Specificity of tissue-restricted RNAi strains. This table lists the results of RNAi feeding experiments using double stranded RNAs targeting genes expressed in the indicated tissue. Results presented as percentage of affected animals and the total number scored. Synchronized L1 worms were dropped onto the RNAi food and, after 3Â days, worms were scored as affected if they developmentally arrested (act-5), twitched in 10Â mM levamisole (unc-22), had a detached cuticle (bli-1), low mobility (unc-45), sterility (pos-1) or any of the previous phenotypes (L4440 control). (XLSX 10 kb)

ToxA-induced protein changes. This table lists the proteins differentially expressed in wild type N2 (first tab) or nipi-3(fr4) (second tab) animals fed E. coli expressing ToxA or the BL21 control for 24Â hours. Relative expression levels are an average of two independent replicates. Primary data are provided (third tab). (XLSX 1584 kb)

NanoString analysis of wild type N2 gene expression on P. aeruginosa or ToxA. This table lists the gene expression fold changes between wild type N2 animals fed P. aeruginosa PA14 and animals fed control OP50 E. coli for 6Â hours or between N2 animals fed E. coli expressing ToxA and animals fed the BL21 control for 24Â hours. Expression values are the average of three (PA14 and OP50) or two (ToxA and BL21 control) independent replicates and normalized to three control genes. Primary data are provided in Additional file 15. (XLSX 22 kb)

Affymetrix microarray analysis of wild type N2, nipi-3(fr4), and pmk-1(km25) gene expression. This table lists the genes differentially expressed in wild type N2 and nipi-3(fr4) (first tab) or pmk-1(km25) (second tab) animals fed control OP50 E. coli at 20 °C until the L4 stage. Expression values are the average of three independent replicates. Gene ontology terms enriched in each category are listed in the third tab. (XLSX 59 kb)

Proteins misregulated in nipi-3(fr4) or pmk-1(km25) as compared to wild type worms. This table lists the proteins differentially expressed in wild type N2 and nipi-3(fr4) animals fed BL21 control bacteria (first tab) or E. coli expressing ToxA (second tab) for 24Â hours. This table also lists the proteins differentially expressed in wild type N2 and pmk-1(km25) animals fed E. coli expressing ToxA for 24Â hours (third tab). Relative expression levels are an average of two independent replicates. Primary data are provided in Additional file 8. (XLSX 29 kb)

Testing whether ToxA-responsive genes defend against ToxA. This table lists the genes that were previously found to be significantly induced by E. coli expressing ToxA [5] and were inhibited either by RNAi or with mutant alleles to determine whether they are necessary for ToxA resistance. (XLSX 15 kb)

Primary data for Figs. 1b and 3b, Figures S3a, b, and S7b, and Tables S3 and S4. (XLSX 35 kb)

NanoString analysis of wild type N2 and nipi-3(fr4) gene expression. This table lists the gene expression fold changes between wild type N2 and nipi-3(fr4) animals fed P. aeruginosa PA14 or control OP50 E. coli for 6Â hours (first tab) or fed E. coli expressing ToxA or BL21 control for 24Â hours (second tab). Expression values are the average of three (PA14 and OP50) or two (ToxA and BL21 control) independent replicates and normalized to three control genes. Primary data are provided in Additional file 15. (XLSX 33 kb)

NanoString analysis of wild type N2 and nipi-3(fr4) gene expression. This table lists the gene expression fold changes between wild type N2 and nipi-3(fr4) animals fed P. aeruginosa PA14 or control OP50 E. coli for 6Â hours (first tab) or fed E. coli expressing ToxA or BL21 control for 24Â hours (second tab). Expression values are the average of three (PA14 and OP50) or two (ToxA and BL21 control) independent replicates and normalized to three control genes. Primary data are provided in Additional file 15. (XLSX 33 kb)

Primary data for Figs. 1b and 3b, Figures S3a, b, and S7b, and Tables S3 and S4. (XLSX 35 kb)