Transcriptome analysis was performed on leaf and stem samples of Pogostemon cablin (Blanco) Benth from three origins using the Illumina HiSeq platform

There are distinct differences in the content of active ingredients and medicinal quality between the leaves and stems of Pogostemon cablin from different origins. However, traditional studies can only observe phenotypic differences and fail to explain why different origins lead to variations in quality. In this study, high-throughput transcriptome sequencing was performed by integrating cDNA libraries constructed from a total of 36 samples, which were collected from the leaves and stems of Pogostemon cablin from three origins - including leaf and stem tissues of three varieties, namely NX, PX, and ZX, with 6 biological replicates for each.Total RNA was extracted using the Polysaccharide Polyphenol Plant Total RNA Extraction Kit, and RNA integrity and total amount were measured on the Agilent 2100 bioanalyzer biochip analysis system. The total RNA was used as the starting RNA for mRNA enrichment, cDNA synthesis, and cDNA library was obtained. Qubit2.0 Fluorometer was used for preliminary quantification of the library, and the effective concentration of the library >2nM was used as the high-quality quantitative data. HiSeq duplex sequencing of cDNA libraries using the transcriptome sequencing platform Nova Seq 600 yields a 150 bp paired end reads, saved as a raw sequencing file in Fastq format containing sequence information for the sequenced fragments and their corresponding sequencing quality information.The Q30 base percentage of all samples exceeded 90%. Meanwhile, the correlation analysis of the expression datasets revealed that samples from different origins showed distinct clustering of differences, whereas those within the same group exhibited high consistency.