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Table 2 Significant changes between control and ED-treated samples after disturbing G1R DMR establishment

From: Deleterious effects of endocrine disruptors are corrected in the mammalian germline by epigenome reprogramming

        % MAT allele
  Organ ED Difference (%) SD (%) Student’s t -test P value Imprinted base line Oil Treatment
G2 soma trough paternal germ line - DMR DNA methylation (Figure 3 C)
Peg1-Mest Head VZ -9.1 2.523 0.038 YES (MAT) 95 86
Nespas Embryo VZ -6.9 3.150 0.022 YES (MAT) 91 84
Slc38a4 (b) Lung VZ -5.9 1.747 0.006 YES (MAT) 94 88
IG-DMR Lung VZ 5.1 1.513 0.010 YES (PAT) 5 10
G2 soma through maternal germ line - DMR DNA methylation (Figure 3 D)
Peg10 Placenta VZ -23.4 3.247 0.000 YES (MAT) 100 77
Peg10 Head VZ -9.5 2.146 0.035 YES (MAT) 95 85
Nespas (a) Yolk sac VZ -8.5 4.049 0.023 YES (MAT) 80 71
Snrpn Placenta VZ -8.4 4.675 0.049 YES (MAT) 95 86
Snrpn Head VZ -7.7 2.521 0.020 YES (MAT) 94 86
Zac1 (a) Yolk sac DEHP -7.3 2.129 0.037 YES (MAT) 83 76
KvDMR1 Head BPA -7.2 1.497 0.001 YES (MAT) 100 93
Peg3 Head VZ -6.4 2.483 0.034 YES (MAT) 99 92
Zac1 (a) Placenta VZ -5.9 3.248 0.036 NO 73 67
Zac1 (b) Placenta VZ -5.7 2.239 0.018 NO 66 61
Peg3 Yolk sac VZ -5.6 2.541 0.022 YES (MAT) 88 83
Zac1 (a) Head VZ -5.5 1.528 0.036 YES (MAT) 85 79
Rasgrf1 Head VZ 5.4 1.343 0.003 YES (PAT) 6 12
Rasgrf1 Head DEHP 5.5 2.038 0.011 YES (PAT) 6 12
Rasgrf1 Heart DEHP 6.4 1.413 0.003 YES (PAT) 15 22
IG-DMR (a) Liver VZ 9.0 1.087 0.002 YES (PAT) 9 18
IG-DMR (a) Head VZ 11.2 3.210 0.048 YES (PAT) 4 15
G2 soma through paternal germ line - RNA transcripts (Figure 4 )
Nesp Lung DEHP -14.3 2.166 0.001 NO 45 31
Nesp Heart DEHP -11.9 3.157 0.042 NO 45 33
Slc22a3 Head VZ -7.8 2.097 0.027 NO 53 46
Ascl2 Liver VZ -7.1 3.323 0.043 NO 77 70
Cdkn1c Embryo BPA -6.7 2.865 0.036 YES (MAT) 99 92
Slc22a3 Liver VZ -6.0 2.261 0.011 NO 57 51
Slc22a3 Liver BPA -6.0 2.925 0.025 NO 57 51
Cdkn1c Embryo VZ -5.8 1.367 0.021 YES (MAT) 99 93
Cdkn1c Embryo DEHP -5.8 0.535 0.014 YES (MAT) 99 93
Slc22a3 Lung BPA -5.7 2.710 0.031 NO 64 58
Usp29 Lung BPA 5.7 1.424 0.040 YES (PAT) 3 9
Gnasxl Heart VZ 6.3 1.940 0.027 NO 26 32
Rasgrf1 Heart VZ 9.0 0.722 0.006 YES (PAT) 18 27
Gnasxl Lung VZ 15.3 3.644 0.002 NO 31 46
G2 soma through maternal germ line - RNA transcripts ( Additional file 3 )
Nesp Placenta DEHP -12.7 4.922 0.034 YES (MAT) 80 67
Slc22a3 Yolk sac DEHP -11.0 0.620 0.030 YES (MAT) 97 86
Ascl2 Liver VZ -9.4 1.324 0.034 NO 71 61
Gnasxl Yolk sac DEHP -8.6 3.204 0.035 NO 52 43
G3 soma through paternal germ line (lung and heart) - RNA transcripts (Figure 5 B)
Cobl Heart BPA -28.0 2.289 0.004 NO 79 51
Cobl Heart VZ -27.9 0.640 0.001 NO 79 51
Cobl Lung VZ -19.7 2.033 0.005 NO 70 51
Cobl Lung BPA -19.4 2.729 0.018 NO 70 51
Phlda2 Lung VZ -11.8 3.974 0.032 NO 79 68
Cobl Heart DEHP -11.1 1.206 0.003 NO 79 68
Rtl1/Rtl1as Lung BPA -10.0 1.649 0.021 YES (MAT) 90 80
Tnfrsf22 Heart VZ -9.9 1.942 0.026 NO 58 48
Rtl1/Rtl1as Lung VZ -8.7 4.378 0.007 YES (MAT) 90 81
Tnfrsf22 Heart BPA -8.1 1.070 0.022 NO 58 50
Tnfrsf22 Lung BPA -7.6 1.305 0.023 NO 57 49
Ascl2 Heart DEHP -6.2 2.372 0.011 NO 54 48
Tnfrsf22 Lung VZ -5.5 2.043 0.025 NO 57 51
Atp10a Heart VZ 5.1 1.285 0.010 NO 48 53
Sfmbt2 Lung VZ 6.5 0.690 0.003 NO 41 48
Zim1 Lung BPA 6.7 1.473 0.010 YES (MAT) 90 97
Snrpn Lung VZ 9.9 2.488 0.019 YES (PAT) 11 21
Slc22a3 Lung BPA 10.0 7.898 0.017 NO 50 60
Nespas (a) Lung VZ 10.3 2.375 0.036 YES (PAT) 3 13
Ascl2 Lung BPA 12.7 3.520 0.000 NO 46 59
Asb4 Heart VZ 27.2 8.101 0.019 NO 61 88
Asb4 Heart BPA 27.2 2.591 0.015 NO 61 88
  1. Note: (a) and (b) denote different SNPs for the given DMR or transcript.
  2. Allele-specific DNA methylation or transcription was compared in 13.5 dpc embryos between ED- and vehicle-treated samples for each of the DMRs or imprinted transcripts, respectively. Changes in the average (n = 3) allele-specific features that were greater than 5% and were statistically significant (P <0.05) were tabulated and ordered according to the change in the maternal allele. Changes greater than 10% were rare. Baseline allele specificity of transcription or DNA methylation was observed (YES) or was not observed (NO) in the maternal (MAT) or paternal (PAT) allele in the vehicle-treated sample (cutoff 80%). Of those with baseline allele specificity, the expression or DNA methylation became less biased (relaxed) in a few instances (see the last column).