Fig. 7: Integrated analyses of diurnal transcriptome and multi-level proteomes.
From: Multi-omics profiling reveals rhythmic liver function shaped by meal timing
a Venn diagram showing the interaction between rhythmic proteins consisting of unmodified, phosphorylated (phos), ubiquitylated (ubiq), N-glycosylated (ngly), and succinylated (succ) proteins and rhythmic transcripts in mouse livers under either DRF or NRF, as measured by the presence of source genes. Rhythmic transcripts are based on a published dataset (GSE150380), as measured by MetaCycle: meta2d_BH.Q < 0.05 and meta2d_rAMP >0.1 (n = 28 mice per group). b Phase plot showing the phase relationship between rhythmic proteins with or without post-translational modifications and rhythmic transcripts. c Diurnal profiles of Pck1 and Got1 gene products in mouse livers under TRF. Data are presented as mean values  ±  standard deviation (mRNA and protein). N = 14 (succinylation (su-) or N-glycosylation (ng-)) or 28 (mRNA or protein) per group. d Chord diagram showing the connection across multi-level proteomes and transcriptome under DRF or NRF, as measured by the number of shared rhythmic gene products (protein or transcript). e Chord diagram showing the connections among different omics, as measured by the presence of rhythmic pathways (Kuiper test, q < 0.05). f A schematic diagram illustrating the structural features of mouse PER2 protein. PAS, Per-ARNT-Sim domain; PAC, PAS-associated C-terminal domain; PPARG, peroxisome proliferator-activated receptor gamma. g Representative immunoblots of PER2-pSer971 and PER2 in AML-12 mouse hepatocytes stably expressing EGFP/FLAG-tagged PER2 or S971A mutant. Cells were treated in different concentrations of glucose for 8 h (n = 8 biological replicates from 4 independent experiments). Densitometric results were subtracted from the average value of those from S971A, normalized to the average of the 0 mM glucose group and labeled below the bands. Source data are provided as a Source data file.
