Additional file 1 of Transcriptomic responses to diet quality and viral infection in Apis mellifera

In all tables, “C” represents chestnut diet, “R” represents rockrose diet, “N” represents control non-inoculated, and “V” represents virus-inoculated. Table 1: Number of DEGs across three analysis pipelines for the (A) diet main effect in our study, (B) virus main effect in our study, and (C) virus main effect in the Galbraith study. Table 2: Pathways related to the 1,033 DEGs upregulated in the chestnut treatment from the diet main effect. Table 3: Pathways related to the 881 DEGs upregulated in the rockrose treatment from the diet main effect. Table 4: GO analysis results for the 601 DEGs upregulated in the NC treatment from the NC versus NR treatment pair analysis. These DEGs represent genes upregulated in noninoculated honey bees given high quality chestnut pollen versus low quality rockrose pollen. Table 5: GO analysis results for the 340 DEGs upregulated in the NR treatment from the NC versus NR treatment pair analysis. These DEGs represent genes upregulated in noninoculated honey bees given low quality rockrose pollen versus high quality chestnut pollen. Table 6: GO analysis results for the 247 DEGs upregulated in the VC treatment from the VC versus VR treatment pair analysis. These DEGs represent genes upregulated in inoculated honey bees given high quality chestnut pollen versus low quality rockrose pollen. Table 7: GO analysis results for the 129 DEGs upregulated in the VR treatment from the VC versus VR treatment pair analysis. These DEGs represent genes upregulated in inoculated honey bees given low quality rockrose pollen versus high quality chestnut pollen. Table 8: Number of DEGs across three analysis pipelines for all six treatment pair combinati ons between the diet and virus factor. Table 9: Kruskal-Wallis p-value and Bonferroni corrections for the 36 combinations of DEG lists, pathogen response metrics, and cluster number. (XLS 28 kb).