Biological Resources Assessment Division, National Institute of Biological Resources, Incheon, Republic of Korea.
Department of Agriculture and Life Industry, Kangwon National University, Chuncheon 24341, South Korea; Agriculture and Life Sciences Research Institute, Kangwon National University, Chuncheon 24341, South Korea.
Genomics. 2019 Jul;111(4):973-979. doi: 10.1016/j.ygeno.2018.06.004. Epub 2018 Jul 10.
High-throughput RNA sequencing has revolutionized transcriptome-based studies of candidate genes, key pathways and gene regulation in non-model organisms. We analyzed full-length cDNA sequences in Zanthoxylum planispinum (Z. planispinum), a medicinal herb in major parts of East Asia. The full-length mRNA derived from tissues of leaf, early fruit and maturing fruit stage were sequenced using PacBio RSII platform to identify isoform transcriptome. We obtained 51,402 unigenes, with average 1781 bp per gene in 82.473 Mb gene lengths. Among 51,402, 3963 unigenes showed variety of isoform. By selection of one representative gene among each of the various isoforms, we finalized 46,306 unique gene set for this herb. We identified 76 cytochrome P450 (CYP450) and related isoforms that are of the wide diversity in the molecular function and biological process. These transcriptome data of Z. planispinum will provide a good resource to study metabolic engineering for the production of valuable medicinal drugs and phytochemicals.
高通量 RNA 测序技术极大地推动了非模式生物候选基因、关键途径和基因调控的基于转录组的研究。我们分析了药用植物花椒（Zanthoxylum planispinum）的全长 cDNA 序列，该植物在东亚大部分地区都有使用。使用 PacBio RSII 平台对来自叶片、早期果实和成熟果实组织的全长 mRNA 进行测序，以鉴定同工型转录组。我们获得了 51402 个 unigenes，每个基因的平均长度为 1781bp，基因总长为 82.473Mb。在 51402 个 unigenes 中，有 3963 个 unigenes 显示出多种同工型。通过在每种同工型中选择一个有代表性的基因，我们最终确定了该草药的 46306 个独特基因集。我们鉴定了 76 种细胞色素 P450（CYP450）和相关同工型，这些同工型在分子功能和生物过程中具有广泛的多样性。这些花椒的转录组数据将为研究用于生产有价值的药用药物和植物化学物质的代谢工程提供良好的资源。
