Impact and Mest DMRs, imprinting of which depends on the KDM1B as well as Zac1 DMR, were partially methylated but still exhibited hypomethylation in 1lox growing oocytes with a diameter of 40−49 µm (Impact, 1lox versus 2lox, 29 versus 15%; Mest, 1lox versus 2lox, 12 versus 1%; P < 0.001) (Fig. 4B; Supplementary Material, Fig. S3).
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After this filtering, only 3 markers were additively significant and 6 were significant for imprinting, 4 of which were paternally imprinted and 2 were maternally imprinted (Table 1).
Consistent with previous studies in mouse embryos (Babak et al., 2008), we found a total of 31 genes with significant imprinting, all of which had been previously identified.
In our study we identified only 5 genes that clearly show parental imprinting, all of which were previously described as such (Meg3, Zim1, Ndn, Trapcc9, Sgce).
In order to consider SNURF as an ideal reference, the ratio between methylated and unmethylated SNURF alleles might not be disturbed by copy number changes, or by loss of imprinting, both of which are common in cancer.
The first half of fetal development is a period of very high sensitivity because of a high rate of cell proliferation, cell differentiation, and gene imprinting, all of which, when disrupted, can lead to carcinogenesis.
In mice, imprinted genes, of which there are many in the placenta, are largely maternally expressed and paternally repressed [ 29].
In the mouse, there are approximately 150 known imprinted genes, many of which occur in imprinted gene clusters that are regulated together.
Here we discovered 12 examples of allele-specific imprinting, about half of which were associated with endosperm demethylation of a TE that was variably methylated within the strains we examined.
Nevertheless, there were two principal suggestions how the manuscript could be improved: Despite their impressive dataset, you identify only six examples for allele-specific imprinting, only three of which are investigated in detail.
