Metabolic Systems Research Team

Laboratories

What's New

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Information

  • Sep.11, 2012
    The analysis system that Dr.Sawada developed was published on the Riken web site.
    If you interested in it, please contact to Riken collaborations division.

    New algorithm to manage wide-targeting analysis We've developed innovative management algorithm to enable the wide-targeting analysis for a large-scale detection object. It makes us able to examine the experimental conditions instantly.
    Inventers  : Sawada Y. Hirai M.Y. 
    Title of invention  : "Scheduling device, scheduling method, scheduling program, storage medium, and mass spectrometry system " 
    Applicant  : RIKEN 
    Patent application no.  : Japan( No.2010-104563) , USA (in proceduer) 

News

    2017


  • Mar.16-18, 2017
    At The 58th Annual Meeting of the Japanese Society of Plant Physiologists (Kagoshima), the members of our lab did oral presentations.
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    2016


  • Sep. 14-17, 2016
    At The 5th Sulphyton Workshop: “Sulfur Nutrition and Metabolism in Plants”(Taipei), two members of our lab did oral presentations.
    Eiji Okamura "A novel regulatory mechanism of the phosphorylated pathway of serine biosynthesis in Arabidopsis thaliana"
    Yimeng Li "Changes in aliphatic glucosinolate profiles in response to abiotic stresses"
  • Sep. 1-3, 2016
    At The 34th Annual Meeting of the Japanese Society for Plant Cell and Molecular Biology (Ueda), five members of our lab did oral presentations.
    Yuji Sawada "Seed-grain-based metabolomics of Arabidopsis thaliana"
    K. Sriyudthsak "Genome-scale mathematical model to systematically understand an entire response of plant metabolism to environmental stresses"
    Eiji Okamura "A novel regulation mechanism of phosphorylation pathway for serine biosynthesis in plant"
    Yimeng Li "Changes of gene expression involved in aliphatic glucosinolate secondary modification in response to abiotic stresses"
    Hiromichi Akashi "Studies on a serine biosynthetic enzyme 3-phosphoglycerate dehydrogenase in liverwort Marchantia polymorpha"
  • Sep. 3, 2016
    At The 34th Annual Meeting of the Japanese Society for Plant Cell and Molecular Biology (Ueda), Dr.Hirai, team leader of our lab, gave an invited lecture.(No English title)
  • Mar.19-20, 2016
    At The 57th Annual Meeting of the Japanese Society of Plant Physiologists (Iwate), six members of our lab did oral presentations. (No English title)
  • Feb. 17, 2016
    Dr. Hirai, team leader of our lab, have been selected to the list of Highly Cited Researchers 2015 published by Thomson Reuters.
    RIKEN Center for Sustainable Resource Science
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    2015


    Oct. 1, 2015
    At The 9th Metabolome Symposium (Mishima), Dr. Kansuporn Sriyudthsak did an oral presentation. (No English title)
  • Sep. 17-18, 2015
    At International Symposium on Synthetic Systems Biology Joint 14th Symposium of Biochemical Systems Theory (BST2015) (Fukuoka), Dr. Kansuporn Sriyudthsak did an oral presentation and a poster presentation.
    [ Oral Presentation ]
    K. Sriyudthsak "A combined approach for constructing a large-scale in vivo kinetic model using limiting number of metabolite concentrations"
    [ Poster Presentation ]
    K. Sriyudthsak "PENDISC:A method for reducing a number of parameters in the process of model construction"
  • Aug.10-12, 2015
    At The 33th Annual Meeting of Japanese Society for Plant Cell and Molecular Biology (Tokyo), the members of our lab did oral and poster presentations.
    [ Oral Presentation ]
    Masami Y. Hirai "Metabolome analysis for breeding of chrysanthemum"
    Yuji Sawada "Omics for soy seed development"
    K. Sriyudthsak "Prediction of metabolic pathway and regulation through omics time-series data"
    [ Poster Presentation ]
    Yimeng Li "Germination and growth defects in myb28myb29 double knockout mutant"
  • Aug. 4, 2015
    At The 14th International Congress on Amino Acids, Peptides and Proteins (Vienna), Dr.Okamura did an oral presentation.
    Eiji Okamura "An unprecedented regulatory mechanism of the phosphorylated pathway of serine biosynthesis in plant"
  • Mar. 20,2015
    At Front Lines of Plant Cell Wall Research (Nara), Dr.Hirai, team leader of our lab, gave an invited lecture.
    Masami Y. Hirai "Integrated metabolome and transcriptome analysis revealed the genes involved in secondary metabolism"
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    2014


    Dec. 15,2014
    At "GIW/ISCB-Asia 2014" (Tokyo), Dr.Hirai, team leader of our lab, gave invited lectures.
    Masami Y. Hirai "Understanding of plant metabolism via metabolomics-based mathematical modeling"
  • Jun. 18, 2014
    Dr. Hirai, team leader of our lab, have been selected to the list of Highly Cited Researchers 2014 published by Thomson Reuters.
    RIKEN Center for Sustainable Resource Science
  • Jun. 9, 2014
    Dr. Takashi Osanai received RIKEN Research Award.
    RIKEN: RIKEN Research and Technology Incentive Awards
  • May. 22, 2014
    At 2014 UF Metabolomics Workshop & Symposium (University of Florida), two members of our lab gave invited lectures.
    Hirai M.Y. "Development of Metabolomics Technology for Further Understanding of Plant Metabolism"
    Sawada Y. "Integrated LC-MS/MS platforms for Plant Metabolomics"
  • Jan. 28, 2014
    Dr. Kensuke Kawade was awarded at FY2013 Special Postdoctoral & Foreign Postdoctoral Researchers’ Poster Presentation of Research Results.
    "Homeostasis of organ functions modulated by amino acid metabolism"

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2013


Dec. 3, 2013
At The 36th Annual Meeting of the Molecular Biology Society of Japan, Dr.Hirai, team leader of our lab, did presentation.
Workshop "Quantitative biology toward trans-omic research"
Hirai, M.Y. "Mathematical Modeling of Plant Metabolism Based on Metabolome Data"
  • Nov. 15, 2013
    On RIKEN Research web site, the studies of our lab was published.
    "Modifying one cell factor alters many others"
    Osanai, T., Kuwahara, A., Iijima, H., Toyooka, K., Sato, M., Tanaka, K., Ikeuchi, M., Saito, K. & Hirai, M. Y.
    RIKEN Resaerch Highlights( Biology) : Modifying one cell factor alters many others
  • Jun.24-28, 2013
    At 24th International Conference on Arabidopsis Research(ICAR2013) (Sydney), two members of our lab did poster presentations.
    Hirai M.Y "A Novel approach for understanding metabolic system: Metabolomics-based mathematical modeling"
    Kawade K. "Promotion of chloroplast proliferation upon enhanced post-mitotic cell expansion in leaves"
  • May. 31, 2013
    The paper of Dr. Kensuke Kawade was selected as being of special significance in the field of plant biology by Faculty of 1000.
    "ANGUSTIFOLIA3 signaling coordinates proliferation between clonally distinct cells in leaves"
    Facluty 1000
  • Apr. 19, 2013
    On RIKEN Research April 2013 (vol.8 no.4), the studies of our lab was published.
    Understanding metabolism through computer predictions:
    "Combining computer-based statistical analysis with mathematical modeling can improve our understanding of metabolic pathways"
    Sriyudthsak, K., Shiraishi, F. & Hirai, M.Y.
    RIKEN Resaerch Highlights: Biology
  • Apr. 1, 2013
    Our research center has changed its name to RIKEN Center for Sustainable Resource Science.
    Link
  • Mar. 24-28, 2013
    At The 2013 Annual Meeting of Japan Society for Bioscience, Biotechnology and Agrochemistry(Sendai), Two members of our lab did oral presentations.
    Hirai M.Y. "Mathematical modeling for understanding of plant metabolism"
    Okamura E. "Molecular basis of regulatory mechanism of serine biosynthesis in Arabidopsis thaliana"
  • Mar. 20-24, 2013
    At Frontiers in Systems and Synthetic Biology ’13 (FSSB’13) (Atlanta), Dr. Kansuporn Sriyudthsak did an oral presentation as an invited speeker.
    K. Sriyudthsak "A new algorithm for the prediction of metabolic reaction networks using time-series data"
  • Mar. 20-23, 2013
    At The 54th Annual Meeting of the Japanese Society of Plant Physiologists (Okayama), the members of our lab did presentations.(No English title)
    Hirai M.Y. 「シロイヌナズナのナチュラルバリエーションを利用した代謝解析」
    Sawada Y. 「シロイヌナズナのメタボロームゲノムワイド関連解析」
    Okamura E. 「シロイヌナズナにおけるセリン生合成の制御とその分子基盤」
    Sriyudthsak K.
    (Alternate speaker Dr.Hirai)
    「代謝産物の時系列データに基づいて代謝の数式モデルを構築する方法論の開発」
    Kawade K. 「細胞層をまたぐANGUSTIFOLIA3の移動様式」
    Kiyota H. 「シアノバクテリウムによるイソプレノイド連続生産と改良」
  • Mar. 17,2013
    At Plant and Animal Genome Asia 2013 (PAG ASIA 2013)(Singapore), Dr. Sawada did an oral presentation.
    Sawada Y. "Edible Alliaceae Metabolomics: LC-MS-Based Untargeted Detection and Annotation"
  • Mar. 8-10, 2013
    At the 7th annual meeting of Society of Genome Microbiology, Japan (Nagahama),
    Dr. Osanai did a poster presentation
    .(in Japanese)
    Osanai T. 「転写制御因子を用いたラン藻の代謝と光合成の改変」
  • Jan. 13,2013 
    At International Plant & Animal Genome (PAG) XXI(San Diego CA.), Dr.Hirai, our team leader, gave an invited lecture.
    Masami Y. Hirai "A pathway-based technique for analysis of metabolic reaction networks."
  • Jan. 11,2013 
    At the School of Plant Sciences in The University of Arizona, Dr.Hirai and Dr. Sawada gave lectures.
    Hirai M.Y. "Mathematical Modeling of Plant Metabolism Based on Metabolome Data"
    Sawada Y. "Plant Metabolomics and Integrated Approaches"
    Seminers:The School of Plant Sciences in The University of Arizona
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    2012


    Dec. 11-14, 2012
    At The 35th Annual Meeting of the Molecular Biology Society of Japan(Fukuoka), three members of our lab did oral presentations. (in Japanese)
    Sawada Yuji 「ReSpect:植物代謝産物の構造推定データベースの構築」
    Okamura Eiji 「シロイヌナズナのセリン代謝における新規制御機構」
    Sriyudthsak K.
    (Altarnate speaker Dr.Hirai)
    「大規模な代謝反応ネットワークを解析するための新たな手法の検討:
    シロイヌナズナを例として」
  • Nov. 21-22, 2012
    At the 5th Annual meeting of Japanese Society for Cell Synthesis Research (Tokyo),
    Dr. Osanai did a poster presentation
    .(in Japanese)
    Osanai T. 「シグマ因子SigEによるラン藻の糖代謝制御とバイオプラスチック生産」
  • Oct. 23-26, 2012
    At Society for Biotechnology, Japan 2012(Kobe), Dr. Osanai did an oral presentation.
    (in Japanese)
    Osanai T. 「シグマ因子SigE過剰発現によるシアノバクテリアバイオプラスチックの増産」
  • Oct. 15-17, 2012
    At Joint Conference on Informatics in Biology, Medicine and Pharmacology(Tokyo), Dr. Kansuporn Sriyudthsak did a poster presentation.
    K. Sriyudthsak "A new algorithm for metabolic reaction network determination using time-series data"
  • Oct. 10-12, 2012
    At 7th Metabolome Symposium(Tsuruoka, Yamagata), three members of our lab did oral presentations. (in Japanese)
    Sawada Yuji 「ReSpect: 植物代謝産物のMS/MSデータベースの構築と応用利用」
    Osanani Takashi 「糖異化グローバルレギュレーターを利用したラン藻バイオプラスチックの増産」
    Sriyudthsak K. 「代謝反応ネットワークのコンピューター解析」
  • Sep. 27-28, 2012
    Dr.Hirai, our team leader, gave an invated lecture at New Frontiers of Metabolism Research in Biomedical Sciences(Tokyo).
    Hirai Masami Y. "Omics Approach to Elucidation of Plant Metabolism."
  • Sep. 13-17, 2012
    At 76th Annual Meeting of The Botanical Society of Japan (Himeji-city), Dr.Kawade did oral presentations.
    The encouragement award for young researcher "Leaf-size control through cell-to-cell communication"
    Presentation "Phenome screening using enzyme mutant of Arabidopsis thaliana"
  • Sep. 14, 2012
    At 24th Annual Meeting of Japanese Society of Plant Morphology (Himeji-city),
    Dr.Kawade did a poster presentation.
    Kawade, K., Sawada, Y., Sakata, A., Sato, M. and Hirai, M.Y.: Morphological changes in enzyme mutant of Arabidopsis thaliana
  • Aug. 5-10, 2012
    At 14th International Symposium on Phototrophic Prokaryotes(Porto,Portugal), Dr.Osanai did a poster presentation.
    Osanai, T., Numata, K., Oikawa, A., Toyooka,K., Sato,M., Kuwahara, A., Iijima,H., Doi,Y., Tanaka,K., Saito,K. and Hirai,M.Y. : Overexpression of an RNA polymerase sigma factor SigE increases bioplastic production in cyanobacteria.
  • Aug. 3-5, 2012
    At 30th Annual Meeting of Japanese Society for Plant Cell and Molecular Biology(Nara), three members of our lab did oral presentations.
    Sawada Y. "Metabolite QTL analysis in Soybean"
    Li Y. "Elucidation of individual functions of 3 Arabidosis R2R3 MYB transcription factors regulating aliphatic glucosinolate biosynthesis"
    Sriyudthsak K. "Analysis of metabolic behaviours in metabolic reaction reactions of Arabidopsis thaliana"
  • Jul. 3-7, 2012
    At 23th International Conference on Arabidopsis Research (Vienna, Austria), Dr.Kawade did a poster presentation.
    Kawade K., Tanimoto H., Horiguchi G., Hirai M.Y.and Tsukaya H.: Expression gradient of ANGUSTIFOLIA3 and proliferation dynamics of leaf cells.
  • Jun. 25-28, 2012
    At 2012 International Conference of the Metabolomics Society (Metabolomics 2012)(Washington,DC) , Dr.Sawada did a poster presentation.
    Sawada Y. "ReSpect: A Plant-specific MS/MS-based Data Resource and Database."
  • May. 20-24, 2012
    At The 6th International Symposium on Edible Alliaceae(in Fukuoka), Dr.Sawada did an oral presentation.
    Sawada Y. "Toward Metabolome Evaluation in Allium Plants.-Widely-targeted analysis using LC-QQQ-MS for (un)targeted metabolites."
  • Mar. 22-26, 2012
    At Annual Meeting of the Japan Society for Bioscience, Biotechnology, and Agrochemistry 2012 (Kyoto), three members of our lab did oral presentations.
    Okamura E. "Regulatory mechanisms of 3-phosphoglycerate dehydrogenase from Arabidopsis thaliana"
    Sriyudthsak K. "Prediction of glycolysis pathway of Lactococcus lactis using time-series data"
    Kiyota H. "Creation of isoprenoid productive cyanobacteria"
  • Mar. 16-18, 2012
    At 53th Annual Meeting of Japanese Society for Plant Physiologists (Kyoto),
    five members of our lab did oral presentations.

    Sawada Y. ”RIKEN tandem mass spectral database (ReSpect) for phytochemicals”
    Sriyudthsak K. "Construction of methodology for clarification of characteristics of plant metabolic systems"
    Osanai T. "Switching of the electron transport chain of unicellular cyanobacteria during nitrogen starvation."
    Kawade K. "Expression dynamics of AN3, a mobile transcriptional co-activator for cell proliferation,during leaf development"
    Kiyota H. "Creation of isoprenoid productive cyanobacteria"
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    2010


    Jun. 9, 2010
    We hold Metabolism and Systems Biology session supported by The Metabolomics Project of CREST-JST in The 21st International Conference on Arabidopsis Research(ICAR2010)
    Date: 6/9/2010
    Place: Pacifico Yokohama
    Organizer: Masami Yokota Hirai, Tetsuro Mimura and Shuichi Yanagisawa
    Program:
    Tetsuro Mimura - Kobe University, Japan
    Metabolome researches in plant metabolic regulation
    Stanislav Kopriva - John Innes Centre, UK
    The importance of having sulfur
    Robert L. Last - Michigan State University, USA
    Forward and Reverse Genetics Meet: The Chloroplast 2010 Project
    Wolf B Frommer - Carnegie Institution for Science, USA High throughput analysis of membrane/signaling protein interactions in Arabidopsis
    Fumiaki Katagiri - University of Minnesota, USA
    Network modeling reveals prevalent negative regulatory relationships between signaling sectors in Arabidopsis immune signaling

    2009


    Jan., 2009
    We have established a high-throughput simultaneous analysis system of plant metabolites.
    details →DROP Met / Widely targeted metabolomics

    Sawada Y et al (2009) Plant Cell Physiol. [PDF]
    (Supported by Japan Science and Technology Agency, CREST)

    2008


    Jun., 2008
    A paper from our Team was selected as a FAST BREAKING PAPER - 2008
  • Jul. 17, 2008
    JST・CREST Workshop 'Plant Metabolism and Its Regulation'
    The workshop supported by Japan Science and Technology Agency (JST) was held as a concurrent workshop in 5th International Conference of Plant Metabolomics.
    Workshop ・ Conference
    Date: 2008/7/17
    Venue: Pacifico Yokohama, Annex Hall
    Organizers: Shuichi Yanagisawa, Tetsuro Mimura, Masami Yokota Hirai
    Program:
    Masami Yokota Hirai - RIKEN PSC/JST・CREST
    Omics-based approach to primary and secondary metabolism in Arabidopsis
    Tetsuro Mimura et al. - Kobe Univ./JST・CREST
    Post genome analysis of vacuolar function and control of plant metabolism
    Shuichi Yanagisawa - Univ. Tokyo/JST・CREST
    Transcriptome, proteome and metabolome analyses for coordination mechanisms of essential element assimilations

    Sang-Dong Yoo et al. (Harvard Medical School, USA) (Invited)
    Glucose & energy signaling networks in plants

    Daniel J. Kliebenstein - UC Davis, USA (Invited)
    Quantitative systems biology illuminates regulatory cross-communication between the transcriptome and metabolome
    Enrico Martinoia - Univ. Zurich, Switzerland (Invited)
    The role of the vacuole in solute accumulation and its impact in metabolite distribution
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