SRX17963468 GSM6659332_r1 SRP403614 PRJNA892441 SRS15479820 GSM6659332 GSM6659332 RNA-Seq TRANSCRIPTOMIC cDNA Total RNA from the protoplasts was extracted using the RNeasy™ Micro Kit (QIAGEN) according to the manufacturer's instructions. RNA was eluted in 14-μl water, and RNA quality was monitored using a Bioanalyzer Pico chip (Agilent Technologies). cDNA was generated using SMART-Seq V4 Ultra Low Input RNA Kit (Clontech) with 18 amplification cycles, and RNA-seq libraries were generated using the TruSeq RNA Sample Prep Kit v2 (Illumina) according to the manufacturer's manual. The libraries were qualitatively and quantitatively verified and then loaded onto a flow cell for cluster generation using cBot and TruSeq PE Cluster Kit v3 (Illumina). Illumina HiSeq 2000 SRX17963469 GSM6659333_r1 SRP403614 PRJNA892441 SRS15479821 GSM6659333 GSM6659333 RNA-Seq TRANSCRIPTOMIC cDNA Total RNA from the protoplasts was extracted using the RNeasy™ Micro Kit (QIAGEN) according to the manufacturer's instructions. RNA was eluted in 14-μl water, and RNA quality was monitored using a Bioanalyzer Pico chip (Agilent Technologies). cDNA was generated using SMART-Seq V4 Ultra Low Input RNA Kit (Clontech) with 18 amplification cycles, and RNA-seq libraries were generated using the TruSeq RNA Sample Prep Kit v2 (Illumina) according to the manufacturer's manual. The libraries were qualitatively and quantitatively verified and then loaded onto a flow cell for cluster generation using cBot and TruSeq PE Cluster Kit v3 (Illumina). Illumina HiSeq 2000 SRX17963470 GSM6659334_r1 SRP403614 PRJNA892441 SRS15479822 GSM6659334 GSM6659334 RNA-Seq TRANSCRIPTOMIC cDNA Total RNA from the protoplasts was extracted using the RNeasy™ Micro Kit (QIAGEN) according to the manufacturer's instructions. RNA was eluted in 14-μl water, and RNA quality was monitored using a Bioanalyzer Pico chip (Agilent Technologies). cDNA was generated using SMART-Seq V4 Ultra Low Input RNA Kit (Clontech) with 18 amplification cycles, and RNA-seq libraries were generated using the TruSeq RNA Sample Prep Kit v2 (Illumina) according to the manufacturer's manual. The libraries were qualitatively and quantitatively verified and then loaded onto a flow cell for cluster generation using cBot and TruSeq PE Cluster Kit v3 (Illumina). Illumina HiSeq 2000 SRX17963471 GSM6659335_r1 SRP403614 PRJNA892441 SRS15479823 GSM6659335 GSM6659335 RNA-Seq TRANSCRIPTOMIC cDNA Total RNA from the protoplasts was extracted using the RNeasy™ Micro Kit (QIAGEN) according to the manufacturer's instructions. RNA was eluted in 14-μl water, and RNA quality was monitored using a Bioanalyzer Pico chip (Agilent Technologies). cDNA was generated using SMART-Seq V4 Ultra Low Input RNA Kit (Clontech) with 18 amplification cycles, and RNA-seq libraries were generated using the TruSeq RNA Sample Prep Kit v2 (Illumina) according to the manufacturer's manual. The libraries were qualitatively and quantitatively verified and then loaded onto a flow cell for cluster generation using cBot and TruSeq PE Cluster Kit v3 (Illumina). Illumina HiSeq 2000