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Multidimensional Exploration of Logics of Plant Development

Administrative Group

Project AreaMultidimensional Exploration of Logics of Plant Development
Project/Area Number 25113001
Research Category

Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)

Allocation TypeSingle-year Grants
Review Section Biological Sciences
Research InstitutionThe University of Tokyo

Principal Investigator

Tsukaya Hirokazu  東京大学, 大学院理学系研究科(理学部), 教授 (90260512)

Co-Investigator(Kenkyū-buntansha) 望月 敦史  国立研究開発法人理化学研究所, 開拓研究本部, 主任研究員 (10304726)
河内 孝之  京都大学, 生命科学研究科, 教授 (40202056)
光田 展隆  国立研究開発法人産業技術総合研究所, 生命工学領域, 研究グループ長 (80450667)
平井 優美  国立研究開発法人理化学研究所, 環境資源科学研究センター, チームリーダー (90415274)
伊藤 恭子 (大橋恭子 / 伊藤 恭子(大橋恭子))  東京大学, 大学院理学系研究科(理学部), 准教授 (90451830)
大島 良美  国立研究開発法人産業技術総合研究所, 生物プロセス研究部門, 研究員 (00722951)
松井 南  国立研究開発法人理化学研究所, 環境資源科学研究センター, チームリーダー (80190396)
Research Collaborator FUKAKI HIDEHIRO  神戸大学, 大学院理学研究科, 教授 (80324979)
ARAKI TAKASHI  東京大学, 大学院生命科学研究科, 教授 (00273433)
KAKIMOTO TATSUO  大阪大学, 大学院理学研究科, 教授 (70214260)
NAKAJIMA KEIJI  奈良先端科学技術大学院大学, 先端科学技術研究科, 教授 (80273853)
HIRANO HIROYUKI  東京大学, 大学院理学系研究科, 教授 (00192716)
Project Period (FY) 2013-06-28 – 2018-03-31
Project Status Completed (Fiscal Year 2018)
Budget Amount *help
¥163,150,000 (Direct Cost: ¥125,500,000、Indirect Cost: ¥37,650,000)
Fiscal Year 2017: ¥17,680,000 (Direct Cost: ¥13,600,000、Indirect Cost: ¥4,080,000)
Fiscal Year 2016: ¥17,680,000 (Direct Cost: ¥13,600,000、Indirect Cost: ¥4,080,000)
Fiscal Year 2015: ¥17,680,000 (Direct Cost: ¥13,600,000、Indirect Cost: ¥4,080,000)
Fiscal Year 2014: ¥17,680,000 (Direct Cost: ¥13,600,000、Indirect Cost: ¥4,080,000)
Fiscal Year 2013: ¥92,430,000 (Direct Cost: ¥71,100,000、Indirect Cost: ¥21,330,000)
Keywords植物発生 / ロジック / 形態形成 / メタボロミクス / e-learning / 転写因子 / ゼニゴケ / 数理解析 / 国際シンポジウム / アウトリーチ
Outline of Final Research Achievements

We tried to reveal 'logics of plant development' in this project. As a result of exploration of new research fields with young talented scientists, we could many key genes involved in the mechanisms for establishment of stem cell natures in plants, for cell differentiation, for control of proliferation and arrangement of cells, and for phase transition. We also revealed functions of these key genes. In addition, we could establish a new excellent model system, Marchantia polymorpha, which has very low redundancy in the genome. Moreover, we could propose a new research field, metabolo-developmental biology which searches new signal molecules for regulation of development and growth of plants.

Academic Significance and Societal Importance of the Research Achievements

本領域は植物の本質的な発生ロジックについて、対象とする発生現象が異なる9つの計画班と4つの支援体制の強い協力体制によって解き明かすことを目指した点で、国内外に類のない植物発生に関する研究グループを構築した。この領域による多元的かつ開拓的な研究によって、植物発生戦略に留まらず、広く生物発生戦略の体系的理解に寄与した。また、本領域で得られる成果が、将来、生産環境農学分野の遺伝育種科学、作物生産科学、園芸科学、環境農学といった応用研究分野にも広くインパクトを与え、ひいては地球環境悪化や食料不足問題といった地球規模の問題解決に寄与することができれば、本領域研究の成功は非常に意義深いものとなるだろう。

Report

(6 results)
  • 2018 Final Research Report ( PDF )
  • 2017 Annual Research Report
  • 2016 Annual Research Report
  • 2015 Annual Research Report
  • 2014 Annual Research Report
  • 2013 Annual Research Report
  • Research Products

    (46 results)

All 2017 2016 2015 2014 Other

All Journal Article (16 results) (of which Int'l Joint Research: 8 results,  Peer Reviewed: 16 results,  Open Access: 15 results,  Acknowledgement Compliant: 6 results) Presentation (21 results) (of which Int'l Joint Research: 6 results,  Invited: 8 results) Remarks (5 results) Funded Workshop (4 results)

  • [Journal Article] Auxin produced by the indole-3-pyruvic acid pathway regulates development and gemmae dormancy in the liverwort Marchantia polymorpha.2016

    • Author(s)
      Eklund, D.M., Ishizaki, K., Flores-Sandoval, E., Kikuchi, S., Takebayashi, Y., Tsukamoto, S., Hirakawa, Y., Nonomura, M., Kato, H., Kouno, M., Bhalerao, R.P., Lagercrantz, U., Kasahara, H., Kohchi, T. and Bowman, J.L.
    • Journal Title

      The Plant Cell

      Volume: 27 Issue: 6 Pages: 1650-69

    • DOI

      10.1105/tpc.15.00065

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] A Dynamical Phyllotaxis Model to Determine Floral Organ Number2015

    • Author(s)
      Kitazawa, M. S. and Fujimoto, K.
    • Journal Title

      PLoS Computational Biology

      Volume: 11(5) Issue: 5 Pages: 3144-3150

    • DOI

      10.1371/journal.pcbi.1004145

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Competitive binding of antagonistic peptides fine-tunes stomatal patterning2015

    • Author(s)
      Lee JS, Hnilova M, Maes M, Lin YC, Putarjunan A, Han SK, Avila J, Torii KU
    • Journal Title

      Nature

      Volume: 522 Issue: 7557 Pages: 439-443

    • DOI

      10.1038/nature14561

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Molecular Framework of a Regulatory Circuit Initiating Two-Dimensional Spatial Patterning of Stomatal Lineage2015

    • Author(s)
      Horst RJ, Fujita H, Lee JS, Rychel AL, Garrick JM, Kawaguchi M, Peterson KM, Torii KU
    • Journal Title

      PLOS Genetics

      Volume: 11 Issue: 7 Pages: e1005374-e1005374

    • DOI

      10.1371/journal.pgen.1005374

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] A coherent transcriptional feed-forward motif model for mediating auxin-sensitive PIN3 expression during lateral root development.2015

    • Author(s)
      Chen Q, Liu Y, Maere S, Lee E, Van Isterdael G, Xie Z, Xuan W, Lucas J, Vassileva V, Kitakura S, Marhavý P, Wabnik K, Geldner N, Benková E, Le J, Fukaki H, Grotewold E, Li C, Friml J, Sack F, Beeckman T, Vanneste S.
    • Journal Title

      Nature Communications

      Volume: 6 Issue: 1 Pages: 8821-8821

    • DOI

      10.1038/ncomms9821

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Lateral root organ initiation re-phases the circadian clock in Arabidopsis thaliana.2015

    • Author(s)
      Voß, U., Wilson, M.H., Kenobi, K., Gould, P.D., Robertson, F.C., Peer, W.A., Lucas, M., Swarup, K., Casimiro, I., Holman, T.J., Wells, D.M., Péret, B., Goh, T., Fukaki, H., Hodgman, T.C., Laplaze, L., Halliday, K.J., Ljung, K., Murphy, A.G., Hall, A.J., Webb, A.A.R. and Bennett, M.J.
    • Journal Title

      Nature Communications

      Volume: 6 Issue: 1 Pages: 7641-7641

    • DOI

      10.1038/ncomms8641

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Inference of the Arabidopsis lateral root gene regulatory network reveals a bifurcation mechanism that defines primordia flanking and central zones.2015

    • Author(s)
      Lavenus, J., Goh, T., Guyomarc'h, S., Hill, K., Lucas, M., Voss, U., Kenobi, K., Wilson, M., Farcot, E., Hagen, G., Guilfoyle, T.J., Fukaki, H., Laplaze, L. and Bennett, M.J.
    • Journal Title

      Plant Cell

      Volume: 27 Issue: 5 Pages: 1368-1388

    • DOI

      10.1105/tpc.114.132993

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Axillary meristem formation in rice requires the WUSCHEL ortholog TILLERS ABSENT1.2015

    • Author(s)
      Wakana Tanaka, Yoshihiro Ohmori, Tomokazu Ushijima, Hiroaki Matsusaka, Tomonao Matsushita, Toshihiro Kumamaru, Shigeyuki Kawano, and Hiro-Yuki Hirano
    • Journal Title

      The Plant Cell

      Volume: 印刷中 Issue: 4 Pages: 1173-1184

    • DOI

      10.1105/tpc.15.00074

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Decentralized circadian clocks process thermal and photoperiodic cues in specific tissues.2015

    • Author(s)
      Shimizu, H., Katayama, K., Koto, T., Torii, K., Araki, T., Endo, M.
    • Journal Title

      Nature Plants

      Volume: 1 Issue: 11 Pages: 15163-15163

    • DOI

      10.1038/nplants.2015.163

    • NAID

      120005669301

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Oriented cell division shapes carnivorous pitcher leaves of Sarracenia purpurea2015

    • Author(s)
      Fukushima K, Fujita H, Yamaguchi T, Kawaguchi M, Tsukaya H, Hasebe M.
    • Journal Title

      Nature Communications

      Volume: 6 Issue: 1 Pages: 6-450

    • DOI

      10.1038/ncomms7450

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Transcriptional repression by MYB3R proteins regulates plant organ growth.2015

    • Author(s)
      Kobayashi K, Suzuki T, Iwata E, Nakamichi N, Suzuki T, Chen P, Ohtani M, Ishida T, Hosoya H, Müller S, Leviczky T, Pettkó-Szandtner A, Darula Z, Iwamoto A, Nomoto M, Tada Y, Higashiyama T, Demura T, Doonan JH, Hauser MT, Sugimoto K, Umeda M, Magyar Z, Bögre L, Ito M
    • Journal Title

      EMBO Journal

      Volume: 34 Issue: 15 Pages: 1992-2007

    • DOI

      10.15252/embj.201490899

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Rapid Elimination of the Persistent Synergid through a Cell Fusion Mechanism.2015

    • Author(s)
      丸山大輔、Ronny Völz、竹内英憲、森稔幸、井川智子、栗原大輔、河島友和、植田美那子、伊藤正樹、梅田正明、西川周一、Rita Groß-Hardt、東山哲也
    • Journal Title

      Cell

      Volume: 未定 Issue: 4 Pages: 907-918

    • DOI

      10.1016/j.cell.2015.03.018

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Auxin-mediated transcriptional system with a minimal set of components is critical for morphogenesis through the life cycle in Marchantia polymorpha2015

    • Author(s)
      Kato, H., Ishizaki, K., Kouno, M., Shirakawa, M., Bowman, J.L., Nishihama, R., and Kohchi, T.
    • Journal Title

      PLOS Genet.

      Volume: In press Issue: 5 Pages: e1005084-e1005084

    • DOI

      10.1371/journal.pgen.1005084

    • NAID

      120005672595

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Stomatal guard cells co-optedan ancient ABA-dependent desiccation survival system to regulate stomatal closure2015

    • Author(s)
      Lind, C., Dreyer, I., López-Sanjurjo, E.J., von Meyer, K., Ishizaki, K., Kohchi, T., Lang, D., Zhao, Y., Kreuzer, I., Al-Rasheid, K.A.S., Ronne, H., Reski, R., Zhu, J.K., Geiger, D. and Hedrich, R.
    • Journal Title

      Current Biology

      Volume: 30 Issue: 7 Pages: 928-935

    • DOI

      10.1016/j.cub.2015.01.067

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] A parasitic nematode releases cytokinin that controls cell division and orchestrates feeding site formation in host plants.2015

    • Author(s)
      Siddique S, Radakovic ZS, De La Torre CM, Chronis D, Novak O, Ramireddy E, Holbein J, Matera C, Hutten M, Gutbrod P, Anjam MS, Rozanska E, Habash S, Elashry A, Sobczak M, Kakimoto T, Strnad M, Schmulling T, Mitchum MG, Grundler FM.
    • Journal Title

      Proc Natl Acad Sci U S A

      Volume: 112 Issue: 41 Pages: 12669-12674

    • DOI

      10.1073/pnas.1503657112

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Mutations in ribosomal proteins, RPL4 and RACK1, suppress the phenotype of a thermospermine-deficient mutant of Arabidopsis thaliana.2015

    • Author(s)
      Kakehi JI, Kawano E, Yoshimoto K, Cai Q, Imai A, Takahashi T
    • Journal Title

      PLoS One

      Volume: 10 Issue: 1 Pages: 1-18

    • DOI

      10.1371/journal.pone.0117309

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Presentation] Symposium 3 Eve Devo2017

    • Author(s)
      Hirokazu Tsukaya
    • Organizer
      Annual Meeting of the Japanese Society of Developmental Biologists
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Session 5 Evolution, Taxonomy, Non-model plant, Education2017

    • Author(s)
      Hirokazu Tsukaya
    • Organizer
      Taiwan-Japan Plant Biology 2017
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] ゼニゴケ・トレーニングコース2016

    • Author(s)
      河内孝之
    • Organizer
      ゼニゴケ・トレーニングコース
    • Place of Presentation
      京都大学(京都市左京区)
    • Year and Date
      2016-02-25
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 第3回メタボローム勉強会2016

    • Author(s)
      平井優美
    • Organizer
      第3回メタボローム勉強会
    • Place of Presentation
      山形・理研鶴岡ブランチ(山形県鶴岡市)
    • Year and Date
      2016-02-13
    • Related Report
      2015 Annual Research Report
  • [Presentation] 植物の生殖成長期の発生を制御する分子機構2015

    • Author(s)
      平野博之
    • Organizer
      国立遺伝学研究所研究会
    • Place of Presentation
      国立遺伝学研究所(静岡県三島市)
    • Year and Date
      2015-11-06
    • Related Report
      2015 Annual Research Report
  • [Presentation] 第一回数理モデル研究会2015

    • Author(s)
      藤本仰一
    • Organizer
      第一回数理モデル研究会
    • Place of Presentation
      大阪大学(大阪府豊中市)
    • Year and Date
      2015-09-14
    • Related Report
      2015 Annual Research Report
  • [Presentation] Genome duplication: integrating comparative genomics, population genetics, and experimentally synthesised polyploids2015

    • Author(s)
      Kentaro Shimizu
    • Organizer
      日本進化学会大会
    • Place of Presentation
      中央大学(東京都文京区)
    • Year and Date
      2015-08-20
    • Related Report
      2015 Annual Research Report
  • [Presentation] Topics in plant and animal development2015

    • Author(s)
      Hirokazu Tsukaya, Hiroki Nishida
    • Organizer
      第48回日本発生生物学会年会
    • Place of Presentation
      つくば国際会議場(茨城県つくば市)
    • Year and Date
      2015-06-05
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Root cap derived auxin pre-patterns the longitudinal root axis2015

    • Author(s)
      Tom Beeckman
    • Organizer
      第48回日本発生生物学会年会
    • Place of Presentation
      つくば国際会議場(茨城県つくば市)
    • Year and Date
      2015-06-02
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Molecular control of gametophyte development and fertilization2015

    • Author(s)
      Ueli Grossniklaus
    • Organizer
      第48回日本発生生物学会年会
    • Place of Presentation
      つくば国際会議場(茨城県つくば市)
    • Year and Date
      2015-06-02
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Evolution and development of the bifurcated axial skeleton2015

    • Author(s)
      Kinya G. Ota
    • Organizer
      第48回日本発生生物学会年会
    • Place of Presentation
      つくば国際会議場(茨城県つくば市)
    • Year and Date
      2015-06-02
    • Related Report
      2015 Annual Research Report
  • [Presentation] Self/nonself-recognition in ascidian fertilization2015

    • Author(s)
      Hitoshi Sawada
    • Organizer
      第48回日本発生生物学会年会
    • Place of Presentation
      つくば国際会議場(茨城県つくば市)
    • Year and Date
      2015-06-02
    • Related Report
      2015 Annual Research Report
  • [Presentation] Birds of a feather: genetics and development of diversity in pigeons2015

    • Author(s)
      Mike Shapiro
    • Organizer
      第48回日本発生生物学会年会
    • Place of Presentation
      つくば国際会議場(茨城県つくば市)
    • Year and Date
      2015-06-02
    • Related Report
      2015 Annual Research Report
  • [Presentation] Compensation: a key to clarifying the organ-level regulation of lateral organ size in plants2015

    • Author(s)
      Hirokazu Tsukaya
    • Organizer
      Plant Organ Growth Symposium 2015
    • Place of Presentation
      Ghent Univ. ベルギー
    • Year and Date
      2015-03-10 – 2015-03-12
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Compensation - an unknown integration system that oversees cell division and expansion in leaves2014

    • Author(s)
      Hirokazu Tsukaya
    • Organizer
      5th NIBB-MPIPZ-TLL Symposium Horizons in Plant Biology
    • Place of Presentation
      Max Planck Institute for Plant Breeding Research, Cologne
    • Year and Date
      2014-11-24 – 2014-11-26
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] 発生ロジックをもたらす分子群2014

    • Author(s)
      塚谷裕一
    • Organizer
      日本植物学会第78回大会におけるシンポジウム
    • Place of Presentation
      明治大学生田キャンパス
    • Year and Date
      2014-09-13
    • Related Report
      2014 Annual Research Report
  • [Presentation] What factors determine the positioning of meristematic zones in leaves?2014

    • Author(s)
      Hirokazu Tsukaya
    • Organizer
      第25回国際シロイヌナズナ会議
    • Place of Presentation
      カナダ・バンクーバー、British Columbia大学
    • Year and Date
      2014-07-28 – 2014-08-01
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Thismia hexagona var. grandiflora, A NEW SAPROPHYTIC PLANT VERIETY FROM MALIAU BASIN CONSERVATION AREA2014

    • Author(s)
      Hirokazu Tsukaya, Monica Suleiman and Hiroshi Okada
    • Organizer
      Regional conference on protected area and biodiversity management on Southeast Asia
    • Place of Presentation
      Shangri-La’s Tanjung Aru Resort & Spa
    • Year and Date
      2014-06-24 – 2014-06-25
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Logics of Leaf Development: How is the meristematic zone positioning determined?2014

    • Author(s)
      Hirokazu Tsukaya
    • Organizer
      47th Annual Meeting of the Japanese Society of Developmental Biologists
    • Place of Presentation
      WINC AICHI
    • Year and Date
      2014-05-27 – 2014-05-30
    • Related Report
      2014 Annual Research Report
  • [Presentation] Control of mechanisms of meristematic achuties is leaf primordia2014

    • Author(s)
      Hirokazu Tsukaya
    • Organizer
      第7回APOCB シンポジウム
    • Place of Presentation
      Biopolis, Singapore
    • Year and Date
      2014-02-27
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] A key player of leaf programs in Arabidopsis:ANGUSTIFOLIA2014

    • Author(s)
      Hirokazu Tsukaya
    • Organizer
      Seminar 26 Feb., Temasek Life Sciences Laboratory
    • Place of Presentation
      Temasek Life Sciences Laboratory, National University of Singapore
    • Year and Date
      2014-02-26
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Remarks] 文部科学省 科学研究費補助金 新学術領域研究 植物発生ロジックの多元的開拓

    • URL

      http://logics.plantdev.biol.s.u-tokyo.ac.jp/

    • Related Report
      2017 Annual Research Report 2016 Annual Research Report
  • [Remarks] 文部科学省科学研究費補助金 新学術領域研究 植物発生ロジックの多元的開拓

    • URL

      http://logics.plantdev.biol.s.u-tokyo.ac.jp/index.html

    • Related Report
      2015 Annual Research Report
  • [Remarks] 東京大学大学院理学系研究科 生物科学専攻 発生進化研究室

    • URL

      http://www.biol.s.u-tokyo.ac.jp/users/bionev2/jp/index.html

    • Related Report
      2014 Annual Research Report 2013 Annual Research Report
  • [Remarks] 岡崎統合バイオサイエンスセンター BIO-NEXTプロジェクト 塚谷研究室

    • URL

      http://www.oib.orion.ac.jp/metabolo/

    • Related Report
      2014 Annual Research Report 2013 Annual Research Report
  • [Remarks] 文部科学省科学研究費補助金 新学術領域研究 植物の多元的開拓

    • URL

      http://logics.plantdev.biol.s.u-tokyo.ac.jp/index.html

    • Related Report
      2014 Annual Research Report 2013 Annual Research Report
  • [Funded Workshop] 日本発生生物学会第50回大会 Symposium 3 Evo Devo2017

    • Related Report
      2016 Annual Research Report
  • [Funded Workshop] Taiwan-Japan Plant Biology 2017 Session 5 "Evolution, Taxonomy, Non-model plant, Education"2017

    • Related Report
      2016 Annual Research Report
  • [Funded Workshop] 国際ゼニゴケトレーニングコース2016

    • Place of Presentation
      京都大学(京都市左京区)
    • Year and Date
      2016-02-25
    • Related Report
      2015 Annual Research Report
  • [Funded Workshop] 第48回日本発生生物学会年会2015

    • Place of Presentation
      つくば国際会議場(茨城県つくば市)
    • Year and Date
      2015-06-02
    • Related Report
      2015 Annual Research Report

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Published: 2013-07-10   Modified: 2020-03-30  

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