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Efficient indica and japonica rice identification based on the InDel molecular method:Its implication in rice breeding and evolutionary research

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Progress in Natural Science:Materials International 2009年第10期19卷 1241-1252页

作者： Bao-Rong Lu,Xingxing Cai,Xin Jin ministry of education {2. {2. for Biodiversity Science and Ecological Engineering,Institute of Biodiversity Science,Fudan University,shanghai 2.0433,china [a]ministry of education {2. {2. for Biodiversity Science and Ecological Engineering Institute of Biodiversity Science Fudan University Shanghai 200433 China

An efficient molecular method for the accurate and efficient identification of indica and japonica rice was created based on the poly-morphisms of insertion/deletion(InDel) DNA fragments obtained from the basic local alignment search tool(BLAST) to the entire genomic sequences of indica(93-11) and japonica rice(Nipponbare).The 45 InDel loci were validated experimentally by the polymerase chain reaction(PCR) and polyacrylamide gel electrophoresis(PAGE) in 44 typical indica and japonica rice varieties,including 93-11 and Nipponbare.A neutrality test of the data matrix generated from electrophoretic banding patterns of various InDel loci indicated that 34 InDel loci were strongly associated with the differentiation of indica and japonica *** extensive analyses involving cultivated rice varieties from 11 Asian countries,and 12.wild Oryza species with various origins confirmed that indica and japonica characteristics could accurately be determined via calculating the average frequency of indica-or japonica-specific alleles on different InDel loci across the rice *** method was named as the ’’InDel molecular index" that combines molecular and statistical methods in determining the indica and japonica characteristics of rice *** with the traditional methods based essentially on morphology,the InDel molecular index provides a very accurate,rapid,simple,and efficient method for identifying indica and japonica *** addition,the InDel index can be used to determine indica or japonica characteristics of wild Oryza species,which largely extends the utility of this *** InDel molecular index provides a new tool for the effective selection of appropriate indica or japonica rice germplasm in rice *** also offers a novel model for the study of the origin,evolution,and genetic differentiation of indica and japonica rice adapted to various environmental changes.

关键词： Cultivated rice Wild Oryza InDel molecular marker indica-japonica identification Neutrality test

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Dynamic Monte Carlo simulation of chain growth polymerization and its concentration effect

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Science china Chemistry 2005年第5期48卷 459-465页

作者： Lü Wenqi & DING Jiandong key laboratory of {2. Engineering of Polymers, Department of Macro{2. Science, Fudan University, shanghai 2.0433, china 1. key laboratory of {2. Engineering of Polymers Department of Macromolecular Science Fudan University 200433 Shanghai China

Free radical polymerization and living ion polymerization have been simulated via the dynamic Monte Carlo method with the bond-fluctuation model in this paper. The polymeriza-tion-related parameters such as conversion of monomers, degree of polymerization, average molecular weight and its distribution are obtained by statistics. The simulation outputs are con-sistent with the corresponding theoretical predictions. The scaling relationships of the coil size versus chain length are also confirmed at different volume fractions. Furthermore, the effect of diffusion on polymerization is revealed preliminarily in our simulation. Hence the simulation ap-proach has been proven to be feasible to investigate polymerization reactions with the advan-tages that configuration and diffusion of polymer chains can be examined together with polym-erization kinetics.

关键词： living ion polymerization free radical polymerization concentration effect configuration Monte Carlo simulation.

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β-Adrenoceptors potentiate α1-adrenoceptor-mediated inotropic response in rat left atria

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Acta Pharmacologica Sinica 2004年第1期 31-36页

作者： Yong-zhen ZHANG, You-yi ZHANG, Ming-zhe CHEN, Qi-de HANInstitute of Vascular medicine. Peking University Third Hospital key {2. of {2. of education for molecular Cardiovasology, Beijing 100083, china

AIM: To investigate whether stimulation of β-adrenoceptor (AR) and its subtypes augment α1-AR-evoked positive inotropic response and inositol phosphate (InsP) accumulation in isolated rat left atria. METHODS: Inotropic response was determined by contractile function experiment in isolated electrically driven rat left atria. 3H-InsP accumulations were measured by 3H-inositol incorporation and column chromatography. RESULTS: (1)

关键词： alpha-1 adrenergic receptors beta adrenergic receptors heart atrium cardiac inotropism inositol phosphates adrenergic receptor antagonists adrenergic agonists

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Genomic research for important pathogenic bacteria in china

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Science china(Life Sciences) 2009年第1期52卷 50-63页

作者： YANG RuiFu1,GUO XiaoKui2.YANG Jian3,JIANG YongQiang1,PANG Bo4,CHEN Chen5,YAO YuFeng2.QIN JinHong2.& LI QingTian2.1 laboratory of Analytical Microbiology,State key laboratory of Pathogen and Biosecurity,Beijing Institute of Microbiology and Epidemiology,Beijing 100071,{2. 2.Department of Medical Microbiology and Parasitology,Institutes of Medical Sciences,shanghai Jiao Tong University School of medicine.shanghai 2.002.,{2. 3 State key laboratory for molecular Virology and Genetic engineering,Institute of Pathogen Biology,Chinese Academy of Medical Sciences,Beijing 100176,{2. 4 State key laboratory for Infectious Disease Prevention and Control,Institute for Communicable Disease Control and Prevention,Chinese Center for Disease Control and Prevention,Beijing 102.06,{2. 5 Beijing Genomics Institute at Shenzhen,Shenzhen 518083,{2. 1. laboratory of Analytical Microbiology State Key Laboratory of Pathogen and Biosecurity Beijing Institute of Microbiology and Epidemiology Beijing 100071 China 2. Department of Medical Microbiology and Parasitology Institutes of Medical Sciences Shanghai Jiao Tong University School of Medicine Shanghai 200025 China 3. State key laboratory for {2. Virology and Genetic engineering Institute of Pathogen Biology Chinese Academy of Medical Sciences Beijing 100176 China 4. State key laboratory for Infectious Disease Prevention and Control Institute for Communicable Disease Control and Prevention Chinese Center for Disease Control and Prevention Beijing 102206 China 5. Beijing Genomics Institute at Shenzhen Shenzhen 518083 China

Rapid accumulation of bacterial genomic data offered an unprecedented opportunity to understand bacterial biology from a holistic view of *** can thus closely look at the way in which a pathogen is evolved,and these data has been applied to molecular epidemiology and microbial forensics,and screening of novel diagnostic,vaccine and drug *** newly developed high-throughput low-cost sequencing technologies,such as 454,Solexa and SOLiD,will promote the acquisition and application of genomic data in new research areas that we dared not imagine previously,such as the metagenomics of human gastric-intestinal tract,for better and comprehensive understanding of human health and disease.

关键词： genome pathogenic bacteria sequencing application

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Induced pluripotent stem cell-related genes influence biological behavior and 5-fluorouracil sensitivity of colorectal cancer cells

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Journal of Zhejiang University-Science B(Biomedicine.& Biotechnology) 2012年第1期13卷 11-19页

作者： Zhong SHI1,Rui BAI1,Zhi-xuan FU1,Yong-liang ZHU2.Rong-fu WANG3,Shu ZHENG1(1Cancer Institute(key laboratory of Cancer Prevention and Intervention,{2. National {2. of education,key laboratory of molecular Biology in Medical Sciences,Zhejiang Province,{2.),the Second Affiliated Hospital,School of medicine.Zhejiang University,Hangzhou 310009,{2.)(2.epartment of Gastroenterology,the Second Affiliated Hospital,School of medicine.Zhejiang University,Hangzhou 310009,{2.)(3Center for Cell and Gene Therapy,Department of Pathology and Immunology,Baylor College of medicine.Houston,Texas 77030,USA) Cancer Institute Key Laboratory of Cancer Prevention and Intervention China National Ministry of Education Zhejiang Province China.

Objective:We aimed to perform a preliminary study of the association between induced pluripotent stem cell(iPS)-related genes and biological behavior of human colorectal cancer(CRC) cells,and the potential for developing anti-cancer drugs targeting these ***:We used real-time reverse transcriptase polymerase chain reaction(RT-PCR) to evaluate the transcript levels of iPS-related genes NANOG,OCT4,SOX2.C-MYC and KLF4 in CRC cell lines and cancer stem cells(CSCs)-enriched tumor *** was knockdowned in CRC cell line SW62. by lentiviral transduction.3-(4,5-Dimethylthiazol-2.yl)-2.5-diphenyltetrazolium bromide(MTT) assays,plate colony formation,and a mouse xenograft model were used to evaluate alterations in biological behavior in NANOG-knockdown SW62. ***,mock-knockdown and NANOG-knockdown cells were treated with 5-fluorouracil(5-FU) and survival rate was measured by MTT assay to evaluate drug ***:A significant difference in the transcript levels of iPS-related genes between tumor spheres and their parental bulky cells was *** knockdown suppressed proliferation,colony formation,and in vivo tumorigenicity but increased the sensitivity to 5-FU of SW62. cells.5-FU treatment greatly inhibited the expression of the major stemness-associated genes NANOG,OCT4,and ***:These results collectively suggest an overlap between iPS-related genes and CSCs in *** a certain gene NANOG may truncate the aggressiveness of CRC cells.

关键词： Induced pluripotent stem cell Cancer stem cell Colorectal cancer NANOG 5-Fluorouracil

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Current progress and prospects of induced pluripotent stem cells

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Science china(Life Sciences) 2009年第7期52卷 622-636页

作者： CHEN LingYi & Liu Lin key laboratory of Bioactive Materials of {2. of {2.,College of Life Sciences,Nankai University,Tianjin 300071,china key laboratory of Bioactive Materials of {2. of {2. College of Life Sciences Nankai University Tianjin 300071 China

Induced pluripotent stem(iPS) cells are derived from somatic cells by ectopic expression of few transcription *** embryonic stem(ES) cells,iPS cells are able to self-renew indefinitely and to differentiate into all types of cells in the *** cells hold great promise for regenerative medicine.because iPS cells circumvent not only immunological rejection but also ethical *** the first report on the derivation of iPS cells in 2.06,many laboratories all over the world started research on iPS cells and have made significant *** paper reviews recent progress in iPS cell research,including the methods to generate iPS cells,the molecular mechanism of reprogramming in the formation of iPS cells,and the potential applications of iPS cells in cell replacement *** problems that need to be addressed and the prospects for iPS research are also discussed.

关键词： induced pluripotent stem(iPS) cells somatic cell reprogramming pluripotency

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Opportunity and challenge of target-based therapy for leukemia:lessons from APL and CML

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中国病理生理杂志 2010年第A10期26卷 1946-1947页

作者： CHEN Guo-qiang(Department of Pathophysiology,key laboratory of Cell Differentiation and Apoptosis of Chinese {2. of {2. & Chemical Biology Division of shanghai Universities E-Institutes,shanghai Jiaotong University School of medicine.shanghai 2.002.,china)

In the past two decades,target-based therapies achieve the great success in adult *** typical examples are the applications of all-trans retinoic acid(ATRA)/arsenic trioxide(ATO)and specific tyrosine kinase inhibitor imatinib respectively in acute promyelocytic leukemia(APL)and chronic myeloid leukemia(CML).These successful clinical practices originated from our understanding on

关键词： trioxide myeloid ATRA arsenic originated challenge granulocyte alterations targeting lymphoid

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Two-photon spectroscopic behaviors and photodynamic effect on the BEL-7402.cancer cells of the new chlorophyll photosensitizer

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Science china Chemistry 2008年第6期51卷 529-538页

作者： ZHAO PeiDe1,2.CHEN Ping1,TANG GuoQing1,LIU JinWei2.LIN Lie1,GUO Peng1,YU Qing2. YAO JianZhong3,MA DongMing4,ZHANG GuiLan1 & CHEN WenJu1 1 key laboratory of Optoelectronic Information Science and Technology,{2. of {2.,Institute of Modern Optics,Nankai University,Tianjin 300071,china 2.Department of Physics,Hebei University of Technology,Tianjin 300130,china 3 College of Pharmacy,Second Military Medical University,shanghai 2.0433,china 4 Tianjin College of the Traditional Chinese medicine.Tianjin 300193,china 1. key laboratory of Optoelectronic Information Science and Technology Ministry of Education Institute of Modern Optics Nankai University Tianjin 300071 China 2. Department of Physics Hebei University of Technology Tianjin 300130 China 3. College of Pharmacy Second Military Medical University Shanghai 200433 China 4. Tianjin College of the Traditional Chinese medicine Tianjin 300193 China

The spectroscopic properties of a new chlorophyll derivate photosensitizer (CDP) are studied under the excitation wavelengths at 800 and 400 nm using femtosecond pulses from a Ti: sapphire laser. The damaging effect of CDP on the BEL-7402.cancer cells is also investigated upon two-photon illumination at 800 nm. The normalized fluorescence spectra of CDP in tetrahydrofuran (THF) show that two-photon and one-photon spectra have the same distributions and the same emission bands (675 nm). The lifetimes of two- and one-photon induced fluorescence of this molecule are of the order of 5.0 ns. By comparing the data it is shown that there is some difference between the two lifetimes, but the difference is less than one nanosecond. The two-photon absorption cross section of the molecule is also measured at 800 nm and estimated as about σ'_2.≈ 31.5x10^(-50)cm^4·s·photon^(-1). The results of two-photon photodynamic therapy (TPPDT) tests show that CDP can kill all of the tested cancer cells according to the usual Eosine assessment. Our results indicate that the two-photon-induced photophysical, photochemical and photosensitizing processes of CDP may be basically similar to those of one-photon excitation. These behaviors of the sample suggest that one may find other possible methods to estimate some photosensitizers' effects in details such as their distribution in cells and the reactive targets of the sub-cellular parts of some tumor cells via two-photon excitation techniques.

关键词： photosensitizer chlorophyll derivate two-photon fluorescence two-photon absorption cross-section TPPDT BEL-7402 cell

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Effects of Huangqi (Hex) on Inducing Cell Differentiation and Cell Death in K562.and HEL Cells

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Acta Biochimica et Biophysica Sinica 2004年第3期36卷 211-217页

作者： Xiao-Dong CHENG1, Chun-Hui HOU1, Xue-Jun ZHANG2. Heng-Yue XIE1, Wei-Ying ZHOU1, Lei YANG2. Shu-Bing ZHANG1, and Ruo-Lan QIAN1 State key laboratory of {2. Biology, Institute of Biochemistry and Cell Biology, {2. Institutes for Biological Sciences, the Chinese Academy of Sciences, 32. Yueyang Road, {2. 2.0031, china laboratory of {2. Cell Biology, Institute of Biochemistry and Cell Biology, {2. Institutes for Biological Sciences, the Chinese Academy of Sciences,32. Yueyang Road {2. 2.0031,china the Chinese Academy of Sciences, 32. Yueyang Road, {2. 2.0031, china State key laboratory of {2. Biology Institute of Biochemistry and Cell Biology Shanghai Institutes for Biological Sciences the Chinese Academy of Sciences 320 Yueyang Road Shanghai 200031 China laboratory of molecular Cell Biology Institute of Biochemistry and Cell Biology Shanghai Institutes for Biological Sciences the Chinese Academy of Sciences 320 Yueyang Road Shanghai 200031 China

Huangqi (Astragalus membranaceus), a traditional Chinese medicine. has been used to ameliorate side effects of cancer chemotherapy in china. However, little is known about its {2. mechanisms. Here we show that induction of K562.or HEL cells with 1.5 mg/ml of Huangqi (Hex) (Components extracted from Huangqi) for 3–5 d results in the expression of β-globin gene in both cell lines and leads to terminal differentiation. Moreover, the apoptosis in HEL cells can be induced by increasing concentration of Huangqi (Hex) to 4.5 mg/ml for 3–5 d. Upregulation of Apaf-1, caspase-3 and acetylcholinesterase (AChE) in HEL cells may play a crucial role in the process of apoptosis. The prospect of inducing expression of adult (β) globin gene and apoptosis selectively in cancer cells is obviously attractive from a therapeutic point of view.

关键词： cell death and differentiation Huangqi (Hex) human erythroleukemia cell lines

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Identification and Characterization of a Rat Novel Gene RSEP4 Expressed Specifically in Central Nervous System

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Acta Biochimica et Biophysica Sinica 2004年第7期36卷 501-507页

作者： Xi-Dao WANG1,2. Ling-Wei KONG1, Zhi-Qin XIE1, Yu-Qiu ZHANG3, Zhi-Xin LIN2. Zhi-Qi ZHAO3,Lei YU4, and Nai-He JING1* 1 laboratory of molecular Cell Biology, laboratory of Stem Cell Biology, Institute of Biochemistry and Cell Biology, shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Graduate School of the Chinese Academy of Sciences, shanghai 2.0031, china School of Life Science and Biotechnology, 2. shanghai Jiaotong University, shanghai 2.0030, china Institute of Neurobiology, Fudan University, shanghai 2.0433, china 3 4 Department of Cell Biology, Neurobiology and Anatomy, College of medicine. University of Cincinnati, Cincinnati, Ohio, USA laboratory of molecular Cell Biology and Stem Cell Biology Institute of Biochemistry and Cell Biology Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Graduate School of the Chinese Academy of Sciences Shanghai China

The low-abundantly expressed genes composed the majorities of the mRNAs expressed in the central nervous system (CNS), and were thought to be important for the normal brain functions. Through differential screening a low-abundance cDNA sublibrary with mRNA from neuropathic pain of chronic constriction injury (CCI) model, we have identified a novel rat gene, rat spinal-cord expression protein 4 gene (RSEP4). The total length of RSEP4 cDNA is 2.06 bp, with a 501 nucleotide open reading frame (ORF) that encodes a 167 amino acid polypeptide. Northern blot revealed that RSEP4 was expressed specifically in the CNS. In situ hybridization showed that the mRNA of RSEP4 was strongly expressed in the CA1, CA2. CA3 and DG regions of hippocampus, the Purkinje cells of cerebellum, and the small sensory neurons of dorsal horn and large motor neurons of ventral horn of spinal cord. Over-expression of RSEP4-EGFP fusion protein in the human embryonic kidney 2.3T cells showed that RSEP4 protein was mainly localized in the cell cytoplasm. These results suggest that RSEP4 may play some roles in the CNS.

关键词： central nervous system (CNS) rat Northern blot in situ hybridization

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