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RNA mapping and differential expression analysis
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The low-quality and adaptor sequences were filtered out from raw reads using Trimmomatic and the clean reads were obtained. Then aligned the clean reads to the reference genome Os-Nipponbare version IRGSP-1.0 (annotation version 2022-09-01, https://rapdb.dna.affrc.go.jp/download/irgsp1.html) with Hisat2. The expression level of genes was measured by transcripts per Million (TPM). DESeq2 R package were used for the screening of differentially expressed genes (DEGs), the threshold of screening was |log2 (Fold Change)|≥1 and False discovery rate (FDR) ≤ 0.05.
Copyright and License information: ©2023 Shi, Zha, Yu, Wu, Li, Xu, Li, Li, Liu, Chen, Yang, Chen, Wu, Wan, Liu, Zhou and You
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