Fig. 5: Spermatogenic and cuticle-related genes are upregulated in eggd-1 hermaphrodites.
From: C. elegans germ granules sculpt both germline and somatic RNAome
a Scatter plot showing the level of transcripts in wild-type and eggd-1 as measured by RNA sequencing. Genes with fourfold upregulation \(({\log }_{2}\left(\frac{{eggd}-1}{{wild\; type}}\right)\ge 2,\, {{{{{\rm{p}}}}}}-{{{{{\rm{value}}}}}} \, < \, 0.05)\) are shown in green. Genes with four-fold downregulation \(({\log }_{2}\left(\frac{{eggd}-1}{{wild\; type}}\right)\le -\!2,\, {{{{{\rm{p}}}}}}-{{{{{\rm{value}}}}}} \, < \, 0.05)\) are shown in magenta. Two-tailed T-test was used to derive p values. Top or bottom gray dotted lines indicate fourfold change. eggd-1 transcript itself is shown as a blue dot and labeled. FC Fold change. RPM Reads per Million. Source data are provided as a Source Data file. b Tissue enrichment analysis of genes significantly upregulated 4-fold in eggd-1 mutants compared to that in wild-type. Benjamini-Hochberg adjusted p values was indicated at x axis. c Overlap of significantly upregulated genes in eggd-1 mutants compared to that in wild-type with spermatogenic (n = 2748), oogenic (n = 1732), and gender neutral genes (n = 6274) defined by RNA sequencing of isolated female (fog-2) and male (fem-3) gonad76. d Browser track showing the abundance of alg-3 transcript as measured by RNA sequencing from wild-type and eggd-1 animals as well as fog-2 and fem-3 gonad76. The coverage shown is the average of two sequencing replicates (wild-type and eggd-1) or seven sequencing replicates (both fog-2 and fem-3 mutants). e Same as in (d), however showing the gsp-3 locus. f Examples of wild-type and MOG adult phenotypes used to classify worms under the conditions listed in (g) imaged by DIC transmitted light or DAPI fluorescence to visualize DNA. The germ line is outlined by a dashed line in each image. n for representative wild-type and MOG worms are listed in (g). g Table showing the percentage and count (n) of relevant phenotypes exhibited by N2, eggd-1, and mog-4 RNAi-treated worms over two (N2 and eggd-1) or one (mog-4) independent experiments.
