2,4-D induce RNA-Seq

S. kraussiana were treated with 2 µM concentration of 2,4-D, and then sampled on days 0, 2, and 4 for RNA extraction for sequencing. Library preparation and analytical methods such as tissue-specific RNA-Seq. The heatmap was displayed in TPM values.

Tissue specific RNA-Seq

For S. kraussiana tissue-specific RNA-seq, total RNA was separately extracted from the root tip, shoot tip, microphyll, stem, rhizophore tip, rhizophore primordium, rhizophore without tip, and root without tip. Illumina libraries were constructed and sequenced on the Illumina NovaSeq 6000 platform (LC-Bio Technology, HangZhou, China). The RNA sequencing results were filtered using fastp v0.23.2 with default parameters, then mapped to the S. kraussiana genome using HISAT2 v2.2.1 with the strand-specific parameter “--rna-strandness RF”. Reads were counted using featureCounts v2.0.178 with the strand-specific parameter “--s 2 -p”. The heatmap was displayed in TPM values.