Figure 1

(A) Cloned and IVF embryos at 2-cell, 8-cell and blastocyst stage. (B) Reads of 2-cell stage cloned (2CC-1, 2CC-2 and 2CC-3) and IVF (2Cl-1, 2Cl-2 and 2Cl-3) embryos, 8-cell stage cloned (8CC-1, 8CC-2 and 8CC-3) and IVF (8CI-1, 8CI-2 and 8CI-3) embryos blastocyst stage cloned (BL-1, BL-2 and BL-3) and IVF (BLI-1, BLI-2 and BLI-3) embryos were mapped to different chromosomes. A maximum number of reads were found to map on chromosome number 1 across all the developmental stages. (C) MA plot depicting the global methylation pattern of hyper- and hypomethylated CpGs in cloned relative to IVF embryos at each developmental stage. The Y-axis represents the log fold ratio (M) and the X-axis, the mean average of normalized counts A. Red dots represent differentially methylated regions (DMRs) having adjusted P-value above the threshold value whereas, black dots represent DMRs having P-value below the threshold.Volcano plot showing global methylation pattern of hyper- and hypomethylated CpGs in cloned realtive to IVF embryos. Red dots indicate CpGs with significant differential methylation pattern whereas, black dots indicate CpGs, the methylation pattern of which was non-significant in the two groups. The dots towards the left, right and top sides denote hypomethylated, hypermethylated and most significant differentially methylated CpGs, respectively. (D) Overall distribution statistics of differentially methylated regions (DMRs). The X-axis represents comparison between cloned and IVF embryos at each developmental stage i.e., 2CC vs 2CI; 8CC vs 8CI and CBL vs BLI. The Y-axis represents the number of DMRs.