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中村友輝 (Nakamura, Yuki)

副研究員

  • 2015-現在: 中央研究院植物暨微生物學研究所副研究員
  • 2016-現在: 國立中興大學-台灣國際研究生學程 兼任副教授
  • 2015-現在: 歐洲分子生物組織(EMBO)年輕研究員
  • 2014-2016: 國立中興大學-台灣國際研究生學程 兼任助理教授
  • 2011-2015: 中央研究院植物暨微生物學研究所 助研究員
  • 2011-2014: PRESTO, 日本科學技術振興機構 (JST)
  • 2010-2011: 德國馬克思-普朗克植物繁殖研究所及 德國波昂大學 A. von Humboldt 研究學者
  • 2009-2010: 國立新加坡大學 博士後研究學者
  • 2007-2009: 新加坡淡馬錫生命科學研究所 日本學術振興會海外特別研究員
  • 2007: 日本東京工業大學 博士
  • +886-2-2787-1130(Lab)
  • +886-2-2787-1029(Office)
  • nakamura@gate.sinica.edu.tw
  • Lipid diversity in plant growth and development

概念 

瞭解脂質以理解植物生命

脂質是最富多樣性且重要的生物分子。最新的研究顯示:脂質除了是細胞膜或能量儲存時不可或缺的元件,也可充當重要的訊號傳遞因子。我們的研究團隊將使用種子植物Arabidopsis和綠藻Chlamydomonas作為模式系統,探討脂質如何藉由與其它訊號傳遞因子作用,來協調植物的生長發育過程。我們的研究結果將可望為植物科學懸而未決的問題提供並且也深具產業發展潛力。

重點

有懸而未決的植物科學問題嗎?想想脂質!

脂質藉由與其他分子的互動來履行其功能。我們的研究興趣是瞭解"脂質與蛋白質的交作用"如何影響訊號傳遞。目前的研究方向將著重在以下數個植物生長發育過程。

生物時鐘如何控制脂質的變化和開花時間控制

生物時鐘控制脂質的含量。脂質的累積根據環境信號,如光照,溫度,和植物荷爾蒙的影響呈現規律的韻律,並控制植物適當的開花時間。脂質和控制開花時間的重要傳訊因子之間的具體互動將是我們研究的重點。

脂質調節植物幹細胞器官形成

由於脂質和植物幹細胞之間有緊密聯繫,所以脂質對植物體之美有決定性的影響。因此,當脂質合成或累積的監控網絡出現問題時,會嚴重影響器官的形成或相對位置的準確性,造成有發育缺失的植物體。藉由分析植物脂質突變體,我們將可以瞭解脂質在維持植物勻稱體形上的關鍵角色。

細胞器間的脂質積物流種子成熟過程影響

脂質可充當種子成熟過程的能量來源。這個項目的重點是理解脂質的蓄積是如何啟動,脂質如何被分配到細胞内特定的位置,以及脂質最後如何形成一個脂滴沉積。我們的目標是揭開脂質在各個細胞胞器間的動態運輸,最終將所獲得的知識應用於農業上。

技術

"代謝切換系統",在脂質研究的創新技術

脂質並非是遺傳基因編碼的直接産物。因此,基因層面的操縱並無法有效改變體內的脂質成分。我們的"代謝切換系統"是一種新型的技術平台:藉由短暫改變脂質的代謝速率或途徑,我們得以改變特定組織或位置的脂質種類或含量。藉由這個系統的開發,我們將可以研究脂質的改變如何影響組織的的功能。

從劃時代的系統生物到傳統的生化研究法

脂質的研究需要多邊進行。相關的研究不應受限於固定的實驗方法,而應該根據研究的目的來選擇最適切的研究方法。因此,我們將廣泛採取包括現代系統生物學到傳統生物化學的實驗技術,來追求科學問題背後的解答。

應用

藻類生質能:"綠色創新"

脂質具有拯救世界的潛力。藉由代謝切換系統技術的應用,藻類細胞可以切換脂質的代謝而合成較多的三酸甘油酯。這個"綠色微型工廠"可以大規模生產具有特定質量的生物柴油前驅物,造福生物能源與其他油脂產業的開發。

All publication list

Selected publication list

Original articles (* corresponding author; †co-first author)

  1. Artik Elisa Angkawijaya†, Cam Van Nguyen†, Farrel Gunawan, and Yuki Nakamura*. (2020) A pair of diacylglycerol kinases essential for gametogenesis and ER phospholipid metabolism in leaves and flowers of Arabidopsis. Plant Cell doi:10.1105/tpc.20.00251
  2. Ying-Chen Lin†, Galileo Estopare Araguirang†, Anh Hai Ngo†, Kui-Ting Lin, Artik Elisa Angkawijaya, Yuki Nakamura*. (2020) The 4 Arabidopsis Choline/Ethanolamine Kinase Isozymes Play Distinct Roles in Metabolism and Development. Plant Physiol.183(1):152-166.
  3. Yuki Nakamura*, Ying-Chen Lin, Satoshi Watanabe, Yu-chi Liu, Kenta Katsuyama, Kazue Kanehara, and Kenji Inaba*. (2019) High-resolution crystal structure of Arabidopsis FLOWERING LOCUS T illuminates its phospholipid-binding site in flowering. iScience, 21:577-586.[Editor’s pick]
  4. Anh Hai Ngo, Kazue Kanehara, and Yuki Nakamura*. (2019) Non‐specific phospholipases C, NPC2 and NPC6, are required for root growth in Arabidopsis. Plant J. 100(4):825-835.[cover issue: https://onlinelibrary.wiley.com/doi/10.1111/tpj.14257]
  5. Artik Elisa Angkawijaya, Van Cam Nguyen, and Yuki Nakamura*. (2019) Lysophosphatidic acid acyltransferases 4 and 5 are involved in glycerolipid metabolism and nitrogen starvation response in Arabidopsis. New Phytol. 224(1):336-351.
  6. Ying-Chen Lin, Kazue Kanehara, and Yuki Nakamura*. (2019) Arabidopsis CHOLINE/ETHNAOLAMINE KINASE 1 (CEK1) is a primary choline kinase localized at the ER and involved in ER stress tolerance. New Phytol. 223(4):1904-1917.
  7. Artik Elisa Angkawijaya, Farrel Gunawan, and Yuki Nakamura*. (2019) Expression profiles of 2 phosphate starvation-inducible phosphocholine/ phosphoethanolamine phosphatases, PECP1 and PS2, in Arabidopsis. Front Plant Sci. 10:662.
  8. Van Cam Nguyen, Yuki Nakamura, and Kazue Kanehara*. (2019) Membrane lipid polyunsaturation mediated by FATTY ACID DESATURASE 2 (FAD2) is involved in endoplasmic reticulum stress tolerance in Arabidopsis thaliana. Plant J. 99(3):478-493
  9. Yu-chi Liu and Yuki Nakamura*. (2019) Triacylglycerol production in the snow algae Chlamydomonas nivalis under different nutrient conditions. Lipids 54(4):255-262.
  10. Yu-chi Liu, Ying-Chen Lin, Kazue Kanehara, and Yuki Nakamura*. (2019) A methyltransferase trio essential for phosphatidylcholine biosynthesis and growth. Plant Physiol. 179(2):433-445.
  11. Yu-chi Liu, Ying-Chen Lin, Kazue Kanehara, and Yuki Nakamura*. (2018) A pair of phospho-base methyltransferases important for phosphatidylcholine biosynthesis in Arabidopsis. Plant J. 96(5):1064-1075.
  12. Yu-chi Liu, Farrel Gunawan, Ian Sofian Yunus, and Yuki Nakamura*. (2018) Arabidopsis Serine Decarboxylase 1 (SDC1) in Phospholipid and Amino Acid Metabolism. Front Plant Sci. 9:972. doi.10.3389/fpls.2018.00972
  13. Anh Hai Ngo, Ying-Chen Lin, Yu-chi Liu, Katharina Gutbrod, Helga Peisker, Peter Dörmann, and Yuki Nakamura* (2018) A pair of non-specific phospholipases C, NPC2 and NPC6, is involved in gametophyte development and glycerolipid metabolism in Arabidopsis. New Phytol. 219(1):163-175.
  14. Ying-Chen Lin, Koichi Kobayashi, Hajime Wada, and Yuki Nakamura* (2018) Phosphatidylglycerophosphate phosphatase is required for root growth in Arabidopsis. Biochim. Biophys. Acta - Mol Cell Biol Lipids. 1863(6):563-575.
  15. Artik Elisa Angkawijaya and Yuki Nakamura* (2017) Arabidopsis PECP1 and PS2 are phosphate starvation-inducible phosphocholine phosphatases. Biochem. Biophys. Res. Commun. 494:397-401.
  16. Artik Elisa Angkawijaya, Van Cam Nguyen, and Yuki Nakamura* (2017) Enhanced root growth in phosphate-starved Arabidopsis by stimulating de novo phospholipid biosynthesis through the overexpression of LYSOPHOSPHATIDIC ACID ACYLTRANSFERASE 2 (LPAT2). Plant Cell Environ. 40(1):1807-1818.  
  17. Takashi Hirashima, Masakazu Toyoshima, Takashi Moriyama, Yuki Nakamura, and Naoki Sato (2017) Characterization of phosphoethanolamine-N-methyltransferases in green algae. Biochem. Biophys. Res. Commun. 488(1):141-146.
  18. Yueh Cho, Chao-Yuan Yu, Yuki Nakamura, and Kazue Kanehara* (2017) Arabidopsis dolichol kinase AtDOK1 is involved in flowering time control. J. Exp. Bot. 68(12):3243-3252.
  19. Ying-Chen Lin, Koichi Kobayashi, Chun-Hsien Hung, Hajime Wada, and Yuki Nakamura* (2016) Arabidopsis PHOSPHATIDYLGLYCEROPHOSPHATE PHOSPHATASE1 (PGPP1) involved in phosphatidylglycerol biosynthesis and photosynthetic function. Plant J., 88:1022-1037.
  20. Ian Sofian Yunus†, Yu-chi Liu†, and Yuki Nakamura* (2016) The importance of SERINE DECARBOXYLASE1 (SDC1) and ethanolamine biosynthesis during embryogenesis of Arabidopsis thaliana. Plant J., 88:559-569.
  21. Chun-Hsien Hung, Kazue Kanehara, and Yuki Nakamura*(2016) Isolation and characterization of a mutant defective in triacylglycerol accumulation in nitrogen-starved Chlamydomonas reinhardtii. Biochimica. Biophysica. Acta, 1861:1282-1293.
  22. Chun-Hsien Hung, Kazue Kanehara, and Yuki Nakamura*(2016) In vivo reconstitution of algal triacylglycerol production in Saccharomyces cerevisiae. Front. Microbiol., 7:70. DOI: 10.3389/fmicb.2016.00070
  23. Chun-Hsien Hung, Koichi Kobayashi, Hajime Wada, and Yuki Nakamura*(2016) Functional specificity of cardiolipin synthase revealed by the identification of a cardiolipin synthase CrCLS1 in Chlamydomonas reinhardtii. Front. Microbiol., 6:1542. DOI: 10.3389/fmicb.2015.01542
  24. Kazue Kanehara*, Chao-Yuan Yu, Yueh Cho, Wei-Fun Cheong, Federico Torta, Guanghou Shui, Markus R Wenk, and Yuki Nakamura (2015)  Arabidopsis AtPLC2 is a primary phosphoinositide-specific phospholipase C in phosphoinositide metabolism and the endoplasmic reticulum stress response. PLOS Genet., DOI:10.1371/journal.pgen.1005511
  25. Chun-Hsien Hung, Kaichiro Endo, Koichi Kobayashi, Yuki Nakamura*, and Hajime Wada (2015) Characterization of Chlamydomonas reinhardtii phosphatidylglycerophosphate synthase in Synechocystis sp. PCC 6803. Front. Microbiol., 6:842. DOI: 10.3389/fmicb.2015.00842
  26. Ian Sofian Yunus, Amaury Cazenave-Gassiot, Yu-chi Liu, Ying-Chen Lin, Markus R. Wenk and Yuki Nakamura* (2015) Phosphatidic acid is a major phospholipid class in reproductive organs of Arabidopsis thaliana. Plant Signal. Behav., DOI:10.1080/15592324.2015.1049790
  27. Ying-Chen Lin, Yu-chi Liu, Yuki Nakamura*. (2015) The choline/ethanolamine kinase family in Arabidopsis: Essential role of CEK4 in phospholipid biosynthesis and embryo development. Plant Cell, 27:1497-1511. [cover issue:  http://www.plantcell.org/content/27/5.cover-expansion]
  28. Chun-Hsien Hung, Koichi Kobayashi, Hajime Wada, Yuki Nakamura*. (2015) Isolation and characterization of a phosphatodylglycerol-phosphate phosphatase1, PGPP1, in Chlamydomonas reinhardtii. Plant Physiol. Biochem., 92:56-61.
  29. Kazue Kanehara*, Yueh Cho, Ying-Chen Lin, Chia-En Chen, Chao-Yuan Yu and Yuki Nakamura. (2015) Arabidopsis DOK1 encodes a functional dolichol kinase involved in reproduction, Plant J., 81:292-303.
  30. Sho Fujii, Koichi Kobayashi*, Yuki Nakamura* and Hajime Wada. (2014) Inducible knockdown of MONOGALACTOSYLDIACYLGLYCEROL SYNTHASE1 reveals roles of galactolipids in organelle differentiation in Arabidopsis cotyledons. Plant Physiol., 166:1436-1449.
  31. Yuki Nakamura*, Fernando Andrés, Kazue Kanehara, Yu-chi Liu, George Coupland and Peter Dörmann. (2014) Diurnal and circadian expression profiles of glycerolipid biosynthetic genes in Arabidopsis. Plant Signal. Behav., e29715 doi:10.4161/psb.29715.
  32. Yuki Nakamura*, Yu-chi Liu and Ying-Chen Lin. (2014) Floral glycerolipid profiles in homeotic mutants of Arabidopsis thaliana. Biochem. Biophys. Res. Commu., 450:1272-1275.
  33. Yuki Nakamura*, Fernando Andrés, Kazue Kanehara, Yu-chi Liu, Peter Dörmann and George Coupland. (2014) Arabidopsis florigen FT binds to diurnally oscillating phospholipids that accelerate flowering. Nat. Commun., 5:3553 doi: 10.1038/ncomms4553.
  34. Yuki Nakamura*, Norman Z. W. Teo, Guanghou Shui, Christine H.L. Chua, Wei-Fun Cheong, Sriram Parameswaran, Ryota Koizumi, Hiroyuki Ohta, Markus R. Wenk and Toshiro Ito*. (2014) Transcriptomic and lipidomic profiles of glycerolipids during Arabidopsis flower development. New Phytol., 203:310-322.
  35. Chun-Hsien Hung, Ming-Yang Ho, Kazue Kanehara and Yuki Nakamura*. (2013) Functional study of diacylglycerol acyltransferase type 2 family in Chlamydomonas reinhardtii. FEBS Lett., 587:2364-2370.
  36. Yuki Nakamura, Ryota Koizumi, Guanghou Shui, Mie Shimojima, Markus R. Wenk, Toshiro Ito and Hiroyuki Ohta*. (2009) Arabidopsis lipins mediate eukaryotic pathway of lipid metabolism and cope critically with phosphate starvation. Proc. Natl. Acad. Sci. USA, 106:20978-83.
  37. Yuki Nakamura, Koichi Kobayashi and Hiroyuki Ohta*. (2009) Activation of Galactolipid Biosynthesis in Development of Pistils and Pollen tubes. Plant Physiol. Biochem. 47:535-539.
  38. Nicole Gaude, Yuki Nakamura, Wolf-Rudiger Scheible, Hiroyuki Ohta and Peter Dörmann* (2008) Phospholipase C5 (NPC5) is involved in galactolipid accumulation during phosphate limitation in leaves of Arabidopsis. Plant J. 56:28-39.
  39. Yuki Nakamura and Hiroyuki Ohta* (2007) The diacylglycerol forming pathways differ among floral organs of Petunia hybrida. FEBS Lett. 581:5475-5479.
  40. Yuki Nakamura, Mami Tsuchiya and Hiroyuki Ohta* (2007) Plastidic phosphatidic acid phosphatases identified in a distinct subfamily of lipid phosphate phosphatases with prokaryotic origin. J. Biol. Chem. 282:29013-29021.
  41. Koichiro Awai, Takatoshi Kakimoto, Chie Awai, Takakazu Kaneko, Yuki Nakamura, Ken-ichiro Takamiya, Hajime Wada and Hiroyuki Ohta*.(2006) Comparative genomic analysis revealed a gene for monoglucosyldiacylglycerol synthase, an enzyme for photosynthetic membrane lipid synthesis in cyanobacteria. Plant Physiol. 141:1120-1127.
  42. Yuki Nakamura, Koichiro Awai, Tatsuru Masuda, Yasushi Yoshioka, Ken-ichiro Takamiya and Hiroyuki Ohta*. (2005) A novel phosphatidylcholine-hydrolyzing phospholipase C induced by phosphate starvation in Arabidopsis. J. Biol. Chem. 280:7469-7476. [Recommended by Faculty1000]
  43. Yuki Nakamura, Hitomi Arimitsu, Yoshiki Yamaryo, Koichiro Awai, Tatsuru Masuda, Hiroshi Shimada, Ken-ichiro Takamiya and Hiroyuki Ohta*. (2003) Digalactosyldiacylglycerol is a major glycolipid in floral organs of Petunia hybrida. Lipids 38:1107-1112.

Review articles / book chapters / editorials

  1. Yuki Nakamura* and Anh H. Ngo. (2020) Non-specific phospholipase C (NPC): an emerging class of phospholipase C in plant growth and development. J Plant Res. 133:489-497.
  2. Yuki Nakamura*. (2018) Membrane Lipid Oscillation: An Emerging System of Molecular Dynamics in the Plant Membrane. Plant Cell Physiol. 59:441-447.
  3. Yuki Nakamura*. (2017) Plant phospholipid diversity: Emerging functions in metabolism and protein-lipid interactions. Trends Plant Sci. 22(12):1027-1040.
  4. Takashi Osanai*, Youn-Il Park* and Yuki Nakamura*. (2017) Editorial: Biotechnology of Microalgae, Based on Molecular Biology and Biochemistry of Eukaryotic Algae and Cyanobacteria. Front. Microbiol. 8:118. doi: 10.3389/fmicb.2017.00118
  5. Yonghua Li-Beisson*, Yuki Nakamura and John Harwood. (2016) Lipids: From Chemical Structures, Biosynthesis, and Analyses to Industrial Applications. In “Lipids in Plant and Algae Development (Y Nakamura and Y Li-Beisson eds)” Subcellular Biochemistry 86:1-18, Springer.
  6. Yuki Nakamura*. (2015) Function of polar glycerolipids in flower development in Arabidopsis thaliana. Prog. Lipid. Res. 60:17-29.
  7. Yuki Nakamura*. (2014) NPC: non-specific phospholipase Cs in plant functions. In “Phospholipases in Plant Signaling (Wang, X ed) Singaling and Communication in Plants 8094:55-68, Springer.
  8. Yuki Nakamura*. (2013) Galactolipid biosynthesis in flowers. Botanical Studies, 54:29.
  9. Yuki Nakamura*. (2013) Assaying Plant Phosphatidic Acid Phosphatase Activity. In "Plant Lipid Signaling Protocols (Munnik T and Heilmann I, eds)" Methods in Molecular Biology 1009:233-240, Springer.
  10. Yuki Nakamura*. (2013) Phosphate starvation and membrane lipid remodeling in seed plants. Prog. Lipid. Res. 52:43-50.
  11. Yuki Nakamura and Hiroyuki Ohta*. (2011) Phosphatidic Acid Phosphatases in Seed Plants ~ Involvement in Membrane Lipid Biosynthesis and Signal Transduction. Seikagaku (Biochemistry) 82:1137-40 [Review in Japanese]
  12. Yuki Nakamura, Koichi Kobayashi, Mie Shimojima and Hiroyuki Ohta*. (2010) Biosynthesis and Function of Monogalactosyldiacylglycerol, the Signature Lipid of Chloroplasts. In "The Chloroplast (Rebeiz, CA ed)" Advances in Photosynthesis and Respiration 31:185-202, Springer.
  13. Mie Shimojima*, Hiroyuki Ohta and Yuki Nakamura. (2010) Biosynthesis and Function of Chloroplast Lipids. In "Lipids in Photosynthesis (Wada, H. and Murata, N eds)" Advances in Photosynthesis and Respiration 30:35-55, Springer.
  14. Yuki Nakamura and Hiroyuki Ohta*. (2010) Phosphatidic acid phosphatases in seed plants. In "Lipid Singaling in Plants (Munnik T, ed)", Plant Cell Monographs 16:131-141, Springer.
  15. Koichi Kobayashi, Yuki Nakamura and Hiroyuki Ohta*. (2009) Type A and type B monogalactosyldiacylglycerol synthases are spatially and functionally separated in plastids of higher plants. Plant Physiol. Biochem. 47:518-525.
林奎廷 
研究助理
張槿玟
研究助理
劉昱志
特殊技能助理
諾海安 (Hai Anh Ngo)
博士後研究員
陳樂融
TIGP博士生
阮錦雲 (Cam Van Nguyen)
博士候選人
白妮娜 (Nina Alyssa M. Barroga) 
博士候選人
迪巴揚 (Debayan Bose) 
博士候選人

Lab Alumni

Ming-Yang Ho (Sep 2012 – Jun 2013)
Assistant Professor, National Taiwan University

Ian Sofian Yunus (Jul 2014 – Sep 2015)
Postdoctoral Fellow, Imperial College Lodon, UK

Artik Elisa Angkawijaya (May 2015 – July 2019)
Assistant Professor, National Taiwan University of Science and Technology

Ying-Chen Lin (May 2013 – July 2019)
Postdoctoral Fellow, University of Oxford, UK

Galileo Estopare Araguirang (May 2018 – July 2019)
Ph.D Student, International Max Planck Research School -Primary Metabolism and Plant Growth (IMPRS-PMPG), Germany

Chun-Hsien Hung (Dec 2011 – Dec 2015) 

Panadda Kungwon (Jan – Dec 2017)

Farrel Gunawan (Dec 2016 – Dec 2018)