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Fig. 3 | BMC Genomics

Fig. 3

From: Unity in defence: honeybee workers exhibit conserved molecular responses to diverse pathogens

Fig. 3

Gene co-expression network. a Main module of the gene co-expression network, representing 3,589 interconnected genes. Red nodes show genes significantly regulated across the 19 transcriptome datasets, and black nodes show non-significantly regulated genes. Square nodes show the most connected (hub) genes. Grey edges illustrate positive correlation between two gene expression profiles while blue edges show negative correlations. A file available at https://idata.idiv.de/DDM/Data/ShowData/35 provides the possibility of navigating within the network. b Scatter plot representing the total number of connections (x-axis) over the number of connections to significantly regulated genes across the 19 transcriptome datasets for the most (top 5%, N = 209) connected genes (i.e. hub genes). Red triangles show significantly regulated hub genes, while black dots show non-significantly regulated hub genes. Two hub genes with high connectivity to significantly regulated genes are shown: a kynurenine/alpha-aminoadipate aminotransferase (LOC724239), and a L-lactate dehydrogenase (LOC411188). c Main module from the co-expression network of the immune genes of the honey bee. Coloured nodes represent immune genes from the Toll (purple), JAK/STAT (brown), apoptosis (green), RNAi (blue) and Imd (pink) pathways (see immune genes list in the Additional file 2: Table ST13). Oval nodes show genes with low connectivity, squares show genes with high connectivity (hub genes, with at least 34 connections). Genes significantly regulated across the 19 transcriptome datasets have a red outline. Black edges represent positive co-expression and blue edges are negative co-expression. In insets, the expression profiles across the 19 transcriptome datasets (black lines) of the four immune hub genes (i.e. highly connected immune genes), accompanied by expression profiles of genes with which they are connected. Orange profiles display similar profiles (positive connections, i.e. black lines in the network) and blue reflect opposite profiles (negative connections, i.e. blue lines in the network). The y-axis displays the relative ranks of differential expression level, from up-regulated (value towards 1) to down-regulated (value towards 0)

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