Select misregulated genes from the late-stage grhIM embryo microarrays.

Select significantly misregulated genes were manually classified in into the following categories: Cuticle Formation/Chitin Metabolism; Melanization/Wound Healing; Serine Proteases/Serpins; Innate Immunity; Cytoskeleton/Cell Adhesion/Apico-Basal Polarity; Detoxification; and Defense/Stress Response. “CG #” refers to the accession numbers from FlyBase. “Gene Name or Symbol” refers to either the full gene name or the gene symbol on Flybase; this column is blank if no assigned gene name was found in FlyBase. “Protein Type/Process” refers to experimentally verified or putative (most often based on homology) functions assigned to the genes. Numbers in curly brackets refer to studies in which these genes were also seen to be misregulated upon the following treatments: {1} bacterial infection [87]–[89]; {2} fungal infection [87], [88], [90]; {3} viral infection [90], [91]; {4} Wolbachia infection [90], [92]; {5} Microsporidia infection [90]; and {6} parasitoid infection [93], [94]. Categories {1–6} were adapted from [66]. {7} refers a systematic analysis of the expression patterns of the Drosophila p450 genes [68].{8} refers to a systematic analysis of detoxification genes in Drosophila[69]. “Fold (wt value)*” refers to the fold changes seen in the expression of these genes relative to wild type. Absolute wild-type fluorescence values are shown in parentheses. An asterisk next to a value means the lowest value in the grh/WT ratio was near baseline (∼100 units of fluorescence), which could artificially inflate the fold-change values. “FDR” refers to the False Discovery Rates calculated for each gene. All genes shown have an FDR value of less than 0.01.