Fig. 6: SEKI and CRCA livers show a decrease in Gly-related enzymes, but not in SAM-related enzymes.

a Declines of C1 enzymes related to B vitamins in SEKI and CRCA liver proteomes. Bubble size represents protein concentration estimated from published proteome data. The calculation of the protein concentration estimates is described in the Methods section (Methods, Estimation of protein concentration). Changes (FC) are from TMT quantitative proteomic analysis. B vtms, C1 enzymes related to B vitamins; non-B vtms, C1 enzymes unrelated to B vitamins. Plots are limited to a range of −6 to 0 on the X-axis and −2 to 2 on the Y-axis. MEWO, N = 3 mice; LNCA, N = 3 mice; SEKI, N = 3 mice; CRCA, N = 3 mice; STRV, N = 2 mice. b Percentage of amounts of B vitamin-related enzymes (dark bule), Gly-related enzymes (sky blue), SAM-related enzymes (orange), and ATP-related enzymes (red) to total amounts of specified enzyme groups in liver. C1 UP, upregulated C1 enzymes in livers of SEKI and CRCA; C1 DOWN, downregulated C1 enzymes. c Alterations of Gly and SAM enzymes in livers of five experimental models. Plots are limited to a range of −6 to 0 on the X-axis and −1.5 to 1.5 on the Y-axis. MEWO, N = 3 mice; LNCA, N = 3 mice; SEKI, N = 3 mice; CRCA, N = 3 mice; STRV, N = 2 mice. d Scatterplots of changes (log2) in CRCA liver mRNA gene expression data (Y-axis) with estimated enzyme protein concentrations (X-axis). Transcriptome data; CRCA, N = 4 mice; C57BL/6N, N = 4 mice. e Density plot of enzyme concentrations. High concentrations (gray zone), protein concentrations above the highest quartile of a published liver proteome. f Scatterplots of metabolites and Gly enzymes. MEWO, blue; LNCA, green; SEKI, orange; CRCA, red; STRV, purple. Dashed lines are produced by linear regression without the STRV point. Gly enzymes, enzymes that catalyze Gly directly, NIA niacin, B6 vitamin B6-related metabolites. r Pearson’s correlation coefficient; P non-adjusted P-value (Pearson’s correlation). g Schematic of changing hepatic C1 metabolism. Gly, Gly-related enzymes, and metabolites; SAM, SMA-related enzymes, and metabolites. Source data are provided as a Source Data file.