Logics of pattern formation that supports cell fate determination and functional differentiation

• Project Area: Multidimensional Exploration of Logics of Plant Development
• Project/Area Number: 25113007
• Research Category: Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
• Allocation Type: Single-year Grants
• Review Section: Biological Sciences
• Research Institution: Nara Institute of Science and Technology
• Principal Investigator: Nakajima Keiji 奈良先端科学技術大学院大学, バイオサイエンス研究科, 教授 (80273853)
• Co-Investigator(Renkei-kenkyūsha): HASHIMOTO Takashi 奈良先端科学技術大学院大学, バイオサイエンス研究科, 教授 (80180826) ; KOI Satoshi 大阪市立大学, 理学部附属植物園, 講師 (60470019) ; MIYASHIMA Shunsuke 奈良先端科学技術大学院大学, バイオサイエンス研究科, 助教 (20727169) ; GOH Tatsuaki 奈良先端科学技術大学院大学, バイオサイエンス研究科, 助教 (80511419) ; HISANAGA Tetsuya 奈良先端科学技術大学院大学, バイオサイエンス研究科, 研究員 (20748355) ; FURUTA Kaori (MIYASHIMA Kaori) 奈良先端科学技術大学院大学, バイオサイエンス研究科, 研究員 (10746655)
• Project Period (FY): 2013-06-28 – 2018-03-31
• Project Status: Completed (Fiscal Year 2017)
• Budget Amount: ¥94,250,000 (Direct Cost: ¥72,500,000、Indirect Cost: ¥21,750,000); Fiscal Year 2017: ¥18,330,000 (Direct Cost: ¥14,100,000、Indirect Cost: ¥4,230,000); Fiscal Year 2016: ¥18,330,000 (Direct Cost: ¥14,100,000、Indirect Cost: ¥4,230,000); Fiscal Year 2015: ¥18,330,000 (Direct Cost: ¥14,100,000、Indirect Cost: ¥4,230,000); Fiscal Year 2014: ¥18,200,000 (Direct Cost: ¥14,000,000、Indirect Cost: ¥4,200,000); Fiscal Year 2013: ¥21,060,000 (Direct Cost: ¥16,200,000、Indirect Cost: ¥4,860,000)
• Keywords: 植物 / マイクロRNA / 細胞分化 / パターン形成 / 根冠 / 生殖細胞 / 性分化 / ゼニゴケ / 維管束 / 発生 / 胚発生 / 組織分化 / 細胞間情報伝達 / オルガネラ

Outline of Final Research Achievements

In this project, following three mechanisms were identified. First, in many aspects of plant morphogenesis, small RNA molecules produced at a certain group of cells traffic to the surrounding cells, and thereby act as positional cues to form precise cellular patterns. Second, functions of the plant root cap were found to be implemented by a diverse cellular functions, such as cell wall modification, programmed cell death, production of anti-pathogenic compounds, membrane traffic, and lipid biosynthesis. Third, by using a newly established liverwort system, evolutionarily conserved master regulators for egg cell formation and sexual differentiation were identified.

Research Products

• [Int'l Joint Research] University of Cambridge(英国)
• [Int'l Joint Research] University of Warwick(英国)
• [Int'l Joint Research] Texas A&M University(米国)
• [Int'l Joint Research] China Agricultural University(中国)
• [Journal Article] Be my baby: patterning toward plant germ cells (2018)
  • Author(s): Nakajima Keiji
  • Journal Title: Curr. Opin. Plant Biol. Volume: 41 Pages: 110-115
  • DOI: 10.1016/j.pbi.2017.11.002
  • Peer Reviewed
• [Journal Article] Plant-inspired pipettes (2018)
  • Author(s): Keigo Nakamura, Tetsuya Hisanaga, Koichi Fujimoto, Keiji Nakajima and Hirofumi Wada
  • Journal Title: Journal of the Royal Society of Interface Volume: 15 Issue: 140 Pages: 20170868-20170868
  • DOI: 10.1098/rsif.2017.0868
  • Peer Reviewed / Open Access
• [Journal Article] Highly efficient heritable targeted deletions of gene clusters and non-coding regulatory regions in Arabidopsis using CRISPR/Cas9 (2018)
  • Author(s): Durr Julius、Papareddy Ranjith、Nakajima Keiji、Gutierrez-Marcos Jose
  • Journal Title: Sci. Rep. Volume: 8 Issue: 1 Pages: 4443-4443
  • DOI: 10.1038/s41598-018-22667-1
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Functionally Diversified Members of the MIR165/6 Gene Family Regulate Ovule Morphogenesis in Arabidopsis thaliana (2018)
  • Author(s): Hashimoto Kayo、Miyashima Shunsuke、Sato-Nara Kumi、Yamada Toshihiro、Nakajima Keiji
  • Journal Title: Plant Cell Physiol. Volume: 59 Issue: 5 Pages: 1017-1026
  • DOI: 10.1093/pcp/pcy042
  • Peer Reviewed
• [Journal Article] Control of root cap maturation and cell detachment by BEARSKIN transcription factors in Arabidopsis (2016)
  • Author(s): Kamiya Masako、Higashio Shin-Ya、Isomoto Atsushi、Kim Jong-Myong、Seki Motoaki、Miyashima Shunsuke、Nakajima Keiji
  • Journal Title: Development Volume: 143 Issue: 21 Pages: 4063-4072
  • DOI: 10.1242/dev.142331
  • NAID: 120005867253
  • Peer Reviewed
• [Journal Article] An evolutionary conserved plant RKD factor controls germ cell differentiation. (2016)
  • Author(s): Koi, S., Hisanaga, T., Sato, K., Shimamura, M., Yamato, K.T., Ishizaki, K., Kohchi, T. and Nakajima, K.
  • Journal Title: Current Biology Volume: 26 Issue: 13 Pages: 1775-1781
  • DOI: 10.1016/j.cub.2016.05.013
  • Peer Reviewed / Open Access
• [Journal Article] The Naming of Names: Guidelines for Gene Nomenclature in Marchantia (2016)
  • Author(s): Bowman, J., Araki, T., Arteaga-Vazquez, M., Berger, F., Dolan, L., Haseloff, J., Ishizaki, K., Kyozuka, J., Lin, S.S., Nagasaki, H., Nakagami, H., Nakajima, K., Nakamura, Y., Ohashi-Ito, K., Sawa, S., Shimamura, M., Solano, R., Tsukaya, H., Ueda, T., Watanabe, Y., Yamato, K.T., Zachgo, S., and Kohchi, T.
  • Journal Title: Plnat cell Physiology Volume: 57 Issue: 2 Pages: 257-261
  • DOI: 10.1093/pcp/pcv193
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] CORONA, PHABULOSA and PHAVOLUTA collaborate with BELL 1 to confine WUSCHEL expression to the nucellus in Arabidopsis ovules (2015)
  • Author(s): Toshihiro Yamada, Yusuke Sasaki, Kayo Hashimoto, Keiji Nakajima, Charles S. Gasser
  • Journal Title: Development Volume: 143 Pages: 422-426
  • DOI: 10.1242/dev.129833
  • NAID: 120005741605
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] A molecular mechanism that confines the activity pattern of miR165 in Arabidopsis leaf primordia (2015)
  • Author(s): Tatematsu, K., Toyokura, K., Miyashima, S., Nakajima, K., and Okada, K.
  • Journal Title: The Plant Journal Volume: 82 Issue: 4 Pages: 596-608
  • DOI: 10.1111/tpj.12834
  • Peer Reviewed / Acknowledgement Compliant
• [Journal Article] Spatiotemporal Sequestration of miR165/166 by Arabidopsis Argonaute10 Promotes Shoot Apical Meristem Maintenance (2015)
  • Author(s): Zhou Y, Honda M, Zhu H, Zhang Z, Guo X, Li T, Li Z, Peng X, Nakajima K, Duan L, Zhang X.
  • Journal Title: Cell Rep. Volume: 10 Issue: 11 Pages: 1819-1827
  • DOI: 10.1016/j.celrep.2015.02.047
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Small RNAs as positional signal for pattern formation (2014)
  • Author(s): Hisanaga T, Miyashima S, Nakajima K.
  • Journal Title: Curr. Opin. Plant Biol. Volume: 21 Pages: 37-42
  • DOI: 10.1016/j.pbi.2014.06.005
  • Peer Reviewed / Acknowledgement Compliant
• [Journal Article] Tryptophan-dependent auxin biosynthesis is required for HD-ZIP III-mediated xylem patterning (2013)
  • Author(s): Ursache R, Miyashima S, Chen Q, Vatén A, Nakajima K, Carlsbecker A, Zhao Y, Helariutta Y, Dettmer J.
  • Journal Title: Development Volume: 141 Issue: 6 Pages: 1250-1259
  • DOI: 10.1242/dev.103473
  • Peer Reviewed
• [Presentation] 長時間連続観察によるシロイヌナズナ根冠細胞の周期的な剥離様式の解析 (2018)
  • Author(s): 郷達明、上野皓輝、宮島俊介、中島敬二
  • Organizer: 第59回日本植物生理学会年会
• [Presentation] Maternally expressed MpKNOX1 is required for sporophyte development in Marchantia polymorpha (2018)
  • Author(s): 久永哲也、藤本翔大、中島敬二
  • Organizer: 第59回日本植物生理学会年会
• [Presentation] A regulatory mechanism triggering localized cell proliferation in Arabidopsis root vascular tissue (2018)
  • Author(s): Miyashima Shunsuke、Pawel Roszak、Koichi Toyokura、Motohiro Fujiwara、Ttsuo Kakimoto、Koichi Fujimoto、Keiji Nakajima、Yka Helariutta
  • Organizer: 第59回日本植物生理学会年会
• [Presentation] 根端分裂組織における細胞分裂秩序を解明するための新規アプローチ (2018)
  • Author(s): 射水勝利、宮島俊介、郷達明、中島敬二
  • Organizer: 第59回日本植物生理学会年会
• [Presentation] Interplay between transcriptional and post-transcriptional regulatory modules in the pattern formation of Arabidopsis embryos (2017)
  • Author(s): 宮島俊介、内村聡克、本田美波、橋本佳世、中島敬二
  • Organizer: Annual Meeting of the Japanese Society of Developmental Biologists
  • Invited
• [Presentation] 長時間連続観察による根冠細胞の剥離様式の解析 (2017)
  • Author(s): 郷達明、宮島俊介、上野皓輝、中島敬二
  • Organizer: 日本植物学会第81回大会
• [Presentation] 維管束篩要素の細胞分化におけるオルガネラ・リロケーション機構 (2017)
  • Author(s): 古田かおり、宮島俊介、Belevich Ilya、Helariutta Yka、Jokitalo Eija、中島敬二
  • Organizer: 日本植物学会第81回大会
• [Presentation] MpFGMYBはゼニゴケの雌性分化を制御する (2017)
  • Author(s): 久永哲也、岡橋啓太郎、山岡尚平、西浜竜一、郷達明、河内孝之、中島敬二
  • Organizer: 日本植物学会第81回大会
• [Presentation] ノンコーディングRNAを介したゼニゴケの性分化制御 (2017)
  • Author(s): 久永哲也、山岡尚平、西浜竜一、中島敬二、河内孝之
  • Organizer: 日本植物学会第81回大会
• [Presentation] Mechanisms of root cap maturation and cell detachment in Arabidopsis (2017)
  • Author(s): Tatsuaki Goh、Koki Ueno、Masako Kamiya、Shunsuke Miyashima、Keiji Nakajima
  • Organizer: Bilateral Closure Symposium of GDRI Integrative Plant Biology Network Program
  • Int'l Joint Research
• [Presentation] A MYB Transcription Factor Controls Female Sexual Differentiation in Marchantia polymorpha (2017)
  • Author(s): Tetsuya Hisanaga, Keitaro Okahashi, Shohei Yamaoka, Ryuichi Nishihama, Tatsuaki Goh, Takayuki Kohchi and Keiji Nakajima
  • Organizer: 65th NIBB Conference "Renaissance of Marchantia polymorpha ‐the genome and beyond‐"
  • Int'l Joint Research / Invited
• [Presentation] MpFGMYBはゼニゴケにおいて生殖器官の雌性化に機能する (2017)
  • Author(s): 久永哲也、岡橋啓太郎、山岡尚平、西浜竜一、河内孝之、中島 敬二
  • Organizer: 第58回日本植物生理学会年会
• [Presentation] シロイヌナズナ根冠細胞の分化と剥離の動態解析 (2017)
  • Author(s): 郷達明、上野皓輝、小園紗希、神谷雅子、金鍾明、遠藤高帆、宮島俊介、中島敬二
  • Organizer: 第58回日本植物生理学会年会
• [Presentation] Analysis on a novel transcription factor controlling the hormonal response during the vascular development in Arabidopsis root (2017)
  • Author(s): Shunsuke Miyashima, Kaori Furuta, Keiji Nakajima
  • Organizer: 第58回日本植物生理学会年会
• [Presentation] Marchantia polymorpha as a genetic tool to study plant egg cell differentiation (2016)
  • Author(s): Keiji Nakajima
  • Organizer: Marchantia Seminars: Welcome to Marchantia world!
  • Place of Presentation: 京都大学（京都府・京都市）
  • Year and Date: 2016-03-03
  • Int'l Joint Research / Invited
• [Presentation] A MYB type transcription factor controls female reproductive organ development in Marchantia polymorpha (2016)
  • Author(s): Tetsuya Hisanaga, Keiji Nakajima
  • Organizer: EMBO work shop "New model systems for early land plant evolution"
  • Int'l Joint Research
• [Presentation] Mechanisms regulating root cap differentiation and functions (2016)
  • Author(s): Keiji Nakajima
  • Organizer: Japan-Taiwan bilateral minisymposium
  • Int'l Joint Research / Invited
• [Presentation] Marchantia polymorpha as a model to study plant reproductive development (2016)
  • Author(s): Tetsuya Hisanaga,Satoshi Koi, Katsutoshi Sato, Keiji Nakajima
  • Organizer: Marchantia training course
  • Invited
• [Presentation] Conservation and diversification of reprogramming factors in land plant evolution (2015)
  • Author(s): Satoshi Koi, Tetsuya Hisanaga, Gaku Fukui, Kaori Furuta, Masaki Shimamura, Takafumi WatabeKatsuyuki Yamato, Kimitsune Ishizaki, Takayuki Kohchi, Keiji Nakajima
  • Organizer: International Symposium on Plant Sciences & Annual Conference of the Korean Society of Plant Biologists
  • Place of Presentation: Daejeon （Korea）
  • Year and Date: 2015-11-06
  • Int'l Joint Research / Invited
• [Presentation] Control of germ cell differentiation and pluripotency by evolutionarily conserved factors in land plants (2015)
  • Author(s): Satoshi Koi, Tetsuya Hisanaga, Gaku Fukui, Kaori Furuta, Masaki Shimamura, Takafumi WatabeKatsuyuki Yamato, Kimitsune Ishizaki, Takayuki Kohchi, Keiji Nakajima
  • Organizer: International ERATO Higashiyama Live-Holonics Symposium and Technical Workshop 2015
  • Place of Presentation: 名古屋大学（愛知県・名古屋市）
  • Year and Date: 2015-08-27
  • Int'l Joint Research / Invited
• [Presentation] RKD genes are conserved regulator for egg cell differentiation among land plants (2015)
  • Author(s): Tetsuya Hisanaga, Satoshi Koi, Gaku Fukui, Keiji Nakajima
  • Organizer: International ERATO Higashiyama Live-Holonics Symposium and Technical Workshop 2015
  • Place of Presentation: 名古屋大学(愛知県・名古屋市）
  • Year and Date: 2015-08-27
  • Int'l Joint Research
• [Presentation] Dissecting the maturation and detachment process of Arabidopsis root cap cells (2015)
  • Author(s): Masako Kamiya, Miyashima Shunsuke, Keiji Nakajima
  • Organizer: Front Lines of Plant Cell Wall Research
  • Place of Presentation: 東大寺総合文化センター（奈良県奈良市）
  • Year and Date: 2015-03-20
  • Int'l Joint Research / Invited
• [Presentation] マイクロRNAとAUXIN RESPONSE FACTORを介したシロイヌナズナの根のパターン形成機構 (2015)
  • Author(s): 古川明日香, 中島敬二
  • Organizer: 第56回日本植物生理学会年会
  • Place of Presentation: 東京農業大学（東京都世田谷区）
  • Year and Date: 2015-03-16
• [Presentation] ゼニゴケの生殖におけるRWP-RKファミリー遺伝子MpRKDの機能 (2015)
  • Author(s): 厚井聡, 久永哲也, 嶋村正樹, 石崎公庸, 河内孝之, 中島敬二
  • Organizer: 第56回日本植物生理学会年会
  • Place of Presentation: 東京農業大学（東京都世田谷区）
  • Year and Date: 2015-03-16
• [Presentation] An enhancer trap screening to identify genes regulating egg cell specification and differentiation in Marchantia polymorpha (2015)
  • Author(s): 久永哲也、中島敬二
  • Organizer: 第56回日本植物生理学会年会
  • Place of Presentation: 東京農業大学（東京都世田谷区）
  • Year and Date: 2015-03-16
• [Presentation] Comparative studies of female gametogenesis in land plants (2014)
  • Author(s): Keiji Nakajima
  • Organizer: Marchantia Workshop 2014
  • Place of Presentation: 神戸大学（兵庫県神戸市）
  • Year and Date: 2014-12-09
  • Int'l Joint Research / Invited
• [Presentation] Differentiation and functional specialization of Arabidopsis root cap by NAC transcription factors (2014)
  • Author(s): Masako Kamiya, Shinya Higashio, Atsyshi Isomoto, Miyako Nakanishi, Miyashima Shunsuke, Keiji Nakajima
  • Organizer: 25th International Conference on Arabidopsis Research
  • Place of Presentation: University of British Columbia, Vancouver, Canada
  • Year and Date: 2014-07-31
  • Int'l Joint Research
• [Presentation] Developmental Signaling in the Arabidopsis Root Pattern Formation (2014)
  • Author(s): Keiji Nakajima
  • Organizer: 47th Annual Meeting for the Japanese Society of Developmental Biologists
  • Place of Presentation: ウインクあいち（愛知県名古屋市）
  • Year and Date: 2014-05-30
  • Invited
• [Presentation] Genetic pathways regulating cell fate specification and functional specialization in the Arabidopsis root (2014)
  • Author(s): Keiji Nakajima
  • Organizer: 第55回日本植物生理学会年会
  • Place of Presentation: 富山大学（富山県富山市）
  • Year and Date: 2014-03-18 – 2014-03-20
  • Invited
• [Presentation] Differentiation and functional specialization of Arabidopsis root cap by NAC transcription factors (2014)
  • Author(s): Masako Kamiya, Shinya Higashio, Atsushi Isomoto, Miyako NakanishiMiyashima Shunsuke, Keiji Nakajima
  • Organizer: 第55回日本植物生理学会年会
  • Place of Presentation: 富山大学（富山県富山市）
  • Year and Date: 2014-03-18 – 2014-03-20
• [Presentation] microRNAによるHD-ZIPIII転写因子の発現制御が胚珠の形成に果たす役割 (2014)
  • Author(s): 橋本佳世、本田美波、立松圭、岡田清孝、奈良久美、中島 敬二
  • Organizer: 第55回日本植物生理学会年会
  • Place of Presentation: 富山大学（富山県富山市）
  • Year and Date: 2014-03-18 – 2014-03-20
• [Presentation] Control of root cap differentiation by non-cell-autonomous microRNA (2014)
  • Author(s): Asuka Furukawa, Keiji Nakajima
  • Organizer: 第55回日本植物生理学会年会
  • Place of Presentation: 富山大学（富山県富山市）
  • Year and Date: 2014-03-18 – 2014-03-20
• [Presentation] Evolutionarily conserved role of RKD gene family in land plant reproduction (2013)
  • Author(s): Satoshi Koi, Kimitsune Ishizaki, Takayuki Kohchi, Keiji Nakajima
  • Organizer: Marchantia Workshop 2013 （Marchantia IV）
  • Place of Presentation: Melbourne (Australia)
  • Year and Date: 2013-12-08 – 2013-12-11
• [Presentation] Genetic network in cell fate specification and differentiation control in the Arabidopsis root (2013)
  • Author(s): Keiji Nakajima
  • Organizer: Signaling and Coordination in Plant Development
  • Place of Presentation: 奈良先端科学技術大学院大学（奈良県生駒市）
  • Year and Date: 2013-11-29
• [Presentation] モデル苔類ゼニゴケを用いた初期胚発生に関わる遺伝子の機能解析 (2013)
  • Author(s): 厚井聡、中島 敬二
  • Organizer: 日本蘚苔類学会第42 回大会
  • Place of Presentation: 岡山理科大学（岡山県岡山市）
  • Year and Date: 2013-08-05 – 2013-08-07
• [Book] 新しい植物ホルモンの科学 第3版 (2016)
  • Author(s): 浅見 忠男、柿本 辰男他
  • Total Pages: 192
  • Publisher: 講談社
  • ISBN: 9784061534520
• [Remarks] 冠組織をモデルとして細胞分化の実体に迫る
  • URL: http://bsw3.naist.jp/nakajima/Research_JP/root_cap.html
• [Remarks] 根端の細胞が自ら剥がれ落ちるしくみを解明
  • URL: http://bsw3.naist.jp/research/index.php?id=1398
• [Remarks] 生殖細胞がつくられる仕組み
  • URL: http://bsw3.naist.jp/nakajima/Research_JP/Germ_cell.html
• [Remarks] 植物で生殖細胞をつくり出す主役の遺伝子を発見 ～生殖機構の解明や、繁殖・育種技術への応用に期待～
  • URL: http://bsw3.naist.jp/research/index.php?id=1340