Search filters

List of works by Daisuke Shibata

12-oxo-phytodienoic acid triggers expression of a distinct set of genes and plays a role in wound-induced gene expression in Arabidopsis.

scientific article published on 28 October 2005

13-Oxo-9(Z),11(E),15(Z)-octadecatrienoic acid activates peroxisome proliferator-activated receptor γ in adipocytes

scientific article published on 27 November 2014

2-Hydroxyisoflavanone dehydratase is a critical determinant of isoflavone productivity in hairy root cultures of Lotus japonicus

scientific article published on 4 October 2007

9-Oxo-10(E),12(Z),15(Z)-Octadecatrienoic Acid Activates Peroxisome Proliferator-Activated Receptor α in Hepatocytes.

scientific article published on 19 September 2015

9-oxo-10(E),12(E)-Octadecadienoic acid derived from tomato is a potent PPAR α agonist to decrease triglyceride accumulation in mouse primary hepatocytes

scientific article published on 18 November 2010

A Cytosol-Localized Geranyl Diphosphate Synthase from Lithospermum erythrorhizon and Its Molecular Evolution

scientific article published on 23 January 2020

A Novel Conversion of Roots into Organs with Shoot Stem Characteristics by Inducing Two Transcription Factors

scholarly article

A proteomic approach to identification of transmembrane proteins and membrane-anchored proteins of Arabidopsis thaliana by peptide sequencing

scientific article published on 01 April 2004

ATTED-II: a database of co-expressed genes and cis elements for identifying co-regulated gene groups in Arabidopsis

scientific article published on 27 November 2006

Agrobacterium-mediated transformation of Eucalyptus globulus using explants with shoot apex with introduction of bacterial choline oxidase gene to enhance salt tolerance ⬇️

scientific article published on October 19, 2011

An Artificial Conversion of Roots into Organs with Shoot Stem Characteristics by Inducing Two Transcription Factors

scientific article published on 12 July 2020

An application of a relational database system for high-throughput prediction of elemental compositions from accurate mass values

scientific article

Analysis of a sugar response mutant of Arabidopsis identified a novel B3 domain protein that functions as an active transcriptional repressor

scientific article published on 13 May 2005

Analysis of gene expression in Arabidopsis thaliana by array hybridization with genomic DNA fragments aligned along chromosomal regions.

scientific article published in April 2002

Approaches for extracting practical information from gene co-expression networks in plant biology

scientific article published on 23 January 2007

Arabidopsis TRANSPARENT TESTA GLABRA2 is directly regulated by R2R3 MYB transcription factors and is involved in regulation of GLABRA2 transcription in epidermal differentiation

scientific article published on 31 August 2007

Arabidopsis cotyledon-specific chloroplast biogenesis factor CYO1 is a protein disulfide isomerase

scientific article published on 5 October 2007

Beta-cyanoalanine synthase as a molecular marker for induced resistance by fungal glycoprotein elicitor and commercial plant activators

scientific article

Characterization of lignocellulose of Erianthus arundinaceus in relation to enzymatic saccharification efficiency

Characterization of orphan monooxygenases by rapid substrate screening using FT-ICR mass spectrometry.

scientific article

Characterization of the ABA-regulated global responses to dehydration in Arabidopsis by metabolomics

scientific article published on 21 November 2008

Chemical properties of lignin from Aralia cordata ⬇️

scholarly article

Clarification of pathway-specific inhibition by Fourier transform ion cyclotron resonance/mass spectrometry-based metabolic phenotyping studies

scientific article published on 11 August 2006

Co-expressed Pathways DataBase for Tomato: a database to predict pathways relevant to a query gene

scientific article

CoP: a database for characterizing co-expressed gene modules with biological information in plants

scientific article published on 19 March 2010

Coexpression analysis of tomato genes and experimental verification of coordinated expression of genes found in a functionally enriched coexpression module

scientific article

Comparative analysis of expressed sequence tags in resistant and susceptible ecotypes of Arabidopsis thaliana infected with cucumber mosaic virus

scientific article published in April 2004

Comparative and stability analyses of 9- and 13-Oxo-octadecadienoic acids in various species of tomato

scientific article published on 07 August 2011

Comparative multi-omics analysis reveals diverse latex-based defense strategies against pests among latex-producing organs of the fig tree (Ficus carica).

scientific article published on 13 March 2018

Comparative transcriptomic characterization of aluminum, sodium chloride, cadmium and copper rhizotoxicities in Arabidopsis thaliana.

scientific article

Compensation for lack of a cytosolic ascorbate peroxidase in an Arabidopsis mutant by activation of multiple antioxidative systems

scientific article published in 2004

ConfeitoGUI: A toolkit for size-sensitive community detection from a correlation network

scientific article published in PLoS ONE

Construction and analysis of EST libraries of the trans-polyisoprene producing plant, Eucommia ulmoides Oliver ⬇️

scientific article published on June 24, 2012

Coordinated activation of metabolic pathways for antioxidants and defence compounds by jasmonates and their roles in stress tolerance in Arabidopsis

scientific article published in November 2005

Cryopreservation and metabolic profiling analysis of Arabidopsis T87 suspension-cultured cells

scientific article published on September 2008

Cytochrome P450 CYP710A encodes the sterol C-22 desaturase in Arabidopsis and tomato.

scientific article published on 10 March 2006

De novo transcriptome analysis of needles of Thujopsis dolabrata var. hondae

scientific article published on 01 January 2019

Development of KaPPA-View4 for omics studies on Jatropha and a database system KaPPA-Loader for construction of local omics databases

article

Differential metabolomics unraveling light/dark regulation of metabolic activities in Arabidopsis cell culture.

scientific article published on 15 August 2007

Distinctive features of plant organs characterized by global analysis of gene expression in Arabidopsis

scientific article

Efficient and high-throughput vector construction and Agrobacterium-mediated transformation of Arabidopsis thaliana suspension-cultured cells for functional genomics

scientific article published on 4 January 2008

Elucidation of gene-to-gene and metabolite-to-gene networks in arabidopsis by integration of metabolomics and transcriptomics

scientific article published on 2 May 2005

Enhancement of production of eugenol and its glycosides in transgenic aspen plants via genetic engineering ⬇️

scientific article published on May 23, 2013

Esculeogenin A, a new tomato sapogenol, ameliorates hyperlipidemia and atherosclerosis in ApoE-deficient mice by inhibiting ACAT.

scientific article published on 13 September 2007

Expressed sequence tags from the laboratory-grown miniature tomato (Lycopersicon esculentum) cultivar Micro-Tom and mining for single nucleotide polymorphisms and insertions/deletions in tomato cultivars

scientific article published in August 2005

FlavonoidSearch: A system for comprehensive flavonoid annotation by mass spectrometry

scientific article

Functional analysis of isoforms of NADPH: protochlorophyllide oxidoreductase (POR), PORB and PORC, in Arabidopsis thaliana.

scientific article published in October 2003

Gene expression profiling of coccolith-bearing cells and naked cells in haptophyte Pleurochrysis haptonemofera with a cDNA macroarray system

scientific article

Genome-wide analysis of ATP binding cassette (ABC) transporters in tomato

scientific article published in PLoS ONE

Genome-wide identification and expression analysis of aquaporins in tomato

scientific article

High-throughput cryopreservation of plant cell cultures for functional genomics.

scientific article

Identification and Characterization of ANAC042, a Transcription Factor Family Gene Involved in the Regulation of Camalexin Biosynthesis in Arabidopsis ⬇️

scientific article published on May 1, 2012

Identification of anther-specific genes in a cruciferous model plant, Arabidopsis thaliana, by using a combination of Arabidopsis macroarray and mRNA derived from Brassica oleracea ⬇️

scholarly article

Identification of flavonoid 8-hydroxylase with gossypetin synthase activity from flower specific EST data of Lotus Japonicus

scientific article published on 08 January 2021

Improvement of the quantitative differential metabolome pipeline for gas chromatography-mass spectrometry data by automated reliable peak selection

Intake and transformation to a glycoside of (Z)-3-hexenol from infested neighbors reveals a mode of plant odor reception and defense

scientific article

Integrated analysis of the effects of cold and dehydration on rice metabolites, phytohormones, and gene transcripts

article

Involvement of ethylene in the accumulation of esculeoside A during fruit ripening of tomato (Solanum lycopersicum).

scientific article published in April 2009

Isolation of highly thermostable β-xylosidases from a hot spring soil microbial community using a metagenomic approach

scientific article published on 7 August 2017

KAGIANA: an excel-based tool for retrieving summary information on Arabidopsis genes

scientific article

KaPPA-View4: a metabolic pathway database for representation and analysis of correlation networks of gene co-expression and metabolite co-accumulation and omics data

scientific article

KaPPA-view: a web-based analysis tool for integration of transcript and metabolite data on plant metabolic pathway maps

scientific article

Klebsormidium flaccidum genome reveals primary factors for plant terrestrial adaptation

scientific article

Large-scale analysis of full-length cDNAs from the tomato (Solanum lycopersicum) cultivar Micro-Tom, a reference system for the Solanaceae genomics

scientific article

Large-scale analysis of gene expression profiles during early stages of root nodule formation in a model legume, Lotus japonicus

scientific article published in August 2004

Leaf senescence and starvation-induced chlorosis are accelerated by the disruption of an Arabidopsis autophagy gene

scientific article

Localization of 9- and 13-oxo-octadecadienoic acids in tomato fruit

scientific article published on 25 July 2014

Long-chain free fatty acid profiling analysis by liquid chromatography-mass spectrometry in mouse treated with peroxisome proliferator-activated receptor α agonist.

scientific article published on 7 November 2013

Lotus burttii Takes a Position of the Third Corner in the Lotus Molecular Genetics Triangle

article

MYB-mediated upregulation of lignin biosynthesis in Oryza sativa towards biomass refinery

scientific article published on 17 March 2017

Mass spectrometry-based metabolomics to identify taurine-modified metabolites in heart

scientific article published on 10 October 2017

MassBank: a public repository for sharing mass spectral data for life sciences

scientific article (publication date: 7 July 2010)

MatchedIonsFinder: A software tool for revising alignment matrices of spectrograms from liquid chromatography-mass spectrometry

article

Metabolic alterations in organic acids and gamma-aminobutyric acid in developing tomato (Solanum lycopersicum L.) fruits.

scientific article published in July 2010

Metabolic analysis of the cinnamate/monolignol pathway in Carthamus tinctorius seeds by a stable-isotope-dilution method

scientific article published on 29 January 2007

Metabolic pathways involved in cold acclimation identified by integrated analysis of metabolites and transcripts regulated by DREB1A and DREB2A.

scientific article

Metabolic profiling of flavonoids in Lotus japonicus using liquid chromatography Fourier transform ion cyclotron resonance mass spectrometry

scientific article published on 31 July 2007

Metabolic profiling using Fourier-transform ion-cyclotron-resonance mass spectrometry

scientific article published on 6 October 2007

Metabolite annotations based on the integration of mass spectral information

scientific article published on 7 February 2008

Metabolome Analysis Identified Okaramines in the Soybean Rhizosphere as a Legacy of Hairy Vetch

scientific article published on 24 February 2020

Metabolome profile of Negi-Nira chive, an interspecies hybrid of green spring onion (Allium fistulosum) and Chinese chive (A. tuberosum)

scientific article published on 01 September 2020

Metabolomics reveal 1-palmitoyl lysophosphatidylcholine production by peroxisome proliferator-activated receptor α.

scientific article published on 15 December 2014

Metabolonote: a wiki-based database for managing hierarchical metadata of metabolome analyses

scientific article

Natural variation of Arabidopsis thaliana reveals that aluminum resistance and proton resistance are controlled by different genetic factors

scientific article published on 28 July 2007

Novel plant immune-priming compounds identified via high-throughput chemical screening target salicylic acid glucosyltransferases in Arabidopsis

scientific article

Omics-based identification of Arabidopsis Myb transcription factors regulating aliphatic glucosinolate biosynthesis

scholarly article

Over-expression of transcription associated factor genes co-expressed with genes of the mevalonate pathway, upstream of isoprenoid biosynthesis, in Arabidopsis cultured cells

article

PCR detection of type I polyketide synthase genes in myxobacteria

scientific article published on 7 July 2008

Pathway engineering of Brassica napus seeds using multiple key enzyme genes involved in ketocarotenoid formation

scientific article published on 9 February 2009

Phylogenetic analysis of Bacillus P450 monooxygenases and evaluation of their activity towards steroids.

scientific article published on 25 June 2009

Plant lanosterol synthase: divergence of the sterol and triterpene biosynthetic pathways in eukaryotes

scientific article published on 10 March 2006

Pleurochrysome: A Web Database of Pleurochrysis Transcripts and Orthologs Among Heterogeneous Algae

scientific article

Potent PPARα activator derived from tomato juice, 13-oxo-9,11-octadecadienoic acid, decreases plasma and hepatic triglyceride in obese diabetic mice

scientific article (publication date: 2012)

Precise Sequential DNA Ligation on A Solid Substrate: Solid-Based Rapid Sequential Ligation of Multiple DNA Molecules.

scientific article published on 16 November 2014

Precise sequential DNA ligation on a solid substrate: solid-based rapid sequential ligation of multiple DNA molecules

scientific article published on 29 July 2013

STOP1 regulates multiple genes that protect arabidopsis from proton and aluminum toxicities

scientific article

Spermidine synthase genes are essential for survival of Arabidopsis

scientific article published on 9 July 2004

Steroidal glycoalkaloid profiling and structures of glycoalkaloids in wild tomato fruit ⬇️

scientific article published on August 10, 2013

Structures and reactions of compounds involved in pink discolouration of onion ⬇️

scientific article published on January 16, 2013

Suppression of camptothecin biosynthetic genes results in metabolic modification of secondary products in hairy roots of Ophiorrhiza pumila

article

Suppression of carotenoid synthesis in transgenic Arabidopsis cultured cells over-expressing the AHL29/SOB3 gene

article

TOMATOMET: A metabolome database consists of 7118 accurate mass values detected in mature fruits of 25 tomato cultivars

scientific article published in 2021

Tangled evolutionary processes with commonality and diversity in plastidial glycolipid synthesis in photosynthetic organisms.

scientific article

The Arabidopsis TAC Position Viewer: a high-resolution map of transformation-competent artificial chromosome (TAC) clones aligned with the Arabidopsis thaliana Columbia-0 genome.

scientific article published on 30 July 2015

The CKH1/EER4 Gene Encoding a TAF12-Like Protein Negatively Regulates Cytokinin Sensitivity in Arabidopsis thaliana ⬇️

scientific article published on February 25, 2011

The CKH2/PKL chromatin remodeling factor negatively regulates cytokinin responses in Arabidopsis calli

scientific article published on 25 February 2011

The choline oxidase gene codA confers salt tolerance to transgenic Eucalyptus globulus in a semi-confined condition

scientific article published on 01 June 2013

The prediction of local modular structures in a co-expression network based on gene expression datasets.

scientific article published in October 2009

The sugar transporter inventory of tomato: genome-wide identification and expression analysis

scientific article published on 14 May 2014

Tomato extract suppresses the production of proinflammatory mediators induced by interaction between adipocytes and macrophages.

scientific article

Tools and databases of the KOMICS web portal for preprocessing, mining, and dissemination of metabolomics data.

scientific article

Transcriptome Analysis of Nine Tissues to Discover Genes Involved in the Biosynthesis of Active Ingredients in Sophora flavescens

scientific article published on January 2015

Transcriptomic landscape of Pueraria lobata demonstrates potential for phytochemical study

scientific article published on 22 June 2015

Transient increase in salicylic acid and its glucose conjugates after wounding in Arabidopsis leaves

scientific article published in 2010

Traumatin- and dinortraumatin-containing galactolipids in Arabidopsis: their formation in tissue-disrupted leaves as counterparts of green leaf volatiles

scientific article published on 25 July 2013

Wide-range screening of anti-inflammatory compounds in tomato using LC-MS and elucidating the mechanism of their functions.

scientific article published on 12 January 2018

Paulina is supported by:

About Paulina

Help