SRX4396079 GSM3273163 SRP153996 SRS3551260 GSM3273163 Bisulfite-Seq GENOMIC RANDOM For whole-genome bisulfite sequencing, genomic DNA was isolated from endosperms and embryos using a QIAamp DNA Mini Kit (Qiagen). The volumes of the combined gDNA sample and unmethylated lambda DNA control were adjusted to a total volume of 80 μL using 1x TE buffer, and fragmented to 300 bp. Subsequently, fragmented DNA was end repaired and ligated to custom-synthesized methylated adapters (Eurofins MWG Operon) and a gDNA library was constructed according to the manufacturer's instructions (Illumina). Bisulfite conversion was performed using an EZ DNA Methylation-Gold Kit. The bisulfiate-converted library was amplified using KAPA HiFi HotStart DNA Polymerase (Kapa Biosystems). HiSeq X Ten gds 303273163 GSM3273163 GEO Accession GSM3273163 SRX4396080 GSM3273164 SRP153996 SRS3551261 GSM3273164 Bisulfite-Seq GENOMIC RANDOM For whole-genome bisulfite sequencing, genomic DNA was isolated from endosperms and embryos using a QIAamp DNA Mini Kit (Qiagen). The volumes of the combined gDNA sample and unmethylated lambda DNA control were adjusted to a total volume of 80 μL using 1x TE buffer, and fragmented to 300 bp. Subsequently, fragmented DNA was end repaired and ligated to custom-synthesized methylated adapters (Eurofins MWG Operon) and a gDNA library was constructed according to the manufacturer's instructions (Illumina). Bisulfite conversion was performed using an EZ DNA Methylation-Gold Kit. The bisulfiate-converted library was amplified using KAPA HiFi HotStart DNA Polymerase (Kapa Biosystems). HiSeq X Ten gds 303273164 GSM3273164 GEO Accession GSM3273164 SRX4396081 GSM3273165 SRP153996 SRS3551262 GSM3273165 Bisulfite-Seq GENOMIC RANDOM For whole-genome bisulfite sequencing, genomic DNA was isolated from endosperms and embryos using a QIAamp DNA Mini Kit (Qiagen). The volumes of the combined gDNA sample and unmethylated lambda DNA control were adjusted to a total volume of 80 μL using 1x TE buffer, and fragmented to 300 bp. Subsequently, fragmented DNA was end repaired and ligated to custom-synthesized methylated adapters (Eurofins MWG Operon) and a gDNA library was constructed according to the manufacturer's instructions (Illumina). Bisulfite conversion was performed using an EZ DNA Methylation-Gold Kit. The bisulfiate-converted library was amplified using KAPA HiFi HotStart DNA Polymerase (Kapa Biosystems). HiSeq X Ten gds 303273165 GSM3273165 GEO Accession GSM3273165