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ABSTRACT: Simplified Genome of Dendrobium officinale based on the specific length amplified fragment sequence (SLAF-seq)

PROVIDER: PRJNA785138 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR17084313_1.fastq.gz	Fastqsanger.gz
	SRR17084313_2.fastq.gz	Fastqsanger.gz
	SRR17084314_1.fastq.gz	Fastqsanger.gz
	SRR17084314_2.fastq.gz	Fastqsanger.gz
	SRR17084315_1.fastq.gz	Fastqsanger.gz

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Project description:Dendrobium officinale is a traditional medicinal herb with a mount of bioactive components. Alkaloid is one of the major active ingredients of Dendrobium plants, and its immune regulatory effects have been well-studied. A total of 4857 DEGs, including 2943 up- and 1932 down-regulated genes, were identified between the control and MeJA-treated groups. Several shikimate and methylerythritol 4-phosphate pathway genes and a number of MeJA-induced P450 family genes, aminotransferase genes and methyltransferase genes were identified, providing several important candidates to further elucidate the alkaloid biosynthetic pathway of D. officinale. Furthermore, a large number of MeJA-induced transcript factor encoding genes were identified, suggesting a complex genetic network affecting the alkaloid metabolism in D. officinale.

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Project description:Dendrobium officinale is a common and expensive traditional Chinese medicine used as a medicinal agent and food that has immunoregulatory and anti-inflammatory effects. Methods to authenticate D. officinale are lacking. Although chemical profiles of D. officinale were published, transcriptomic profiling is lacking. Here, we collected D. officinale from two regions (Yunnan and Miandian) and the analogue D. compactum. The Yunnan samples had three different quality levels. All samples were subjected to genome-wide biological response fingerprinting (BioReF) in RAW264.7 cells using RNA sequencing.

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Illumina sequencing reveals conserved and novel microRNAs involved in dendrobine biosynthesis in Dendrobium nobile

Project description:Dendrobium plants are perennial herbs in the family Orchidaceae (Dendrobium Sw.). Due to protocorm can also produce plant-specific useful metabolites, protocorm is becoming a good substitute. MicroRNAs play essential roles in plant growth, development, and the response to environmental stresses, and they are widely used for prediction of molecular functions for biosynthesizing active comportments in medicinal plants. To obtain insight into the function of miRNAs in Dendrobium plants. Illumina sequencing of D. nobile protocorm, D. officinale protocorm and D. nobile leaf were conducted. A total of 439, 412 and 432 miRNAs were identified in three samples, and their expression levels were significantly different. Specially, 2, 12 and 4 specific miRNAs were identified. Through integrated GO and KEGG function annotation, miRNAs mainly involved in metabolic pathways, plant hormone signal transduction, biological regulation and protein binding. AACT, MK, DXR and HDS as important enzymes in synthesizing basic precursor isoprene pyrophosphate (IPP). were predicted controlled by 6 different miRNAs in terpenoid backbone biosynthesis pathway. 26 miRNAs participated in Auxin, Cytoklinine, Abscisic acid, Jasmonic acid and Salicylic acid signal transduction pathway. Our results could provide valuable information about miRNAs involved in terpenoid biosynthesis and plant hormone signal transduction pathway in D. nobile and candidate genes for increasing the yield of dendrobine.

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