SRX868991 GSM1603932 SRP053346 SRS839789 GSM1603932 RNA-Seq TRANSCRIPTOMIC cDNA Total RNA extraction using RNeasy Plant Mini Kit (Qiagen) Multiplex RNA library construction and Illumina sequencing were carried out at the Beijing Genome Institute (BGI). The total RNA samples are first treated with DNase I. Then the mRNA is enriched by using the oligo(dT) magnetic beads. Mixed with the fragmentation buffer, the mRNA is fragmented into short fragments. Then the first strand of cDNA is synthesized by using random hexamer-primer. Buffer, dNTPs, RNase H and DNA polymerase I are added to synthesize the second strand. The double strand cDNA is purified with magnetic beads. End reparation and 3'-end single nucleotide A (adenine) addition is then performed. Finally, sequencing adaptors are ligated to the fragments. The fragments are enriched by PCR amplification. During the QC step, Agilent 2100 Bioanaylzer and ABI StepOnePlus Real-Time PCR System are used to qualify and quantify of the sample library. Approximately 20 million reads of 50 bp single-ended sequences were generated per sample using Illumina HiSeq2000. Illumina HiSeq 2000 GEO Sample GSM1603932 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1603932 gds 301603932 GEO Accession GSM1603932 SRX868992 GSM1603933 SRP053346 SRS839788 GSM1603933 RNA-Seq TRANSCRIPTOMIC cDNA Total RNA extraction using RNeasy Plant Mini Kit (Qiagen) Multiplex RNA library construction and Illumina sequencing were carried out at the Beijing Genome Institute (BGI). The total RNA samples are first treated with DNase I. Then the mRNA is enriched by using the oligo(dT) magnetic beads. Mixed with the fragmentation buffer, the mRNA is fragmented into short fragments. Then the first strand of cDNA is synthesized by using random hexamer-primer. Buffer, dNTPs, RNase H and DNA polymerase I are added to synthesize the second strand. The double strand cDNA is purified with magnetic beads. End reparation and 3'-end single nucleotide A (adenine) addition is then performed. Finally, sequencing adaptors are ligated to the fragments. The fragments are enriched by PCR amplification. During the QC step, Agilent 2100 Bioanaylzer and ABI StepOnePlus Real-Time PCR System are used to qualify and quantify of the sample library. Approximately 20 million reads of 50 bp single-ended sequences were generated per sample using Illumina HiSeq2000. Illumina HiSeq 2000 GEO Sample GSM1603933 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1603933 gds 301603933 GEO Accession GSM1603933 SRX868993 GSM1603934 SRP053346 SRS839787 GSM1603934 RNA-Seq TRANSCRIPTOMIC cDNA Total RNA extraction using RNeasy Plant Mini Kit (Qiagen) Multiplex RNA library construction and Illumina sequencing were carried out at the Beijing Genome Institute (BGI). The total RNA samples are first treated with DNase I. Then the mRNA is enriched by using the oligo(dT) magnetic beads. Mixed with the fragmentation buffer, the mRNA is fragmented into short fragments. Then the first strand of cDNA is synthesized by using random hexamer-primer. Buffer, dNTPs, RNase H and DNA polymerase I are added to synthesize the second strand. The double strand cDNA is purified with magnetic beads. End reparation and 3'-end single nucleotide A (adenine) addition is then performed. Finally, sequencing adaptors are ligated to the fragments. The fragments are enriched by PCR amplification. During the QC step, Agilent 2100 Bioanaylzer and ABI StepOnePlus Real-Time PCR System are used to qualify and quantify of the sample library. Approximately 20 million reads of 50 bp single-ended sequences were generated per sample using Illumina HiSeq2000. Illumina HiSeq 2000 GEO Sample GSM1603934 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1603934 gds 301603934 GEO Accession GSM1603934 SRX868994 GSM1603935 SRP053346 SRS839786 GSM1603935 RNA-Seq TRANSCRIPTOMIC cDNA Total RNA extraction using RNeasy Plant Mini Kit (Qiagen) Multiplex RNA library construction and Illumina sequencing were carried out at the Beijing Genome Institute (BGI). The total RNA samples are first treated with DNase I. Then the mRNA is enriched by using the oligo(dT) magnetic beads. Mixed with the fragmentation buffer, the mRNA is fragmented into short fragments. Then the first strand of cDNA is synthesized by using random hexamer-primer. Buffer, dNTPs, RNase H and DNA polymerase I are added to synthesize the second strand. The double strand cDNA is purified with magnetic beads. End reparation and 3'-end single nucleotide A (adenine) addition is then performed. Finally, sequencing adaptors are ligated to the fragments. The fragments are enriched by PCR amplification. During the QC step, Agilent 2100 Bioanaylzer and ABI StepOnePlus Real-Time PCR System are used to qualify and quantify of the sample library. Approximately 20 million reads of 50 bp single-ended sequences were generated per sample using Illumina HiSeq2000. Illumina HiSeq 2000 GEO Sample GSM1603935 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1603935 gds 301603935 GEO Accession GSM1603935 SRX868995 GSM1603936 SRP053346 SRS839785 GSM1603936 RNA-Seq TRANSCRIPTOMIC cDNA Total RNA extraction using RNeasy Plant Mini Kit (Qiagen) Multiplex RNA library construction and Illumina sequencing were carried out at the Beijing Genome Institute (BGI). The total RNA samples are first treated with DNase I. Then the mRNA is enriched by using the oligo(dT) magnetic beads. Mixed with the fragmentation buffer, the mRNA is fragmented into short fragments. Then the first strand of cDNA is synthesized by using random hexamer-primer. Buffer, dNTPs, RNase H and DNA polymerase I are added to synthesize the second strand. The double strand cDNA is purified with magnetic beads. End reparation and 3'-end single nucleotide A (adenine) addition is then performed. Finally, sequencing adaptors are ligated to the fragments. The fragments are enriched by PCR amplification. During the QC step, Agilent 2100 Bioanaylzer and ABI StepOnePlus Real-Time PCR System are used to qualify and quantify of the sample library. Approximately 20 million reads of 50 bp single-ended sequences were generated per sample using Illumina HiSeq2000. Illumina HiSeq 2000 GEO Sample GSM1603936 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1603936 gds 301603936 GEO Accession GSM1603936 SRX868996 GSM1603937 SRP053346 SRS839784 GSM1603937 RNA-Seq TRANSCRIPTOMIC cDNA Total RNA extraction using RNeasy Plant Mini Kit (Qiagen) Multiplex RNA library construction and Illumina sequencing were carried out at the Beijing Genome Institute (BGI). The total RNA samples are first treated with DNase I. Then the mRNA is enriched by using the oligo(dT) magnetic beads. Mixed with the fragmentation buffer, the mRNA is fragmented into short fragments. Then the first strand of cDNA is synthesized by using random hexamer-primer. Buffer, dNTPs, RNase H and DNA polymerase I are added to synthesize the second strand. The double strand cDNA is purified with magnetic beads. End reparation and 3'-end single nucleotide A (adenine) addition is then performed. Finally, sequencing adaptors are ligated to the fragments. The fragments are enriched by PCR amplification. During the QC step, Agilent 2100 Bioanaylzer and ABI StepOnePlus Real-Time PCR System are used to qualify and quantify of the sample library. Approximately 20 million reads of 50 bp single-ended sequences were generated per sample using Illumina HiSeq2000. Illumina HiSeq 2000 GEO Sample GSM1603937 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1603937 gds 301603937 GEO Accession GSM1603937 SRX868997 GSM1603938 SRP053346 SRS839783 GSM1603938 RNA-Seq TRANSCRIPTOMIC cDNA Total RNA extraction using RNeasy Plant Mini Kit (Qiagen) Multiplex RNA library construction and Illumina sequencing were carried out at the Beijing Genome Institute (BGI). The total RNA samples are first treated with DNase I. Then the mRNA is enriched by using the oligo(dT) magnetic beads. Mixed with the fragmentation buffer, the mRNA is fragmented into short fragments. Then the first strand of cDNA is synthesized by using random hexamer-primer. Buffer, dNTPs, RNase H and DNA polymerase I are added to synthesize the second strand. The double strand cDNA is purified with magnetic beads. End reparation and 3'-end single nucleotide A (adenine) addition is then performed. Finally, sequencing adaptors are ligated to the fragments. The fragments are enriched by PCR amplification. During the QC step, Agilent 2100 Bioanaylzer and ABI StepOnePlus Real-Time PCR System are used to qualify and quantify of the sample library. Approximately 20 million reads of 50 bp single-ended sequences were generated per sample using Illumina HiSeq2000. Illumina HiSeq 2000 GEO Sample GSM1603938 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1603938 gds 301603938 GEO Accession GSM1603938 SRX868998 GSM1603939 SRP053346 SRS839782 GSM1603939 RNA-Seq TRANSCRIPTOMIC cDNA Total RNA extraction using RNeasy Plant Mini Kit (Qiagen) Multiplex RNA library construction and Illumina sequencing were carried out at the Beijing Genome Institute (BGI). The total RNA samples are first treated with DNase I. Then the mRNA is enriched by using the oligo(dT) magnetic beads. Mixed with the fragmentation buffer, the mRNA is fragmented into short fragments. Then the first strand of cDNA is synthesized by using random hexamer-primer. Buffer, dNTPs, RNase H and DNA polymerase I are added to synthesize the second strand. The double strand cDNA is purified with magnetic beads. End reparation and 3'-end single nucleotide A (adenine) addition is then performed. Finally, sequencing adaptors are ligated to the fragments. The fragments are enriched by PCR amplification. During the QC step, Agilent 2100 Bioanaylzer and ABI StepOnePlus Real-Time PCR System are used to qualify and quantify of the sample library. Approximately 20 million reads of 50 bp single-ended sequences were generated per sample using Illumina HiSeq2000. Illumina HiSeq 2000 GEO Sample GSM1603939 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1603939 gds 301603939 GEO Accession GSM1603939