Overrepresented and underrepresented Biological Process GO terms in the increased transcription during pregnancy gene set.

<p>Overrepresented and underrepresented Biological Process GO terms in the increased transcription during pregnancy gene set.</p

Global transcriptomic similarities between samples.

<p>Dendrogram of Jensen-Shannon (JS) distances between transcriptomes of replicates with the pregnant (P), virgin (V), and non-pregnant past breeder (N) transcriptomes.</p

Gene transcription levels in P vs N according to differential expression programs compared to qPCR data.

<p>Log2-fold changes in the transcription of membrane cofactor protein (CD46), MAC-inhibitory protein (CD59), interleukin 6 (IL-6), lysosomal-associated membrane protein 1 (LAMP1), and lumican (LUM) in the pregnant group compared to the non-pregnant past breeder group. Log2-fold changes were according to Cuffdiff (pink bars), DESeq (yellow bars), edgeR (blue bars), and qPCR using the Vandesompele method (black bars). Red line indicates the threshold of log2-fold change needed for significance according to the Vandesompele method of relative quantification of qPCR data. * Adjusted p < 0.05 for differential expression programs or >2 log2-fold change for qPCR.</p

Comparison of “top 100” genes with significantly higher transcription during pregnancy than a non-pregnant state for opossum (<i>M</i>. <i>domestica</i>), skink (<i>C</i>. <i>ocellatus</i>), pig (<i>S</i>. <i>scrofa</i>), and seahorse (<i>H</i>. <i>abdominalis</i>).

<p>Comparison of “top 100” genes with significantly higher transcription during pregnancy than a non-pregnant state for opossum (<i>M</i>. <i>domestica</i>), skink (<i>C</i>. <i>ocellatus</i>), pig (<i>S</i>. <i>scrofa</i>), and seahorse (<i>H</i>. <i>abdominalis</i>).</p

Pregnancy-associated gene sets.

<p>Venn diagrams describing the intersection of genes that were considered differentially transcribed in comparisons of the P group to the N, V, and V2 & V3 control groups. The genes that were differentially transcribed in the P group compared to all three control groups (red circles) were considered to be differentially transcribed at a high level of confidence for this study.</p

Overlap of genes called as significant in differential expression programs.

<p>Venn diagrams of the numbers of gene transcripts found to be significantly more abundant (A, C, and E) or less abundant (B, D, and F) when comparing the dataset from the P group to N (A and B), V (C and D) and V2 & V3 only (E and F). Genes were tested for differential expression according to Cuffdiff (pink), DESeq (yellow), and edgeR (blue). Red triangles denote the cases where at least two out of three programs were in agreement.</p

Comparison of “top 100” genes with significantly lower transcription during pregnancy than a non-pregnant state for opossum (<i>M</i>. <i>domestica</i>), skink (<i>C</i>. <i>ocellatus</i>), pig (<i>S</i>. <i>scrofa</i>), and seahorse (<i>H</i>. <i>abdominalis</i>).

<p>Comparison of “top 100” genes with significantly lower transcription during pregnancy than a non-pregnant state for opossum (<i>M</i>. <i>domestica</i>), skink (<i>C</i>. <i>ocellatus</i>), pig (<i>S</i>. <i>scrofa</i>), and seahorse (<i>H</i>. <i>abdominalis</i>).</p