Comparison of Pseudomonas responsive gene expression after histone methyltransferase RNAi in C. elegans

We resport the changes in gene expression occuring after Pseudomonas exposure in C. elegans with low s-adenosylmethionine, or RNAi of two H3K4 methyltransferases Using a C. elegans model of low SAM, we previously found that transcriptional responses response to a bacterial pathogen failed and these bacterial-response genes did not show normal H3K4me3 close to the transcriptional start sites, (Ding et al. 2015 Cell Metabolism). We also found the HMT set-16/MLL was required for full induction, whereas set-2/SET1 appeared dispensable (Ding et al. 2015 Cell Metabolism). We hypothesized that animals with low SAM might fail to transcriptionally respond to stress and that the HMTs may also have distinct roles in modulating stress responses. In our present study, we set out to compare induction of transcriptional responses and survival upon stress exposure between C. elegans with reduced SAM (sams-1(RNAi)) and animals with limited H3K4me3 function, set-2/SET1, and set-16/MLL RNAi. Because distinct stresses may rely on different transcriptional activation mechanisms, we also compared whole-genome expression patterns in three stresses: pathogenic bacteria (PA14), xenotoxic (R24) and heat in response to each RNAi. Overall design: C. elegans were grown on RNAi plates, then exposed to Pseudomonas for 6 hours Please note that the raw data files for the following two samples have been updated with the correct files on 10/25/2019 GSM3438436 Control OP50 rep 2 GSM3438443 Control PA14 rep 1

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Ding W, Higgins DP, Yadav DK, Godbole AA, Pukkila-Worley R, Walker AK