An equal mixture of RNA from all samples of two periods was used for the Pacific Bioscience (PacBio) library construction. The mRNA containing polyA was enriched with Oligo(dT), which was then reversely transcribed into cDNA using the Clontech SMARTer PCR cDNA synthesis kit. After PCR amplification, DNA damage repair, end repair, SMRT adapter ligation, size fractionation, and selection (<4 and >4 kb), two SMRT bell libraries were constructed, and the combined SMRT bell library was then sequenced on the PacBio Sequel System.

lncRNA and small RNA sequencing libraries were generated using NEBNext® Ultra™ Directional RNA Library Prep Kit (NEB, USA) and NEBNext® Multiplex Small RNA Library Prep Set (NEB, USA), respectively, following the manufacturer's recommendations. The PCR products were purified (AMPure XP system), and library quality was assessed on the Agilent Bioanalyzer 2100 system. After cluster generation of the index-coded samples using TruSeq PE Cluster Kit v3-cBot-HS (Illumina), the libraries were sequenced on an Illumina HiSeq 2500 platform. Then 125 bp paired-end reads and 50 bp single-end reads were generated in lncRNA and small RNA libraries, respectively.

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