ArticleBMC genomics2016
Comparative transcriptome analysis of Gastrodia elata (Orchidaceae) in response to fungus symbiosis to identify gastrodin biosynthesis-related genes.
Article in BMC genomics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.
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Who cites it
40 citing papers in PubMed, 68 citations in OpenAlex.
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- Armillaria mellea sensu lato and related Armillaria species at the crossroads of taxonomy, ecology, and biotechnology: a multi-dimensional review.Archives of microbiology · 2026Review
- Orchid genome evolution and trait innovation.Journal of integrative plant biology · 2026Review
- GeARF5/GeIAA33-GeSWEET14 module balances the secondary metabolic biosynthesis to increase the yield and quality in Gastrodia elata.Journal of integrative plant biology · 2026Article
- Genome-wide identification, evolutionary analysis, and expression profiling of pathogen recognition genes in Gastrodia elata.BMC plant biology · 2026Article
- Effects of developmental stage-driven fungal community shifts on biomass and metabolite accumulation in Gastrodia elata.Environmental microbiome · 2026Article
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- Transcriptome characterization and population genetics ofBiodiversity data journal · 2026Article
- Unraveling the metabolic network and key bioactive compound accumulation during critical developmental stages ofFrontiers in plant science · 2026Article
- An enhanced gene function analysis platform for Gastrodia Elata integrating further omics data and analysis tools.BMC plant biology · 2025Article
- GePIF4 Increases the Multi-Flower/Capsule-Bearing Traits and Gastrodin Biosynthesis inPlants (Basel, Switzerland) · 2025Article
- Whole genome sequencing and analysis of the symbiotic Armillaria gallica M3 with Gastrodia elata.BMC genomics · 2025Article
- Efficient Biosynthesis of Gastrodin by UDP-Glycosyltransferase fromJournal of microbiology and biotechnology · 2025Article
- Integrated transcriptome and metabolome provide insight into phenolics and soluble sugar variation in the different varieties ofFrontiers in plant science · 2025Article
- Transcriptomic and protein-protein interaction network analyses of the molecular mechanisms underlying the mycorrhizal interaction inFrontiers in plant science · 2025Article
- Recombinant Expression and Characterization of an Alkali-tolerant UDP-Glycosyltransferase fromJournal of microbiology and biotechnology · 2024Article
- Transcriptomic analysis unveils alterations in the genetic expression profile of tree peony (Paeonia suffruticosa Andrews) infected by Alternaria alternata.BMC genomics · 2024Article
- Perspective and challenges of mycorrhizal symbiosis in orchid medicinal plants.Chinese herbal medicines · 2024Review
- Comparative transcriptome and metabolome analyses of fourJournal of ginseng research · 2023Article
- Insights into the nutritional properties and molecular basis of biosynthesis of amino acids and vitamins ofFrontiers in plant science · 2023Article
Corrections and comments
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Authors and funding
7 authors at 6 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundGastrodia elata Blume (Orchidaceae) is an important Chinese medicine with several functional components. In the life cycle of G. elata, the orchid develops a symbiotic relationship with two compatible mycorrhizal fungi Mycena spp. and Armillaria mellea during seed germination to form vegetative propagation corm and vegetative growth to develop tubers, respectively. Gastrodin (p-hydroxymethylphenol-beta-D-glucoside) is the most important functional component in G. elata, and gastrodin significantly increases from vegetative propagation corms to tubers. To address the gene regulation mechanism in gastrodin biosynthesis in G. elata, a comparative analysis of de novo transcriptome sequencing among the vegetative propagation corms and tubers of G. elata and A. mellea was conducted using deep sequencing.
resultsTranscriptome comparison between the vegetative propagation corms and juvenile tubers of G. elata revealed 703 differentially expressed unigenes, of which 298 and 405 unigenes were, respectively up-regulated (fold-change ≥ 2, q-value < 0.05, the trimmed mean of M-values (TMM)-normalized fragments per kilobase of transcript per Million mapped reads (FPKM) > 10) and down-regulated (fold-change ≤ 0.5, q-value <0.05, TMM-normalized FPKM > 10) in juvenile tubers. After Gene Ontology (GO) annotation and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis, 112 up-regulated unigenes with KEGG Ortholog identifiers (KOids) or enzyme commission (EC) numbers were assigned to 159 isogroups involved in seventy-eight different pathways, and 132 down-regulated unigenes with KOids or EC numbers were assigned to 168 isogroups, involved in eighty different pathways. The analysis of the isogroup genes from all pathways revealed that the two unigenes TRINITY_DN54282_c0_g1 (putative monooxygenases) and TRINITY_DN50323_c0_g1 (putative glycosyltransferases) might participate in hydroxylation and glucosylation in the gastrodin biosynthetic pathway.
conclusionsThe gene expression of the two unique unigenes encoding monooxygenase and glycosyltransferase significantly increases from vegetative propagation corms to tubers, and the molecular basis of gastrodin biosynthesis in the tubers of G. elata is proposed.
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