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Sequence analysis of mRNA polyadenylation signals of rice genes

chinese Science Bulletin 2006年第9期51卷 1069-1077页

作者： LU Ying1, 2. GAO Chenxi1,2.3.& HAN Bin1,3.41. National Center for Gene Research, {2. institutes for Biological {2.,{3., {2. 2.02.0}, china 2. Graduate School of the{3., Beijing 10003., china {12., {2. institutes for Biological {2.,{3.,{13. National Center for Gene Research Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200233 China Graduate School of the chinese academy of sciences Beijing 100039 China institute of plant{2. and {3. Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200032 China

The formation of eukaryotic mRNAs involves the cleavage and polyadenylation of pre- mRNAs. To investigate the sequence requirement of putative polyadenylation signals (PASs), poly(A) sites and downstream elements (DUEs) in 3.-end-pro- cessing in rice, we compared expressed sequences tags (ESTs) with poly(A) extremity to full-length cDNA sequences and constructed a database of 12.69 pre- mRNA sequences in ?40―+40 nt surrounding the poly(A) sites, which were from 9953.genes. The al- ternative poly(A) sites were revealed in approxi- mately 2.% of mRNAs. Nearly 80% of pre-mRNAs showed stringent requirement of the YA (CA or UA) at poly (A) sites for polyadenylation. About 7.9% had the AAUAAA signals on ?40―?1 nt upstream of the poly(A) sites. Over 60% of mRNAs probably used the one- or two-base variants of AAUAAA hexamers as their PASs in 3. fragments. The single-base variants of AAUGAA revealed the high frequency in 11.5% of 3. fragments. The DUEs were detected in 90% of pre- mRNAs, especially more than half of the pre-mRNAs with multi-base variants of AAUAAA had the DUEs surrounding the poly(A) site. The location of DUE is also important for defining the cleavage site. Al- though most of the rice pre-mRNAs did not contain AAUAAA signal, the existence of downstream ele- ments ensured the efficiency of cleavage-polyade-

关键词：多聚腺苷酸序列分析 mRNA 水稻基因工程

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Tissue Distribution and Purification of Prophenoloxidase in Larvae of Asian Corn Borer, Ostrinia furnacalis Guenée (Lepidoptera: Pyralidae)

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Acta Biochimica et Biophysica Sinica 2004年第5期36卷 360-364页

作者： Cong-Jing FENG1,2.and Wen-Jun FU1* 1institute of plant{2. and {3., shanghai institute for Biological sciences, the chinese academy of sciences, shanghai 2.002., china 2.he GraduateSchool of the chinese academy of sciences, Beijing 10003., china institute of plant{2. and {3. Shanghai Institute for Biological Sciences the Chinese Academy of Sciences The Graduate School of the chinese academy of sciences

Using ammonium sulphate precipitation, Blue-Sepharose CL-6B, Phenyl-Sepharose CL-4B, prophenoloxidase (PPO) was isolated and purified from hemolymph of Ostrinia furnacalis larvae. This zy- mogen was a heterodimer, and composed of two subunits with the relative molecular mass ranging from 66.2. kD to 97.4 kD determined by SDS-PAGE. Western blotting and indirect immunofluorescence test showed that PPO was present in integument, hemolymph plasma and cell membrane of granular hemocytes and oenocytoids of O. furnacalis larvae.

关键词： Ostrinia furnacalis prophenoloxidase tissue distribution purification

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Expressional Analysis of an EREBP Transcription Factor Gene OsEBP-89 in Rice

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Acta Biochimica et Biophysica Sinica 2004年第1期36卷 21-26页

作者： Hui SHEN and Zong-Yang WANG( The State Key Laboratory of plant Molecular Genetics, institute of plant {3. & ecology, shanghai institutes for Biological sciences,the chinese academy of sciences, shanghai 2.0032. china ) The State Key Laboratory of plant Molecular Genetics Institute of Plant Physiology & Ecology Shanghai Institutes for Biological Sciences the Chinese Academy of Sciences Shanghai 200032 China

OsEBP-89 gene encodes an ethylene responsive element binding protein (EREBP) transcription factor from rice (Oryza sativa). Northern blot analysis revealed that OsEBP-89 was expressed in root, stem, seeds, flowers and leaves. Histochemical assay showed that β-glucuronidase (GUS) was expressed mainly in phloem of vascular tissues of the root and stem transition region (RST), basal part of sheath roots, stem node and basal part of adventitious roots, also in endosperm of seeds in transgenic rice harboring OsEBP-89/GUS construct (pNSG). A sequence region from -2.9 to -97 was found to play an important role for OsEBP-89 gene expression through promoter deletion assay. The possible function of OsEBP-89 gene was discussed.

关键词： OsEBP-89 gene rice EREBP subfamily transcription factor tissue expression

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Change of proton motive force across thylakoid membrane in soybean leaf during state transitions

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chinese Science Bulletin 2003年第7期48卷 652-657页

作者： SU Jihu & SHEN Yungang shanghai institute of{2. {3., chinese academy of sciences, shanghai 2.0032. china 1. shanghai institute of{2. {3. Chinese Academy of Sciences Shanghai 200032 China

Change of proton gradient across thylakoid membrane in soybean leaves was studied with millisecond delayed light emission (ms-DLE) during the course of state transitions which were indicated by the chlorophyll fluores-cence at room temperature and 77 K. When dark-adapted leaves were induced to stateⅠ with far-red light, Fm/Fo, F685/F73. and the intensity of fast phase of ms-DLE were af-fected slightly. However, during the induction to stateⅡ with red light, both Fm/Fo and F685/F73. decreased immedi-ately and the former were quicker than the latter. In this interval, the intensity of fast phase of ms-DLE increased to a maximum and then decreased to a lower value during the transition to stateⅡ. Nigericin, an uncoupler which elimi-nates the proton gradient across thylakoid membrane, inhib-ited the increase in the intensity of fast phase of ms-DLE during the transition to stateⅡ. Another uncoupler, valino-mycin, which eliminates the membrane potential, did not affect the changes of the intensity of fast phase. These results suggest that the prompt increase in the intensity of fast phase of ms-DLE at the beginning of transitions to stateⅡ is cor-related mainly with the proton gradient released from water oxidation in photosystemⅡ.

关键词：大豆叶状态转换类囊体膜质子运动力量毫秒滞后光发射光合体系

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Continuous wavelet transform and discrete multi-resolution analysis of surface fluxes and atmospheric stability

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Progress in Natural Science:Materials International 2006年第4期16卷 403-409页

作者： JIANG Zhaoyang, YU Qiang, WANG Tianduo, SUN Xiaomin and ZHANG Renhua shanghai institute of{2. {3. and ecology, chinese academy of sciences, shanghai 2.0032. china institute of Geographic sciences and Natural Resources Research, chinese academy of sciences, Beijing 100101, china [a]shanghai institute of{2. {3. and ecology Chinese Academy of Sciences Shanghai China [b]institute of Geograhpic sciences and Natural Resources Research Chinese Academy of Sciences Beijing China

Variations of land surface fluxes of sensible heat (H), latent heat (LE), and CO2.F-CO2. obtained from the eddy-co-variance measurements above a winter wheat field from March 3. to April 2., 2.01 have been studied at scales ranging from 10 minutes to days. Wavelet transform is used in the analysis of land surface fluxes and atmospheric stability (ξ) calculated from the measurements to reveal the changes in land surface fluxes in hours to days scales. The main results are: (1) Concise and compact information about the fluxes, net radiation (Rn), temperature ( T) and ξ in the scale-time domain are extracted from the data by continuous wavelet analysis, and 1 day, 0.5 day and short-period (shorter than 0.5 day) components are revealed. Continuous wavelet coefficients can be used to characterize periodic components of changes in fluxes and ξ. (2. Discrete-time multi-resolution analysis can be used to concentrate total energy variance of time series of the measurements to a small number of coefficients, plotting the relative energy distribution to get several meaningful characteristics of the data. (3. Under neutral atmospheric conditions, the relative energy distributions of the Haar multi-resolution analysis of the three non-dimensional coefficients ( T/T* , q/q * and c/c * ) display clear similarities.

关键词： atmospheric stability flux continuous wavelet transform multi-resolution wavelet analysis.

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Ultrafast excitation relaxation in light-harvesting complex LH2.from *** 601

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Science china Chemistry 2004年第3期47卷 192-199页

作者： GUO Lijun1,2. LIU Yuan3. LIU Weimin2. GUO Junhua1, XU Chunhe3.& QIAN Shixiong2.1. School of Physics and Information Optoelectronics, Henan University, Kaifeng 475001, {2. 2. Physics Department, Fudan University, shanghai 2.043., {2. 3. shanghai institute of plant physiology, chinese academy of sciences,{12. 1. School of Physics and Information Optoelectronics Henan University 475001 Kaifeng China 2. Physics Department Fudan University 200433 Shanghai China 3. shanghai {2. of {2. {3. Chinese Academy of Sciences 200032 Shanghai China

The energy relaxation and kinetic evolution of transient spectra of bacteriochloro- phylls (BChls) in light-harvesting complex LH2.from Rb. sphaeroides 601 were investigated using femtosecond pump-probe technique. Upon 783.nm excitation, the energy at B800 BChls ex-periences an intramolecular redistribution with 0.3. ps time constant before transferring to B850 BChls. With tuning the excitation wavelength, the dynamical evolution of excited BChls was clearly observed, which indicates an obvious competition between the ground state bleaching and excited state absorption (ESA) of BChls involved and an isosbestic point near 818 nm, and also demonstrates that from the lower electronic excited state of B800 BChls to the higher exci-tonic state of B850 BChls is an efficient routine for energy transfer. The excitation energy in higher excitonic states of B850 BChls relaxes rapidly to the next lowest excitonic state by inter-conversion, delocalization to adjacent molecular, populating the lowest excitonic state and the change of molecular conformation.

关键词： photosynthesis, light-harvesting complex, energy transfer, ultrafast, dynamics, purple bacteria.

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Comparative analysis of temperature and CO2.fluxes for winter wheat in Tibetan Plain and North china Plain using the EMD method

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Progress in Natural Science:Materials International 2006年第10期16卷 1066-1071页

作者： JIANG Zhaoyang, YU Qiang, LEI Shuhe, WANG Tianduo, SUN Xiaomin and ZHANG Renhua ( chinese academy of Meteorological Science, Beijing 100081,{2. {3. of Geographic sciences and Natural Resources Research, chinese academy of sciences, Beijing 100101,{2. Mathematics Department, Ocean University of{2., Qingdao 2.6071,{2. shanghai {3. of plant {12. and {13., chinese academy of sciences, shanghai 2.0032. china) [a]chinese academy of Meteorological Science Beijing China [b]chinese academy of{2. Institute of Geographic sciences and Natural Resources Research Beijing China [c]Mathematics Department Ocean University of China Qingdao China [d]chinese academy of{2. Shanghai Institute of Plant Physiology and Ecology Shanghai China

Comparative study of spectral properties of temperature and CO2.fluxes measured by eddy covariance method at Yucheng (3.°57'N, 116°3.'E, 2. m a.s.l., in the North {2. Plain) and at Lhasa (2.°41'N, 91°2.'E, 3.88 m a.s. 1., on the Tibetan Plateau) is described using the empirical mode decomposition (EMD) method. The main results are: (1) The intrinsic oscillation modes or intrinsic mode functions (IMFs) were extracted from data of temperature ( T) and CO2.fluxes (F) measured at Yucheng ( T1 and F1) and Lhasa ( T2.and F2. . (2. Hilbert transform was applied to these IMF components, then the Hubert-Huang spectra and the marginal spectra of these data were obtained. (3. Comparison of temperature and CO2.fluxes in North {2. Plain and on Tibetan Plain illustrated that the characteristic frequencies corresponding to T1, F1, T2.and F2.are 0.05 Hz, 0.03.Hz, 0.014 Hz and 0.005 Hz, respectively.

关键词： empirical mode decomposition (EMD) intrinsic mode function (IMF) flux Hilbert transform wheat Tibet.

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Interaction of rice bZIP protein REB with the 5'-upstream region of both rice sbe1 gene and waxy gene

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chinese Science Bulletin 2002年第4期47卷 310-314页

作者： CAI Yi, XIE Donglu, WANG Zongyang & HONG MengminState Key Laboratory of plant Molecular Genetics, shanghai{2. of plant physiology and ecology, chinese academy of sciences, shanghai 2.0032. china State Key Laboratory of plant Molecular Genetics Shanghai Institute of Plant Physiology and Ecology Chinese Academy of Sciences Shanghai China

Rice starch branching enzyme 1 (SBE1) and granule-bound starch synthase (GBSS) catalyzed the bio-synthesis of amylopectin and amylose in rice developing en-dosperm respectively, and the genes encoding these two en-zymes, sbe1 and waxy, are mainly expressed in the en-dosperm. Within the 5 ’-upstream region of rice sbel gene, we identified a 53.bp fragment C53.which could interact with the nuclear proteins extracted from rice endosperm. We also found that fragment Ha-2.in the 5 ’-upstream region of rice waxy gene could compete with C53.for its interaction. Fur-ther experiments demonstrated that rice bZIP protein REB could interact with two ACGT elements (G-box and Hex) in the fragment C53.as well as three ACGT elements (WG1, WG2. and WG3. in the fragment Ha-2. The WG1 element could compete well with Hex element for its interaction with REB. These results suggested that the expression of sbel and waxy gene in rice developing endosperm may be coordinately regulated by REB-like bZIP transcriptional factors.

关键词： rice waxy gene sbel gene bZIP protein.

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Positive Charges on Lysine Residues of the Extrinsic 18 kDa Protein Are Important to Its Electrostatic Interaction with Spinach Photosystem Ⅱ Membranes

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Acta Biochimica et Biophysica Sinica 2005年第11期37卷 737-742页

作者： Jin-Peng GAO Zhen-Hua YONG Feng ZHANG Kang-Cheng RUAN Chun-He XU Gen-Yun CHEN institute of plant {2. & {3..shanghai institutes for Biological sciences,chinese academy of sciences,shanghai 2.0032.china Laboratory of Proteomics,institute of Biochemistry and Cell Biology,shanghai institutes for Biological sciences,chinese academy of sciences,shanghai 20003.,china College of sciences,Zhejiang University.Hangzhou 3.0029,china Graduate School of the chinese academy of sciences,shanghai 2.0032.china institute of plant{2. & {3. Shanghai Institutes for Biological Sciences Chinese Academy of SciencesShanghai 200032 China Graduate School of the chinese academy of sciencesshanghai{2. China College of sciences Zhejiang UniversityHangzhou 310029 China Laboratory of Proteomics Institute of Biochemistry and Cell Biology Shanghai Institutes for Biological Sciences Chinese Academy of SciencesShanghai 200031 China

To determine the contribution of charged amino acids to binding with the photosystem Ⅱcomplex(PSⅡ),the amino or carboxyl groups of the extrinsic 18 kDa protein were modified with N-succinimidyl propionate(NSP)or glycine methyl ester(GME)in the presence of a water-soluble carbodiimide,*** on isoelectric point shift,4-10 and 10-14 amino groups were modified in the presence of2.and 4 mM NSP,***,3.4 carboxyl groups were modified by reaction with *** of negatively charged carboxyl groups with GME did not alter the binding activity of theextrinsic 18 kDa ***,the NSP-modified 18 kDa protein,in which the positively charged aminogroups had been modified to uncharged methyl esters,failed to bind with the PSⅡ membrane in the presenceof the extrinsic 2.0}kDa *** defect can not be attributed to structural or conformational alterationsimposed by chemical modification,as the fluorescence and circular dichroism spectra among native,GME-and NSP-modified extrinsic 18 kDa proteins were ***,we have concluded that the positive chargesof lysyl residues in the extrinsic 18 kDa protein are important for its interaction with PSⅡ membranes in thepresence of the extrinsic 2.0}kDa ***,it was found that the negative charges of carboxylgroups of this protein did not participate in binding with the extrinsic 2.0}kDa protein associated with PSⅡmembranes.

关键词： extrinsic 18 kDa protein circular dichroism electrostatic interaction chemical modification

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Are small RNAs a big help to plants?

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Science china(Life sciences) 2009年第3期52卷 212-223页

作者： MAO YingBo,XUE XueYi & CHEN XiaoYa National Key Laboratory of plant Molecular Genetics,institute of plant {3. and ecology,shanghai institutes for Biological sciences,chinese academy of sciences,shanghai {12.{13. 1. National Key Laboratory of plant Molecular Genetics Institute of Plant Physiology and Ecology Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200032 China

The discovery of RNA interference(RNAi) has augmented our knowledge of gene regulation and presents a fascinating technology that has a great potential for application in genetic analysis,disease therapy,plant protection,and many other *** this review,we will focus on the biological functions of RNAi and its application in agriculture with a brief introduction to the history of its discovery and molecular mechanism.

关键词： RNA interference gene regulation plant protection

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