Transcriptome sequencing with nanopore technology for acquiring a deeper understanding of abscisic acid regulation of secondary mechanisms in Salvia miltiorrhiza

Kuang, Xue-Jun; Sun, Sijie; Li, Yi; Zhang, Huibo; Guo, Baolin; Liu, Ying; Sun, Chao

doi:10.1016/j.indcrop.2022.114535

Cited by 5 publications

(2 citation statements)

References 44 publications

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“…The full‐length transcriptome based on the ONT platform can sequence entire cDNA molecules end‐to‐end; thus, compared with other methods, this method more easily and accurately identifies AS events, alternative polyadenylation (Kuang et al, 2022) and lncRNAs (Xin et al, 2022). In this study, we obtained large‐scale ONT full‐length transcriptome data from five C. acuminata tissues (YL, ML, F, S, and LR).…”

Section: Resultsmentioning

confidence: 99%

Integrated transcriptome and proteome analysis provides new insights into camptothecin biosynthesis and regulation in Camptotheca acuminata

Zhang

Shen

Sun

et al. 2023

Physiologia Plantarum

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Camptotheca acuminata Decne., the main source of camptothecin (CPT), has received increasing attention for its remarkable antitumor activity. Many CPT derivatives are clinically used as effective anticancer agents worldwide. However, their biosynthesis mechanism remains unclear, and uncovering this pathway would greatly facilitate development of alternative CPT production methods to replace current inefficient plant-derived ones. The expression of >30,000 genes was accurately quantified using unique molecular identifier RNA sequencing in 10 C. acuminata tissues, and 7854 proteins from five tissues were quantified with label-free quantitative proteomics.Fifteen full-length transcriptomes were sequenced with long-read Oxford Nanopore Technologies, and 5692 alternative splicing events were discovered among 4746 genes. Integrated transcriptome and proteome analysis provided novel insights into CPT biosynthesis and its hierarchical regulation. Five cytochrome P450s and three O-methyltransferases were considered as candidates involved in the biosynthesis of CPT and its derivatives, while 15 transcription factors potentially regulating CPT biosynthesis were screened. These findings provide important clues for elucidating the biosynthetic mechanisms of CPT and its derivatives and substantially contribute to the future production of these anticancer agents with synthetic biology. The generated large-scale multiomics data also provide valuable resources for investigating the functional genomics of the most important CPT-producing plant species-C. acuminata. | INTRODUCTIONCamptotheca acuminata, belonging to the Nyssaceae family, is a main source of camptothecin (CPT), a monoterpene indole alkaloid (MIA) that has received widespread attention due to its remarkable antitumor activities involving interactions with DNA topoisomerase I and inhibition of the proliferation of tumor cells Priel, Showalter, Roberts, et al., 1991). Two CPT derivatives, irinotecan and topotecan, are currently marketed worldwide as treatments for malignant tumors (Garcia-Carbonero & Supko, 2002;Scagliotti et al., 2016). The production of these derivatives completely depends on natural CPT, which is mainly extracted from C. acuminata. However, because of the low level of plantderived CPT, more widespread applications of these drugs have led to severe supply and demand problems. Synthetic biology and plant metabolic engineering are promising methods to match these increasing needs (Jiang et al., 2012;Lu et al., 2016). However, the lack of a full understanding of the CPT biosynthesis mechanism has Huibo Zhang and Xiaofeng Shen contributed equally to this work.

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Section: Resultsmentioning

confidence: 99%

Integrated transcriptome and proteome analysis provides new insights into camptothecin biosynthesis and regulation in Camptotheca acuminata

Zhang

Shen

Sun

et al. 2023

Physiologia Plantarum

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“…However, it is still unclear whether JA participated in PGA-regulated Tans and phenolic acid biosynthesis in S. miltiorrhiza alone or through cross-talk with other signal molecules. In addition, ABA has been proven to be a vital signal molecule in regulating the accumulation of Tans and phenolic acids in S. miltiorrhiza [61,62]. While it is still unknown whether ABA participated in PGA-regulated Tans and phenolic acid biosynthesis in S. miltiorrhiz.…”

Section: Discussionmentioning

confidence: 99%

Poly-Glutamic Acid Promotes the Growth and the Accumulation of Main Medicinal Components in Salvia miltiorrhiza

Shan,

Zhang,

Luo

et al. 2024

Agronomy

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Salvia miltiorrhiza Bunge is a traditional medicinal plant in China and poly-glutamic acid (PGA) is a valuable biopolymer. However, it is unclear whether PGA promotes growth and the accumulation of main medicinal components in S. miltiorrhiza. To elucidate this scientific question, the influences of PGA on the growth, physiological characteristics, and accumulation of main medicinal components in S. miltiorrhiza were explored through a pot experiment. The results revealed that PGA significantly promoted basal diameter, plant height, shoot and root biomass, as well as root volume, compared with control. PGA also increased SPAD value, net photosynthetic rate, actual and maximum photochemical efficiency of photosynthetic system II, photochemical quenching, and electronic transfer rate. Meanwhile, PGA increased transpiration rate, stomatal conductance, water use efficiency, leaf relative water content, and the contents of soluble protein, soluble sugar, and proline. Furthermore, PGA increased the activities of antioxidant enzymes and the contents of antioxidants. The above findings imply that PGA facilitated S. miltiorrhiza growth by enhancing photosynthetic performance, water metabolism, and antioxidant capacity. Additionally, PGA significantly improved the yield of rosmarinic acid, salvianolic acid B, dihydrotanshinone, cryptotanshinone, tanshinone I, and tanshinone ⅡA in roots by up-regulating the transcript levels of genes responsible for their biosynthesis. Our findings indicated that PGA promoted S. miltiorrhiza growth and the accumulation of main medicinal components in roots.

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Resilience Mechanism of Medicinal Plants Under Harsh Environment

dos Santos,

de Souza,

Magalhães

et al. 2023

Stress-Responsive Factors and Molecular Farming in Medicinal Plants

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Transcriptome sequencing with nanopore technology for acquiring a deeper understanding of abscisic acid regulation of secondary mechanisms in Salvia miltiorrhiza

Cited by 5 publications

References 44 publications

Integrated transcriptome and proteome analysis provides new insights into camptothecin biosynthesis and regulation in Camptotheca acuminata

Integrated transcriptome and proteome analysis provides new insights into camptothecin biosynthesis and regulation in Camptotheca acuminata

Poly-Glutamic Acid Promotes the Growth and the Accumulation of Main Medicinal Components in Salvia miltiorrhiza

Resilience Mechanism of Medicinal Plants Under Harsh Environment

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