Table S1. Strains, plasmids, primers.

Strain, plasmid or primer / Genotype, relevant characteristics, or sequencea / Source or reference
Strains
A130 / Salmonella Typhimurium ST313 wild-type strain / (1)
A680 / Salmonella Typhimurium ST313 wild-type strain / (1)
A32773 / Salmonella Typhimurium ST313 wild-type strain / (1)
A32793 / Salmonella Typhimurium ST313 wild-type strain / (1)
A38589 / Salmonella Typhimurium ST313 wild-type strain / (1)
A39051 / Salmonella Typhimurium ST313 wild-type strain / (1)
A39129 / Salmonella Typhimurium ST313 wild-type strain / (1)
A39155 / Salmonella Typhimurium ST313 wild-type strain / (1)
C2110 / Salmonella Typhimurium ST313 wild-type strain / (1)
FLS267 / Salmonella Typhimurium strain D23580 NalR GyrA S83F pSLT-14028s::tetRAinvA::FRT-kan / This study
JK18 / Salmonella Typhimurium ST19 strain LT2 proAB47/F’128 (pro lac) zzf-3833::Tn10Tet(del25) / (2)
JK560 / Salmonella Typhimurium 14028s phoP120::Tn10dCm / (3)
JK999 / Salmonella Typhimurium 14028s rpoS* / (4)
JK1114 / Salmonella Typhimurium ST313 wild-type strain D23580 wild-type (Fang Lab) / (1)
JK1115 / Salmonella Typhimurium 14028s pSLT-14028s::tetRA / This study
JK1124 / Spontaneous NalR derivative (GyrA S83F) of Salmonella Typhimurium D23580 / This study
JK1128 / Multiple drug sensitive derivative of Salmonella Typhimurium D23580. NalRGyrA S83F pSLT-14028s::tetRA / This study
JK1168 / Salmonella Typhimurium D23580 GyrA S83F pSLT-14028s::tetRA/pKD46 / This study
JK1217 / Salmonella Typhimurium 14028s invA::FRT-kan / This study
JK1222 / Salmonella Typhimurium D23580 NalR GyrA S83F pSLT-14028s::tetRAphoP::FRT-kan / This study
JK1228 / Salmonella Typhimurium 14028s katE::tetRA / This study
JK1250 / Salmonella Typhimurium 14028s KatE E117G / This study
JK1269 / Salmonella Typhimurium 14028s rpoS::FRT-cat / This study
KLL6 / Salmonella Typhimurium ST313 wild-type strain D23580 (Tsolis Lab) / (1)
KLL24 / Salmonella Typhimurium ST19 strain IR715 (pHP45Ω) resistant to nalidixic acid, ampicillin, and streptomycin / (5)(6)
LAS120 / Salmonella Typhimurium ST19 wild-type strain 14028s / ATCC
LAS146 / Salmonella Typhimurium D23580 pLAS1 (14028s katE-complementation plasmid) / This study
LAS148 / Salmonella Typhimurium D23580 pLAS2 (14028s bcsG-complementation plasmid) / This study
LAS150 / Salmonella Typhimurium D23580 pRB3 (complementation vector) / This study
LAS206 / Salmonella Typhimurium ST19 wild-type strain SL1344 / via C. Detweiler
LAS209 / Salmonella Typhimurium ST19 wild-type strain LT2 / ATCC
SL2759 / Salmonella Typhimurium 14028s katE::Tn10 katG::pRR10ΔtrfA PenR / (7)
Plasmids
pKD4 / bla FRT kan FRT PS1 PS2 ori6K / (8)
pKD13 / bla FRT kan FRT PS1 PS4 ori6K / (8)
pKD46 / blaaraC-ParaB γ β exo oriR101 repA101(Ts) / (8)
pLAS1 / pRB3::14028s katE / This study
pLAS2 / pRB3::14028s bcsG / This study
pRB3 / par RK2 bla stable low-copy-number cloning vector / (9)
Primers
JKP409-pSLT-tetR / ACAACCAGCAGCGCGGAGAATTTGTGTCTGCAGAGTAAGAttaagacccactttcacatt / This study
JKP410-pSLT-tetA / CACTTTACGGCTATGCCCGCGTTTCAACCAGCGATCAGGActaagcacttgtctcctg / This study
JKP428-rpoS F / CATCGTCAAATGGTTGTTCG / This study
JKP429-rpoS R / TTTCACGGCCTACATCTTCC / This study
JKP430-katE F / GCGGTATTCCACGCAGTTAT / This study
JKP431-katE R / CAGTGGAAACGGACAAAGGT / This study
JKP432-rpoD F / GTGGCTTGCAATTCCTTGAT / This study
JKP433-rpoD R / ACCAGGTTGCATAGGTGGAG / This study
JKP434-spvB F / GGGCGATTGTAGAGGAATCA / This study
JKP435-spvB R / TCACTGGGTTCATTTGTGGA / This study
JKP444-otsA F / aggcggaactgaaaaatgtg / This study
JKP445-otsA R / taacgaatttttccccgatg / This study
JKP507-invAP1 / ATACCTATAGTGCTGCTTTCTCTACTTAACAGTGCTCGTTgtgtaggctggagctgcttc / This study
JKP508-invAP2 / TAATTAAGCCCTTATATTGTTTTTATAACATTCACTGACTcatatgaatatcctccttag / This study
JKP511-phoPP1 / ATGATGCGCGTACTGGTTGTAGAGGATAATGCATTATTACGTGTAGGCTGGAGCTGCTTC / This study
JKP512-phoP4 / GACCAGCGCCACTATGCCATATGCCAAAGAAAGCACCAGCATTCCGGGGATCCGTCGAC / This study
JKP539-KatE-E127-TetR / TTTTATCCTGCGCGAGAAAATTACCCACTTTGACCATGAGttaagacccactttcacatt / This study
JKP540-KatE-E127-TetA / CTGCAGATCCGCGGGCGTGAACGATCCTCTCCGGGATGCGctaagcacttgtctcctg / This study
JKP541-KatEATG-199-216 / GCCTTTCGTAAAGGCAGC / This study
JKP542-KatEATG-514-533R / TCACGTACGGTATCAGCAGA / This study
LASP500-14028s katE-5' BamHI / TCTAGAGTCGGGATCCTTCCGCTCTCCCCCAGCATAA / This study
LASP501-14028s katE-3’ HindIII / GCATGCCTGCAAGCTTTTATGCAGGAATCGCGTTAAT / This study
LASP502-14028s bcsG-5’ BamHI / TCTAGAGTCGGGATCCGCCGTATCAGTGATACGACCC / This study
LASP503-14028s bcsG-3’ HindIII / GCATGCCTGCAAGCTTTTACTGCGGGTAAGGCACCCA / This study
SP27-rpoS cat replacement F / ttgctagttccgtcaagggatcacgggtaggagccaccttgtgtaggctggagctgcttc / This study
SP28-rpoS cat replacement R / aaggccagtcgacagactggcctttttttgacaagggtacatgggaattagccatggtcc / This study
Lcn2 F / AGTTCACACTGGGCAACAT / (10)
Lcn2 R / TTCTCCTTTAGTTCCGAAG / (10)
Mip3α F / TCCTGGCTGCTTTGATGTCA / (10)
Mip3α R / GAAGGATACGGTCTGTATATCGAAGAC / (10)
IfnγF / CCAAGTGATGGCTGAACTGTCG / (10)
IfnγR / TCTGACTCCTTTTTCGCTTCCC / (10)
Il17 F / CAATCCCACGAAATCCAGGATG / (10)
Il17 R / GGTGGAGATTCCAAGGTGAGG / (10)
Il22 F / TCCGCGGAGTCAGTATGAGTGAGC / (10)
Il22 R / GAACCTATCCGATTGAGGGAGCAGC / (10)

aFRT, Flippase recombination target; All primer sequences are listed 5’-3’.

Table S1 References

1.Kingsley, RA, Msefula, CL, Thomson, NR, Kariuki, S, Holt, KE, Gordon, MA, Harris, D, Clarke, L, Whitehead, S, Sangal, V, Marsh, K, Achtman, M, Molyneux, ME, Cormican, M, Parkhill, J, MacLennan, CA, Heyderman, RS, Dougan, G. 2009. Epidemic multiple drug resistant Salmonella Typhimurium causing invasive disease in sub-Saharan Africa have a distinct genotype. Genome Res 19:2279–2287.

2.Rappleye, CA, Roth, JR. 1997. A Tn10 derivative (T-POP) for isolation of insertions with conditional (tetracycline-dependent) phenotypes. J Bacteriol 179:5827–5834.

3.Guo, L, Lim, KB, Gunn, JS, Bainbridge, B, Darveau, RP, Hackett, M, Miller, SI. 1997. Regulation of lipid A modifications by Salmonella typhimurium virulence genes phoP-phoQ. Science 276:250–253.

4.Navarre, WW, Porwollik, S, Wang, Y, McClelland, M, Rosen, H, Libby, SJ, Fang, FC. 2006. Selective silencing of foreign DNA with low GC content by the H-NS protein in Salmonella. Science 313:236–238.

5.Stojiljkovic, I, Bäumler, AJ, Heffron, F. 1995. Ethanolamine utilization in Salmonella typhimurium: nucleotide sequence, protein expression, and mutational analysis of the cchA cchB eutE eutJ eutG eutH gene cluster. J Bacteriol 177:1357–1366.

6.Prentki, P, Krisch, HM. 1984. In vitro insertional mutagenesis with a selectable DNA fragment. Gene 29:303–313.

7.Buchmeier, NA, Libby, SJ, Xu, Y, Loewen, PC, Switala, J, Guiney, DG, Fang, FC. 1995. DNA repair is more important than catalase for Salmonella virulence in mice. J Clin Invest 95:1047–1053.

8.Datsenko, KA, Wanner, BL. 2000. One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc Natl Acad Sci U S A 97:6640–6645.

9.Berggren, RE, Wunderlich, A, Ziegler, E, Schleicher, M, Duke, RC, Looney, D, Fang, FC. 1995. HIV gp120-specific cell-mediated immune responses in mice after oral immunization with recombinant Salmonella. J Acquir Immune Defic Syndr Hum Retrovirol 10:489–495.

10.Raffatellu, M, Santos, RL, Verhoeven, DE, George, MD, Wilson, RP, Winter, SE, Godinez, I, Sankaran, S, Paixao, TA, Gordon, MA, Kolls, JK, Dandekar, S, Bäumler, AJ. 2008. Simian immunodeficiency virus-induced mucosal interleukin-17 deficiency promotes Salmonella dissemination from the gut. Nat Med 14:421–428.

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