Fig. 1

Bioinformatics pipeline and information analysis of non-redundant full-length non-chimeric transcripts in reeds. A The pipeline is used for the reconstruction of non-redundant FLNC transcriptome by isoseq 3 without a reference genome. SR: Swamp reed, DR: Dune reed, All: Sample constructed from merged sequencing data from DR and SR. B The distribution of reads in three reeds high-quality FLNC transcriptomes after Cluster and polish. HQ: High quality transcripts; LQ: Low quality transcripts."#" indicates the length distribution interval where transcript lengths differ significantly in DR and SR. C Summary statistics of predicted ORFs in the non-redundant FLNC transcriptome. The predicted ORF is marked as 'complete' when both start and stop codons exist; as "5' prime partial" when the start codon is missing, and as "3' prime partial" when the stop codon is missing; these ORFs that were missing both were marked as "internal". D Length distribution of LncRNAs identified in the non-redundant FLNC transcriptome. In the middle is a box-whisker plot reflecting transcript length dispersion, the upper peaks reflect the density of the length distribution of LncRNAs, and in the lower part is a scatter plot of the length distribution of LncRNAs. E Statistics of functional annotation results of ncRNAs in the P. australis non-redundant FLNC transcriptome database based on the Rfam-cm database using Infernal software. The bars represent the numbers of transcripts isoforms distributed to different Rfam families. SR and DR shown in grey and black respectively. F Distribution of the top 30 TF families predicted in the PlantTFDB. Bars represent the number of transcripts isoforms distributed to different TF families. SR and DR shown in grey and black respectively