Abstract
This study aimed to obtain the full-length transcriptome of purslane (Portulaca oleracea); assorted plant samples were used for single-molecule real-time (SMRT) sequencing. Based on SMRT, functional annotation of transcripts, transcript factors (TFs) analysis, simple sequence repeat analysis and long non-coding RNAs (LncRNAs) prediction were accomplished. Total 15.33-GB reads were produced; with 9,350,222 subreads and the average length of subreads, 1640 bp was counted. With 99.99% accuracy, after clustering, 132,536 transcripts and 78,559 genes were detected. All unique SMART transcripts were annotated in seven functional databases. 4180 TFs (including transcript regulators) and 7289 LncRNAs were predicted. The results of RNA-seq were confirmed with qRT–PCR analysis. Illumina sequencing of leaves and roots of two purslane genotypes was carried out. Amounts of differential expression genes and related KEGG pathways were found. The expression profiles of related genes in the biosynthesis of unsaturated fatty acids pathway in leaves and roots of two genotypes of purslane were analyzed. Differential expression of genes in this pathway built the foundation of ω-3 fatty acid accumulation in different organs and genotypes of purslane. The aforementioned results provide sequence information and may be a valuable resource for whole-genome sequencing of purslane in the future.
Highlights
IntroductionPurslane is one of the most abundant terrestrial vegetables in spite of its genetic assortment [1,2,3] and generally recognized as purslane (the USA and Australia), Ma-Chi-Xian (China) [4] and kurfa in (Pakistan) [5,6]
Illumina sequencing was performed on leaves or roots of two purslane genotypes, Illumina was performed on leaves Clean or roots of of two purslane genotype separately, with sequencing three independent biological replicates
The same with other reports [27,28,29,30], our results have shown that single-molecule real-time (SMRT) technology was an efficient tool for full-length cDNA sequencing and provided a rich resource for further functional genomics analysis in purslane
Summary
Purslane is one of the most abundant terrestrial vegetables in spite of its genetic assortment [1,2,3] and generally recognized as purslane (the USA and Australia), Ma-Chi-Xian (China) [4] and kurfa in (Pakistan) [5,6]. It has been used as an important traditional medicinal plant and itemized by the World Health Organization as “Global Panacea” [7]
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