title: GSM9258412: RNA-seq, hag704, root tips, rep2; Oryza sativa Japonica Group; RNA-Seq
library_construction_protocol: RNA-seq: Total RNA was isolated from either 1 cm rice root tips of 7-day-old post-germination seedlings and 0.1 cm inflorescence meristems using the RNeasy Plus Micro Kit (Qiagen, 74034). First-strand cDNA was synthesized from 100 ng of total RNA using a reverse transcription kit (Vazyme, N712). Sequencing libraries were then prepared with the Vazyme TD502 kit and sequenced on an Illumina HiSeq 3000 system. CUT&Tag: Root tips from 7-day-old germinated rice seedlings were harvested to isolate nuclei. The nuclei were washed with wash buffer (Vazyme, TD903), followed by incubation with ConA Beads (Vazyme, TD903) at room temperature for 10 minutes.CUT&Tag experiment and DNA libraries were performed according to the instruction of Hyperactive Universal CUT&Tag Assay Kit (Vazyme, TD903).The PCR-amplified library was purified using VAHTS DNA Clean Beads (Vazyme, N411-01) and sequenced on the Illumina NovaSeq X Plus  platform. RNA libraries for RNA-seq were prepared using TruePrep DNA Library Prep Kit V2 for Illumina following manufacturer's protocols. DNA libraries for CUT&Tag were prepared using Hyperactive Universal CUT&Tag Assay Kit for Illumina following manufacturer's protocols.