林学中心团队 (Research)
林木分子生物学(Plant Molecular Biology)

主任(PI): 冈义人 (Yoshito Oka, PhD)


团队成员 (Members): 苏军(Jun Su, PhD),郑华坤(Huakun Zheng, PhD),杨兆河(Zhaohe Yang),陈磊(Lei Chen),江涛(Tao Jiang),李晨曦(Chenxi Li),廖佳凯(Jiakai Liao),甄茜(Xi Zhen),熊贝(Bei Xiong),林莉莉(Lili Lin),黄志明(Zhiming Huang)

研究领域 (Research focus):

研究植物基因及基因组表达调控的分子机理, 开展农林业物种(如毛竹、杉树、水稻, 茶叶等)的基础分子生物学研究。深入进行模式植物的分子生物学研究, 以求揭示植物基因转录过程的分子机理, 基因表达调控在植物生长发育,光感应,与逆境感应信号传递过程中的作用, 以及其在农林业物种产量与品质控制过程中的作用。

Investigation of basic gene expression regulatory mechanisms, especially the basic components, dynamics, and function of the General Transcription Machinery (GTM).  Analyses of gene and transcriptome changes of crop species, including rice, bamboo, China fir, tea, etc, and effects of gene expression changes on yield and other agronomic traits.  Mechanistic studies of the transcriptional and post-transcriptional regulatory mechanisms underlying gene expression changes in response to developmental, light, and other environmental changes.

发表文章 (Publications):


Qing Liu, Qin Wang, Weixian Deng, Xu Wang, Mingxin Piao, Dawei Cai, Yaxing Li, William D. Barshop, Xiaolan Yu, Tingting Zhou, Bin Liu, Yoshito Oka, James Wohlschlegel, Zecheng Zuo and Chentao Lin.(2017) Molecular basis for blue light-dependent phosphorylation of Arabidopsis cryptochrome 2 Nature Communications  in pressdoi: 10.1038/ncomms15234.


Wang Q,Zuo Z C,Wang X,Gu L F, Yoshizumi T,Yang,Z H,Liu Q,Liu W,Han Y J,Liu B, Wohlschlegel J A, Matsui M, Oka Y and Lin C.(2016) Photoactivation and inactivation mechanisms of Arabidopsis cryptochrome2 Science 354:343-347.

Liu B,Yang Z,Gomez A,Liu B,Lin C ,Oka Y.(2016) Signaling mechanisms of plant cryptochromes in Arabidopsis thaliana J Plant Res 129(2):137-148.

      Gao Jie, Qin Wang, Meng Zhang, Mingdi Bian,Weixian Deng, Zecheng Zuo,Zhenming Yang,Dongping Zhong and Chentao Lin.(2015) Trp triad-dependent rapid photoreduction is not required for the function of Arabidopsis CRY1 PNAS 112(44):13729-13734.
      Wang,Q., Barshop,W.D., Bian,M., Vashisht,A.A., He,R., Yu,X., Liu,B., Nguyen,P., Liu,X., Zhao,X., Wohlschlegel,J.A and Lin,C.(2015) The Blue Light-Dependent Phosphorylation of the CCE Domain Determines the Photosensitivity of Arabidopsis CRY2 Mol Plant 8:631–643.
      Liuyin Ma, ArthurG. Hunt.(2015) A 3' RACE protocol to confirm polyadenylation sites Methods Mol Biol 1255:135-144.
      Pratap KumarPati, Liuyin Ma and Arthur G. Hunt. (2015) Genome-wide determination of poly(A)site choice in plants Methods Mol Biol 1255:159-174.
      Jun Su., Shunli Chen and Fei-ping Zhang.(2015) Differences in parasitic ability of Beauveria bassiana (Moniliales: Moniliaceae) in relation to Pantana phyllostachysae (Lepidoptera: Lymantridae) when feeding on different Phyllostachys pubescens (Poales: Poaceae) leaves Entomological Research 45 :135–140
      Su Jun., Zhang FP., Huang WL., et al.(2015) Influence of different types of Phyllostachys pubescens (Poales: Poaceae) leaves on population parameters of Pantana phyllostachysae (Lepidoptera: Lymantriidae) and parasitic effects of Beauveria bassiana (Moniliales: Moniliaceae) J Insect Sci (5)15: pii: 39. doi: 10.1093/jisesa/iev008.

      Wang,X., Wang,Q., Nguyen,P.,Lin,C.(2014) Cryptochrome-mediated light responses in plants Enzymes 35:167-89.doi: 10.1016/B978-0-12-801922-1.00007-5.
      Liuyin Ma, PratapKumar Pati, Man Liu, Qingshun Q. Li, and Arthur G. Hunt. (2014) High throughputcharacterizations of poly(A) site choice in plants Methods (67)1:74-83
      Qin Hu, Ye Jin, Huazhong Shi and Wannian Yang.(2014) GmFLD, a soybean homolog of the autonomous pathway gene FLOWERING LOCUS D, promotes flowering in Arabidopsis thaliana BMC Plant Biology 14: 263.

Before 2014
      Meng,Y, Li,H., Wang,Q., Liu,B and Lin,C.(2013) Blue Light-Dependent Interaction between Cryptochrome2 and CIB1 Regulates Transcription and Leaf Senescence in Soybean Plant Cell 25: 4405–4420.
      Liu,H., Wang,Q., Liu,Y., Zhao,X., Imaizumi,T., Somers,D. E., Tobin,E. M and Lin, C.(2013) The Arabidopsis photoreceptors CRY2 and ZTL mediate blue-lightregulation of the transcription factor CIB1 by distinct mechanisms Proc Natl Acad Sci U S A 110:17582-17587.
      Fristedt,R., Scharff,L.B., Clarke,C.A., Wang,Q., Lin,C., Merchant, S.S., Bock R.(2013) RBF1, a Plant Homologof the Bacterial Ribosome-Binding Factor RbfA, Acts in Processing of theChloroplast 16S Ribosomal RNA Plant Physiology 164: 201–215.
      Zheng, H., Li, S., Zhang, J., Ichii, M.,Taketa, S., Tao, Y., Zuo, J., and Hua Wang.(2013)LATERAL ROOTLESS2, a Cyclophilin Protein, Regulates Lateral RootInitiation and Auxin Signaling Pathway in Rice Molecular Plant 6(5):1719-1721.
      Yoshito Oka, Yuya Ono, Gabriela Toledo-Ortiz, Keio Kokjai,Nobuyoshi Mochizuki, Akira Nagatani.(2012)Phytochrome A is modularly structured to integrate the multiplefeatures that are required for a highly sensitized phytochrome Plant Cell 24:2949-2962
      Wang,Q., Fristedt, R., YuX, Chen,Z., Liu,H., Lee,Y., Guo,H.,Merchant, S.,Lin, C.(2012)The γ-carbonic anhydrase subcomplexof mitochondrial complex I is essential for development and important forphotomorphogenesis of Arabidopsis Plant Physiology 160: 1373-1383
      Wang,Q., Zhu,Z., Ozkardesh,K and Lin,C.(2012) Phytochromes and phytohormones: Theshrinking degree of separation Molecular Plant 6:5-7.
Yoshito Oka, Sam-Geun Kong, and Tomonao Matsushita.(2011)A Non-Covalently Attached Chromophore canMediate Phytochrome B Signaling in Arabidopsis Plant Cell Physiol  52:2088-2102
      Liuyin Ma, ChengGuo, and Qingshun Q. Li. (2011)  Role of alternative polyadenylation inepigenetic silencing and antisilencing ProcNatl Acad Sci U S A 111(1):9-10.
      Li,X., Wang,Q., Yu,X., Liu,H., Yang,H., Zhao,C., Liu,X., Tan,C., Klejnot,J., Zhong,D and Lin, C.(2011) Arabidopsis CRY2 functions by the photoactivation mechanismdistinct from the trp triad-dependent photoreduction Proc Natl Acad Sci U S A 108:20844-20849.
      Liu, H., Zheng, H., Wang, H., Guo, P., Zuo, J., and TaoY. (2011)Fine-mapping of SRT7 for shortroots and identification ofits candidate in rice Chinese Science Bulletin 56(31):3296-3300.
      Teale,S,A.,Wiickham,J.D.,Zhang,F.,Su,J.,Chen,Y.,Xiao,Y.,Hanks,L.M.,Millar.J.J.(2011) A Male-Produced Aggregation Pheromone of Monochamus alternatus (Coleoptera: Cerambycidae), a Major Vector of Pine Wood Nematode Journal of Economic Entomology 104(5):1592-1598.
      Gabriela Toledo-Ortiz, Yukio Kiryu,Junko Kobayashi, Yoshito Oka, Yumi Kim, Hong Gil Nam, Nobuyoshi Mochizuki andAkira Nagatani.(2010) Subcellular sites of the signal transduction anddegradation of phytochrome A Plant Cell Physiol 51:1648-1660
      Elise Kikis, Yoshito Oka, Matthew E. Hudson, Akira Nagatani andPeter HQuail. (2009) Residues Clustered in the Light-SensingKnot of Phytochrome B is necessary for Conformer-Specific Binding to SignalingPartner PIF3 PLoS Genetics 5:e1000352
      Pablo Leivar, Elena Monte, Yoshito Oka, Tiffany Liu, ChristineCarle, Alicia Castillon, Enamul Huq and Peter H. Quail .(2008) Multiple phytochrome-interacting bHLHtranscription factors repress premature photomorphogenesis during earlyseedling development in darkness Current Biology 18:1815-1823
      Yoshito Oka, Tomonao Matsushita, Nobuyoshi Mochizuki, Peter Quailand Akira Nagatani.(2008) Mutantscreen distinguishes between residues necessary for light-signal perception andsignal transfer by phytochrome B PLoS Genetics 15:e1000158
      Takeshi Usami, Tomonao Matsushita, Yoshito Oka, NobuyoshiMochizuki and Akira Nagatani.(2007) Roles for the N- and C-Terminal Domains of Phytochrome B inInteractions Between Phytochrome B and Cryptochrome Signaling Cascades Plantand Cell physiology 48:424-433
      Yoshito Oka, Tomonao Matsushita, Nobuyoshi Mochizuki, TomomiSuzuki, Satoru Tokutomi, and Akira Nagatani.(2004) Functional Analysis of a 450-Amino AcidN-Terminal Fragment of Phytochrome B in Arabidopsis Plant Cell 16:2104-2116
      Silvia De Simone, Yoshito Oka, and Yasunori Inoue.(2000)Effect of light on root hair formation inArabidopsis thaliana phytochrome-deficient mutants Journal of Plant Research 113:63-69
      Silvia De Simone, Yoshito Oka, and Yasunori Inoue.(2000)Photoperceptive site of the photoinductionof root hairs in Lettuce (Lactuca sativaL. cv. Grand Rapids)seedlings under low pH conditions Journal of Plant Research 113:55-62
      Silvia De Simone, Yoshito Oka, Naomi Nishioka, Satoshi Tadano, andYasunori Inoue.(2000)Evidence of phytochrome mediation inlow-pH-induced root hair formation process in Lettuce (Lactuca sativa L. cv. Grand Rapids) seedlings Journal of Plant Research 113:45-53.