Comparative transcriptome analysis reveals a gene expression profile that contributes to rhizome swelling in Panax japonicus var. major

Abstract Panax japonicus var. major is a rare and endangered Chinese traditional medicinal plant that simultaneously forms two types of rhizomes (Swp: Swollen part and Slp: Slender part). However, the mechanism controlling rhizome enlargement in P. japonicus var. major is poorly understood. In this study, the mechanism of rhizome enlargement was investigated by comparing the differences of internal anatomy, hormone contents, starch content and molecular transcription levels between Swp and Slp of in P. japonicus var. major. Illumina sequencing generated 1,333 differentially expressed genes (DEGs) that were differentially expressed between the two samples. Pathway enrichment analysis revealed that DEGs involved in starch and sucrose metabolism, diterpenoid biosynthesis and plant hormone signal transduction pathway were significantly enriched. Additionally, starch determination results showed that starch content in the swollen part was significantly higher than that in the slender part. Furthermore, hormone determination results showed that gibberellin A1 (GA1), gibberellin A53 (GA53), indole-3-acetic acid (IAA) and jasmonic acid (JA) contents were negatively correlated, while cis-zeatin (cZ) content was positively correlated with rhizome enlargement. The results of this research screened out several DEGs and potential candidate genes for rhizome enlargement, which lays the foundation for the identification of expanded genes in Panax species.

• Publication year

  2020

• Venue

  Plant Biosystems

• Publication date

  2020-07-03

• Fields of study

  Biology, Environmental Science

• Identifiers
  DOI 10.1080/11263504.2019.1651774
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar

• No claims are published for this paper.

• No concepts are published for this paper.

• Comparative Proteomic Analysis of Potato (Solanum tuberosum L.) Tuberization In Vitro Regulated by IAA

  2018cited by this paper
• The Multiple Signals That Control Tuber Formation1[OPEN]

  2017cited by this paper
• Key players associated with tuberization in potato: potential candidates for genetic engineering

  2017cited by this paper
• Effects of high temperature on starch morphology and the expression of genes related to starch biosynthesis and degradation

  2017cited by this paper
• Hormone regulation of rhizome development in tall fescue (Festuca arundinacea) associated with proteomic changes controlling respiratory and amino acid metabolism.

  2016cited by this paper
• Proteomics Profiling Reveals Carbohydrate Metabolic Enzymes and 14-3-3 Proteins Play Important Roles for Starch Accumulation during Cassava Root Tuberization

  2016cited by this paper
• Transcriptomic Analysis of the Regulation of Rhizome Formation in Temperate and Tropical Lotus (Nelumbo nucifera)

  2015cited by this paper
• Protein-protein interactions among enzymes of starch biosynthesis in high-amylose barley genotypes reveal differential roles of heteromeric enzyme complexes in the synthesis of A and B granules.

  2015cited by this paper
• Characterization of Global Transcriptome Using Illumina Paired-End Sequencing and Development of EST-SSR Markers in Two Species of Gynostemma (Cucurbitaceae)

  2015cited by this paper
• The role of cis-zeatin-type cytokinins in plant growth regulation and mediating responses to environmental interactions.

  2015cited by this paper
• Starch accumulation, activities of key enzyme and gene expression in starch synthesis of wheat endosperm with different starch contents

  2014cited by this paper
• Role of the gibberellin receptors GID1 during fruit-set in Arabidopsis.

  2014cited by this paper
• 骨髄異形成症候群のgenome-wide analysis

  2013cited by this paper
• Strigolactones stimulate internode elongation

  2013cited by this paper
• Hormonal Regulation of Tuber Formation in Potato

  2013cited by this paper
• Strigolactones Stimulate Internode Elongation Independently of Gibberellins1[C][W]

  2013cited by this paper
• Genome-Wide Analysis of Differentially Expressed Genes Relevant to Rhizome Formation in Lotus Root (Nelumbo nucifera Gaertn)

  2013cited by this paper
• Hormonal regulation of tuber formation in potato plants

  2012cited by this paper
• Cytokinin Profiles of AtCKX2-Overexpressing Potato Plants and the Impact of Altered Cytokinin Homeostasis on Tuberization In Vitro

  2012cited by this paper
• Nitric oxide influences auxin signaling through S-nitrosylation of the Arabidopsis TRANSPORT INHIBITOR RESPONSE 1 auxin receptor.

  2012cited by this paper
• From the model to the crop: genes controlling tuber formation in potato.

  2011cited by this paper
• Trinity: reconstructing a full-length transcriptome without a genome from RNA-Seq data

  2011cited by this paper
• Bioactive constituents from the roots of Panax japonicus var. major and development of a LC-MS/MS method for distinguishing between natural and artifactual compounds.

  2011cited by this paper
• Dynamic Relationships between Structural Characteristic and Saponins Accumulation in Rhizome of Panax japonicus var.major

  2011cited by this paper
• Photoperiodic inhibition of potato tuberization: an update

  2010cited by this paper
• Interaction between day length and phytohormones in the control of potato tuberization in the in vitro culture

  2009cited by this paper
• Overexpression of IAA1 with domain II mutation impairs cell elongation and cell division in inflorescences and leaves of Arabidopsis.

  2009cited by this paper
• Morphoanatomy of the stem in Cyperaceae

  2009cited by this paper
• Mapping and quantifying mammalian transcriptomes by RNA-Seq

  2008cited by this paper
• The effects of IAA and tetcyclacis on tuberization in potato (Solanum tuberosum L.) shoot cultures in vitro

  2008cited by this paper
• Responses of Potato (Solanum tuberosum L.) to Green Manure Cover Crops and Nitrogen Fertilization Rates

  2008cited by this paper
• Gibberellin metabolism and its regulation.

  2008influential reference
• Genetic modification of cassava for enhanced starch production.

  2006cited by this paper
• Turning on gibberellin and abscisic acid signaling.

  2006cited by this paper
• Seasonal control of tuberization in potato: conserved elements with the flowering response.

  2006cited by this paper
• Multiple Type-B Response Regulators Mediate Cytokinin Signal Transduction in Arabidopsisw⃞

  2005cited by this paper
• Effect of Rol Transgenes, IAA, and Kinetin on Starch Content and the Size of Starch Granules in Tubers of In Vitro Potato Plants

  2005cited by this paper
• Molecular controls of tuberization

  2004cited by this paper
• The tandem complex of BEL and KNOX partners is required for transcriptional repression of ga20ox1.

  2004cited by this paper
• Activities of key enzymes for starch synthesis in relation to growth of superior and inferior grains on winter wheat (Triticum aestivum L.) spike

  2003cited by this paper
• The Auxin-induced Maize Gene ZmSAUR2 Encodes a Short-lived Nuclear Protein Expressed in Elongating Tissues*

  2003cited by this paper
• Mechanical architecture and development in Clematis: implications for canalised evolution of growth forms.

  2003cited by this paper
• Auxin-Gibberellin Interactions in Pea: Integrating the Old with the New

  2003cited by this paper
• Changes in jasmonate and gibberellin levels during development of potato plants (Solanum tuberosum)

  2002cited by this paper
• Quick on the Uptake: Characterization of a Family of Plant Auxin Influx Carriers

  2001cited by this paper
• Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method.

  2001cited by this paper
• The Interaction of Gibberellins and Photoperiod in the Control of Potato Tuberization

  2001cited by this paper
• Correlation of cell division and cell expansion to potato microtuber growth in vitro

  2001cited by this paper
• Bud regeneration from inflorescence explants for rapid propagation of geophytes in vitro

  2000cited by this paper
• Sucrose Synthase, UDP-glucose pyrophosphorylase and ADP-glucose Pyrophosphorylase in Korea Ginseng Roots

  2000cited by this paper
• Evidence that auxin promotes gibberellin A1 biosynthesis in pea.

  2000cited by this paper
• Changes in GA 20-oxidase gene expression strongly affect stem length, tuber induction and tuber yield of potato plants.

  2000cited by this paper

• Chemical composition and transcriptomic analysis revealed the dynamic changes of saponins during the growth of Panax japonicus var. major

  2025cites this paper
• Characterization of ginsenosides from Panax japonicus var. major (Zhu-Zi-Shen) based on ultra-high performance liquid chromatography/quadrupole time-of-flight mass spectrometry and desorption electrospray ionization-mass spectrometry imaging

  2023cites this paper
• The clonal growth in Aconitum carmichaelii Debx

  2022cites this paper
• Identification of two UDP-glycosyltransferases involved in the main oleanane-type ginsenosides in Panax japonicus var. major

  2021cites this paper
• De novo and comparative transcriptomic analysis explain morphological differences in Panax notoginseng taproots

  2021cites this paper
• Comparative transcriptomics of a monocotyledonous geophyte reveals shared molecular mechanisms of underground storage organ formation

  2019cites this paper