+}\)_ & _his\({}^{+}\)_ transductant of Y836 _his_ = Y836 & AC, NY1046 \\ \hline Y836 RK\({}^{-}\)P:kan (Bib11t) & SA500 (\(\lambda\)_bio275 cI_Ts]857 \(O^{+}\)P:kan A431 _his\({}^{-}\)_ Kan\({}^{R}\) & [35] SH, NY1153 \\ \hline Y836 RK\({}^{-}\) lit566a & \(O^{+}\) P:JS2 & CH, MY843 RK\({}^{-}\) \\ \hline Y836 _dnaBgrpD55[pCI]_ & \(\lambda\)rophage fragment genes rendered noninducible & [71] AC, NY1054 \\ \hline Y836:_Tn10_ & _nada_A57:Tn10 at -16.85 min CG12147 & AC, NY1047 \\ \hline
594:(\(\mathtt{-}\)_clill-ren_)\({}^{\lambda}\) & _nada_A57:Tn10 and _bio275 = Bio\({}^{+}\) (\(\lambda\)_clill-cl_[Ts]857-ren_) & AC, NY1057 \\ \hline
594:(\(\mathtt{-}\)_clill-ren_)\({}^{\lambda}\) & _nada_A57:Tn10 & _[bio275 \(\lambda\)_clill-cl_[Ts]857-ren_) \(\lambda\)431 & AC, NY1065 \\ \hline
594:(\(\mathtt{-}\)_clill-ren_)\({}^{\lambda}\) [pCI] & \(\lambda\)rophage fragment genes rendered noninducible & AC, NY1055 \\ \hline W3101:(\(\mathtt{-}\)_clill-ren_)\({}^{\lambda}\) & _nada_A57:Tn10 & AC, NY1051 \\ \hline W3101:(\(\mathtt{-}\)_clill-ren_)\({}^{\lambda}\) [pCI\({}^{+}\)] & \(\lambda\)rophage fragment genes rendered noninducible & AC, NY1059 \\ \hline SF2006 and SF2139 & _dinB_:Kan & [PERSON], \\ \hline GW3200 & AB1157 _umnD\({}_{44}\)_ & [PERSON], B396 \\ \hline GW2100 & AB1157 _umnC112:Tn5 (Kan) & [PERSON], B317 \\ \hline Y836 _dinB_:Kan & _dinB_:Kan from SF2006 & AC, 1045 \\ \hline Y836 _umnC112:Tn5 & _umnC112:Tn5 (Kan) & AC, 1052 \\ \hline Y836 _ArcA_ Tet\({}^{k}\) UV\({}^{8}\) & \(\Delta\)(_srlR-recA_)306:Tn10 [35] & AC, Y916, NY1048 \\ \hline Y836 _lexA_3[Ind\({}^{-}\)] _malB_:Tn9 & LexA repressor induction defective & AC, from DE407 [35] \\ \hline
**Plasmids** & **Transformed into strain 594** & **Source/Ref./; [PERSON] lab \# a** \\ \hline \multirow{3}{*}{pCI\({}^{+}\)} & used to place WT CI\({}^{+}\) repressor expression in & \\  & strains to prevent \(\lambda\)rophage fragment & M. [PERSON]; [71] \\  & derepression upon culture shift from 30 to 42 \({}^{<}\)C & \\ \hline pclpR-D-CAP-timm & D-CAP expression & CH, P459 [95] \\ \hline pclpR-P-timm & _Bam_HI-_ClaI_ fragment from \(\lambda\)_cl857, replacing & CH, P466 [35] \\ \hline \multirow{3}{*}{pclpR-P-timm} & P651 = 4371 bp; \(\Delta\)_np_ region, _i.e._, 613 bp between & \\  & _PcI_ to _Eqst_ and includes 23937-24310 bpA) from & \\ \cline{1-1}  & pglH-[pRMT-GF-trimm][EGFP]+AS0 = P593, & CH, P593; KR P651 \\ \cline{1-1}  & was inserted into P466 replacing its _np_ region & \\ \cline{1-1}  & between pp 938-2472 & \\ \hline pSIM6 & inducible \(\lambda\) Red genes & L. Thomason [96,97] \\ \hline \hline \end{tabular}  
* The strain numbers are from Hayes laboratory collections. All gene inserts within the plasmids were sequenced to confirm genetic integrity of the inserted fragment.  
\end{table} 
Table 8: _Cont._