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Molecular identification of species in Prunus sect. Persica (Rosaceae), with emphasis on evaluation of candidate barcodes for plants

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Journal of Systematics and Evolution 2011年第2期49卷 138-145页

作者： 1,2.Xu QUAN 1 Shi-Liang ZHOU 1 (State Key Laboratory of Systematic and Evolutionary Botany, institute of Botany, Chinese academy of {2., beijing 100093, china) 2.(Graduate School of the Chinese academy of {2., beijing 100049, china) (State Key Laboratory of Systematic and Evolutionary Botany Institute of Botany Chinese Academy of Sciences Beijing 100093 China) (Graduate School of the Chinese academy of sciences Beijing 100049 China)

Species of Prunus L. sect. Persica are not only important fruit trees, but also popular ornamental and medicinal plants. Correct identification of seedlings, barks, or fruit kernels is sometimes required, but no reliable morphological characters are available. Nowadays, the technique of DNA barcoding has the potential to meet such requirements. In this study, we evaluated the suitability of 11 DNA loci (atpB-rbcL, trnH-psbA, trnL-F, trnS-G, atpF-H, rbcL, matK, rpoB, rpoC1, nad1, and internal transcribed spacer [ITS]) as candidate DNA barcodes for peaches, using samples from 38 populations, covering all the species in sect. Persica. On the whole, the primers worked well in this group and sequencing difficulties were met only in the case of ITS locus. Five loci (rbcL, matK, rpoB, rpoC, and nad1) have very low variation rates, whereas atpB-rbcL, atpF-H, trnH-psbA, trnL-F and trnS-G show more variability. The most variable loci, atpB-rbcL and trnH-psbA, can distinguish three of the five species. Two two-locus combinations, atpB-rbcL+trnL-F and atpB-rbcL+atpF-H, can resolve all five species. We also find that identification powers of the loci are method-dependent. The NeighborNet method shows higher species identification power than maximum parsimony, neighbor joining, and unweighted pair group method with arithmetic mean methods.

关键词： atpB-rbcL DNA barcode Prunus sect. Persica trnL-F.

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Modeling and verifying Web services driven by requirements:An ontology-based approach

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Science in china(Series F) 2006年第6期49卷 792-820页

作者： HOU Lishan1,3,JIN ZHi1,2.& WU Budan1,4 1. academy of Mathematics and Systems Science, Chinese academy of {2., beijing 100080, china 2. institute of Computing Technology, Chinese academy of {2., beijing 100080, china 3. institute of Software, Chinese academy of {2., beijing 100080, china 4. Graduate University of Chinese academy of {2., beijing 100049, china academy of Mathematics and Systems Science Chinese Academy of Sciences Beijing China institute of Software Chinese Academy of Sciences Beijing China institute of Computing Technology Chinese Academy of Sciences Bejing China Graduate University of Chinese academy of sciences Beijing China

Automatic discovery and composition of Web services is an important research area in Web service technology, in which the specification of Web services is a key issue. This paper presents a Web service capability description framework based on the environment ontology. This framework depicts Web services capability in two aspects： the operable environment and the environment changes resulting from behaviors of the Web service. On the basis of the framework, a requirement-driven Web service composition model has been constructed. This paper brings forward the formalization of Web service interactions with π calculus. And an automatic mechanism converting conceptual capability description to the formal process expression has been built. This kind of formal specification assists in verifying whether the composite Web service model matches the requirement.

关键词： Web service environment ontology automatic composition π calculus formal verification.

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Debris Flow Hazard Assessment Based on Support Vector Machine

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Wuhan University Journal of Natural sciences 2006年第4期11卷 897-900页

作者： YUAN Lifeng 1, 2., ZHANG Youshui 3 1. institute of Mountain Hazards and Environment, Chinese academy of {2., Chengdu 610041, Sichuan, china 2. Graduate University of Chinese academy of {2., beijing 100049, china 3. institute of Geographical {2. and Natural Resources Research, Chinese academy of {2., beijing 100101, china institute of Mountain Hazards and Environment Chinese Academy of Sciences Chengdu Sichuan China Graduate University of Chinese academy of sciences Beijing China institute of Geographical sciences and Natural Resources Research Chinese Academy of Sciences Beijing China

Seven factors, including the maximum volume of once flow , occurrence frequency of debris flow , watershed area , main channel length , watershed relative height difference , valley incision density and the length ratio of sediment supplement are chosen as evaluation factors of debris flow hazard degree. Using support vector machine （SVM） theory, we selected 2.9 basic data of 37 debris flow channels in Yunnan Province as learning samples in this study. We create a debris flow hazard assessment model based on SVM. The model was validated though instance applications and showed encouraging results.

关键词： debris flow hazard assessment support vector machine (SVM)

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Wind vector retrieval using dual polarization imagery of ASAR

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Progress in Natural Science:Materials International 2006年第11期16卷 1183-1187页

作者： SONG Guiting~ 1,2., HOU Yijun~1** and QI Peng~1(1. institute of Oceanology, Chinese academy of {2., Qingdao 2.6071, china 2. Graduate School, Chinese academy of {2., beijing 100039, china) institute of Oceanology Chinese Academy of Sciences Qingdao 266071 China Graduate School Chinese Academy of Sciences Beijing 100039 China

A new algorithm for retrieving wind vector using dual polarization imagery of advanced synthetic aperture radar (ASAR) is developed and tested. Based on the combination of co-polarization and cross-polarization, this new algorithm effectively eliminates the 180° ambiguity which occurs when using single imagery of the ASAR to retrieve wind vector. This algorithm also solves the problem that the retrieval results will break down on very small spatial scales. The results retrieved from dual polarization imagery of ASAR show that the wind speed and direction are in agreement with the data from Quikscat and buoy measurements. The root mean square errors of wind direction and speed between the retrieved results and data from Quikscat are 2.2.° and 0.53 m/s, respectively. Comparisons between the new method and the traditional method show that the new methods fit the buoy data and Quikscat data a little better than the traditional method in this image.

关键词： wind vector retrieval ASAR dual polarization.

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The age of the plant fossil assemblage in the Liuqu Conglomerate of southern Tibet and its tectonic significance

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Progress in Natural Science:Materials International 2006年第1期16卷 55-64页

作者： FANG Aimin1, YAN Zhen1, LIU Xiaohan2. PAN Yusheng1, LI Jiliang1, YU Liangjun1, HUANG Feixing2.and TAO Junrong3 (1.Laboratory of Lithosphere Tectonic Evolution, institute of Geology and Geophysics, Chinese academy of {2., beijing 10002., china 2. institute of Tibet Plateau Research, Chinese academy of {2., beijing 100085, china 3. institute of Botany, Chinese A cademy of {2., beijing 100093, china) Laboratory of Lithosphere Tectonic Evolution Institute of Geology and Geophysics Chinese Academy of Sciences Beijing 100029 China institute of Tibet Plateau Research Chinese Academy of Sciences Beijing 100085 China institute of Botany Chinese A-cademy of Sciences Beijing 100093 China

The Liuqu Conglomerate, situated to the south of Yarlung Tsangbo Suture Zone (YTSZ), is a suit of molasse formed in a foreland basin of the Himalayan orogenic belt after the collision between the two plates of the Indian and Eurasion, It is of great significance in constraining the younger limit time of the collision of the two plates and providing stratigraphic evidence to reveal the post-colli sional tectonic evolution and uplifting history of the Tibet plateau. However, the age of this molasse suit and its correlation to other synchronous strata distributed in southern Tibet have been in great disputes for a long time. Especially in recent years, argues on its ages are growing violently with the recognition of the great sedimentary tectonic significances of this molasse. During the field work carried out recently on this molasse suit, a lot of plant fossils were found preserved in fairly good conditions in the upper part of this strata, which is of great help in determining its age. By identification, the assemblage of the plant fossils belongs to a tropic to subtropic flora developed in the southern margin of the Northern Hemisphere supercontinent during the Middle to Later Eocene, which can provide good constraint on its formation age. This paper is to give a brief introduction of the plant assemblage and its age, and to discuss their tectonic significances.

关键词： Liuqu conglomerate plant fossils age Eocene Tectonic implications.

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Kinematics and dynamics of the Mesozoic orogeny and late-orogenic extensional collapse in the Sino-Mongolian border areas

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Science china Earth sciences 2005年第7期48卷 849-862页

作者： ZHENG Yadong 1 & WANG Tao2.1. Key Laboratory of Orogenic Belts and Crustal Evolution (Peking University), Ministry of Education, beijing 100871, china 2. {2. of Geology, Chinese academy of Geological sciences, beijing 100037, china Key Laboratory of Orogenic Belts and Crustal Evolution (Peking University) Ministry of Education Beijing 100871 China institute of Geology Chinese Academy of Geological Sciences Beijinq 100037 China

The Sino-Mongolian border areas underwent two important tectonic events during Mesozoic time after late Paleozoic orogeny: a late Triassic to earlier Jurassic contractional event that resulted in a large-scale south-vergent thrust during the orogeny and a late Jurassic-earlier Cretaceous extensional event in a north-south direction that formed a metamorphic core complex. The kinematic and dynamic analyses show that the thrust sheet moved southwards with a kinematic vorticity number of ca. -0.10 and sub-horizontal maximum compressive stress axis that belongs to a contraction-thickening shear. The upper plate of the late-orogenic detachment relatively moved in a 165°direction. The average kinematic vorticity in its earlier stage was 0.74 that belongs to simple shear dominated shearing and related to the maximum compressive stress axes dipping at ～66°, while the later average kinematic vorticity was ～0.55°that belongs to pure shear dominated shearing with sub-vertical maximum compressive stress axes. This suggests that the thrusting led to the crust thickened and the lower plate rocks that were originally located in the upper crust depressed through a brittle-ductile transition zone into the lower crust and became warmer. The heated rocks trended to uplift since their increasing volume and decreasing density while the loading of the upper-plate rocks increased due to the structural thickening. Under the combined effect of the loading and the thermal-uplifting, the ductile shear zone in between increased in its component of vertical pure shear. Once its pure-shear component exceeded its simple-shear one the ductile shear zone became an extension-thinned shear zone. This progressive transitional process reflects internal and essential temporal and spatial relationships: the extensional factor nucleated during the crust thickening by thrusting and increase of the extensional factor finally led to late-orogenic collapse.

关键词： Mesozoic thrusting,late-orogenic collapse,kinematic vorticity number,stress state.

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Calculating soil moisture by remote sensing and analyzing hydrologic cycle process in the Yellow River basin

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Science china(Technological sciences) 2004年第Z1期47卷 1-13页

作者： YANG Shengtian1 & LIU Changming1, 2.1. School of Environmental sciences, beijing Normal University, beijing 100875, china 2. institute of Geographic Science and Natural Resources Research, beijing 100101, china School of Environmental sciences Beijing Normal University Beijing China institute of Geographic Science and Natural Resources Research Beijing China

Based on the AVHRR pathfinder remote sensing data, soil moisture, precipitation and evaporation during the period of 1982.1998, soil moisture of all layers of soil-profile (0—1 m) in the Yellow River basin over the 17 years are calculated by the remote sensing model of calculating soil water. The Yellow River basin is divided into seven subcatchments as control sections at the location of six hydrologic stations (Lanzhou, Toudaoguai, Longmen, Sanmenxia, Huayuankou and Lijin). After calculating soil moisture and obtaining runoff data and precipitation data, the dynamical features of hydrological cycle in the Yellow River basin are analyzed for the period from 1982.to 1988 using water balance method. The conclusions are as follows: It is feasible to calculate the soil water on the macro-scale, in the soil profile with temporal continuity by means of remote sensing and survey in land. Some values of the key water cycle factors in the Yellow River are obtained, which include the annual precipitation of 4000 km3, the evapotranspiration of 3000-3500 km3, and the soil moisture transformation of ?500- 500 km3. Consequently, we analyzed the process of the water cycle in the Yellow River over the 17 years, and the results show that the segment upstream of Lanzhou city is a relatively humid region, and the area of internal waters and the reaches of Shanshan is the most desiccated region. Therefore, the runoff in the depth process is intensive and the runoff-generating process is weak in more arid regions.

关键词： the Yellow River, soil moisture, remote sensing, hydrologic cycle.

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Cloning and characterization of interferon stimulated genes Viperin and ISG15,and their promoters from snakehead Channa argus

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Progress in Natural Science:Materials International 2007年第12期17卷 1425-1435页

作者： Jia Weizhang1,2. Zhou Xiuxia1,2. Huang Rong1,2.and Guo Qionglin1(1. institute of Hydrobiololgy, Chinese academy of {2., Wuhan 430072. china 2. Graduate University of Chinese academy of {2., beijing 100039, china) institute of Hydrobiology Chinese Academy of Sciences Wuhan 430072 China Graduate University Chinese Academy of Sciences Beijing 100039 China

By suppression subtractive hybridization, rapid amplification of cDNA ends and gene walking methods, interferon stimulated genes (ISGs), Viperin and ISG15, and their promoters have been cloned and characterized from snakehead Channa argus. The Viperin cDNA was found to be 1474 nt and contain an open reading frame (ORF) of 1059 nt that translates into a putative peptide of 352.amino acid (aa). The putative peptide of Viperin shows high identity to that in teleosts and mammals except for the N-terminal 70 aa. The ISG15 cDNA was found to be 758 nt and contain an ORF of 468 nt that translates into a putative peptide of 155 aa. The putative peptide of ISG15 is composed of two tandem repeats of ubiquitin-like (UBL) domains, and a canonical conjugation motif (LRGG) at C-terminal. Viperin and ISG15 promoter regions were characterized by the presence of interferon stimulating response elements (ISRE) and γ-IFN activation sites (GAS). ISRE is a feature of IFN-induced gene promoter and partially overlaps interferon regulatory factor (IRF) 1 and IRF2.recognition sites. GAS is responsible for the γ-IFN mediated transcription. One conserved site for NF-κB was found in the promoter region of Viperin. This is the first report of conservative binding motif for NF-κB in accordance with the consensus sequence (GGGRNNYYCC) among teleost ISG promoters. Moreover, there were also TATA, CAAT and Sp1 transcription factor sites in Viperin and ISG15 promoters. In 5′ untranslated region (UTR), snakehead ISG15 gene contains a single intron, which differs from Viperin gene. The transcripts of Vipeirn and ISG15 mRNA were mainly expressed in head kidney, posterior kidney, spleen and gill. The expression levels in liver were found to increase obviously in response to induction by IFN-inducer poly I∶C.

关键词： interferon interferon stimulated gene (ISG) Viperin ISG15 snakehead (Channa argus).

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Interannual variability of Antarctic Oscillation and its influence on East Asian climate during boreal winter and spring

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Science china Earth sciences 2006年第5期49卷 554-560页

作者： FAN Ke1,2.3 & WANG Huijun2.1. Nansen-Zhu International Research Center, institute of Atmospheric Physics, Chinese academy of {2., beijing 10002., china 2. Department of Atmospheric Science, Yunnan University, Kunming 650091, china 3. Graduate University of the Chinese academy of {2., beijing 100049, china Nansen-Zhu International Research Center Institute of Atmospheric Physics Chinese Academy of Sciences Beijing China Department of Atmospheric Science Yunnan University Kunming China Graduate University of the Chinese academy of sciences Beijing China

The interannual variability of Antarctic Oscillation (AAO) and its influence on East Asian climate during both boreal winter and spring are addressed. The results show that the positive AAO anomaly decreases the cold activity over East Asia during both boreal winter and spring. AAO-related barotropic meridional teleconnection from Antarctic to Arctic is found through analysis of mean me- ridional circulations. This meridional teleconnection is remarkable over Eurasia during boreal winter and over the Pacific Ocean during boreal spring. The results also show that zonal mean zonal wind at high latitudes in Southern Hemisphere has well positive correlation with that of Eurasia during boreal winter and has negative correlation with Pacific North American teleconnection (PNA) during boreal spring, which again display the meridional teleconnection. Thus, local meridional teleconnection is a possible linkage for interaction of circulations at mid-high latitudes between both hemispheres.

关键词： Antarctic Oscillation, Eurasian west wind, meridional teleconnection, mean meridional circulation.

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A subsurface runoff parameterization with water storage and recharge based on the Boussinesq-Storage Equation for a Land Surface Model

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Science china Earth sciences 2006年第6期49卷 622-631页

作者： TIAN Xiangjun1,2. XIE Zhenghui1, ZHANG Shenglei1 & LIANG Miaoling1 1. LASG, institute of Atmospheric Physics, Chinese academy of {2., beijing 10002., china 2. Graduate School of the Chinese academy of {2., beijing 100039, china LASG Institute of Atmospheric Physics Chinese Academy of Sciences Beijing China Graduate School of the Chinese academy of sciences Beijing China

Subsurface runoff in a land surface model is usually parameterized as a single-valued function of total storage in a basin aquifer reservoir. This kind of parameterization is often sin-gle-valued function of storage-discharge under a steady or “quasi-steady” state, which cannot rep-resent the influence of aquifer recharge on subsurface runoff generation. In this paper, a new sub-surface runoff parameterization with water storage and recharge based on the Boussinesq-storage equation is developed. This model is validated by a subsurface flow separation algorithm for an ex-ample river basin, which shows that the new model can simulate the subsurface flow reasonably.

关键词： Zsubsurface runoff parameterization Boussinesq-storage equation waterstorage and recharge

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