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Analysis of the 3' ends of tRNA as the cause of insertion sites of foreign DNA in Prochlorococcus

Journal of Zhejiang University-Science B(Biomedicine & Biotechnology) 2010年第9期11卷 708-718页

作者： Hai-lan LIU jun zhu Institute of Bioinformaties College of Agriculture and Biotechnology Zhejiang University Hangzhou 310029 China Institute of Maize Research College of Agriculture Sichuan Agricultural University Ya'an 625014 China

The purpose of this study was to investigate the characteristics of transfer RNA(tRNA) responsible for the association between tRNA genes and genes of apparently foreign origin(genomic islands) in five high-light adapted Prochlorococcus *** bidirectional best BLASTP(basic local alignment search tool for proteins) search and the conservation of gene order against each other were utilized to identify genomic islands,and 7 genomic islands were found to be immediately adjacent to tRNAs in Prochlorococcus marinus AS9601,11 in *** MIT9515,8 in *** MED4,6 in *** MIT9301,and 6 in *** *** Carlo simulation showed that tRNA genes are hotspots for the integration of genomic islands in Prochlorococcus *** tRNA genes associated with genomic islands showed the following characteristics:(1) the association was biased towards a specific subset of all iso-accepting tRNA genes;(2) the codon usages of genes within genomic islands appear to be unrelated to the codons recognized by associated tRNAs;and,(3) the majority of the 3' ends of associated tRNAs lack CCA *** findings contradict previous hypotheses concerning the molecular basis for the frequent use of tRNA as the insertion site for foreign genetic *** analysis of a genomic island associated with a tRNA-Asn gene in *** MIT9301 suggests that foreign genetic material is inserted into the host genomes by means of site-specific recombination,with the 3' end of the tRNA as the target,and during the process,a direct repeat of the 3' end sequence of a boundary tRNA(namely,a scar from the process of insertion) is formed elsewhere in the genomic *** the analysis of the sequences of these targets,it can be concluded that a region characterized by both high GC content and a palindromic structure is the preferred insertion site.

关键词： Genomic islands Prochlorococcus Transfer RNA(tRNA) Palindromic structure Codon usage

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Durability classification of red beds rocks in central Yunnan based on particle size distribution and slaking procedure

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Journal of Mountain Science 2019年第3期16卷 714-724页

作者： zhu jun-jie DENG Hui State Key Laboratory of Geohazard Prevention and Geoenvironment Protection Chengdu University of Technology

Moisture induced disintegration of soft rock in Red Beds is common all over the world. The slake durability index test is most useful to quantify durability of the soft rocks. Based on a series of slaking test, this article aims to develop a durability classification involving particle size and slaking procedure. To describe the slaking procedure in detail,the Relative Slake Durability Index(Id_i) is proposed. The Id_i is the percentage ratio of the i^(th) weight of oven-dry retained portion to the(i-1)^(th) weight of ovendry retained portion. Results show that the Id_i of samples have a large difference in certain slaking procedure, whereas the traditional Durability Slake Index(Id) is almost constant. Considering this limitation of Id in durability classification, an advanced classification by applying the Id_i and disintegration ratio(DR) is further established in this article. Compared to the durability classification based on Slake Durability Index(Id), the new classification accounts for the particle size of the slaked material and the slaking procedure, so it provides a better measure of the degree of slaking. The classification recommended in this article divide the slake durability into three classes(i.e., low, medium and high class). Furthermore, it divides both the low class and the medium class into 3 subclasses.

关键词： Slaking test Durability classification Relative durability index Durability index Disintegrate rate

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Effect of friction heat on tribological behavior of M2 steel against GCr15 steel in dry sliding systems

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Journal of University of Science and Technology Beijing 2007年第6期14卷 512-516页

作者： Ming Qiu Yongzhen Zhang jun zhu School of Mechatronic Engineering Henan University of Science and Technology Luoyang 471003 China Theory of Lubrication and Bearing Institute Xi＇an Jiaotong University Xi＇an 710049 China School of Material Science and Engineering Henan University of Science and Technology Luoyang 471003 China

The tribological behavior depends significantly on friction heat under high sliding velocity. Many factors influence the conduction rate of friction heat, such as thermophysical properties of the pairs, the formation components of interface-film, environment mediums, etc. Through theoretical and experimental studies on surface temperature, the heat partition approaches have been applied to the pairs of M2 steel against GCr 15 steel to compare and discuss their tribological behavior in dry sliding contact. The results indicate that the values of the contact pressure have little effect on the heat partition at a high sliding velocity of 40 m/s. Furthermore, the degree of correlation between the dynamic temperature and friction coefficient is obvious, and the correlation degree of parameters increases as the pressure grows. A close correlation exists among the temperatures measured from different points of the pin specimen. At last, X-ray diffraction analysis denotes that the carbides of secondary M6C are separated out during the process of friction.

关键词： heat partition contact temperature dry friction dynamic temperature

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Brief Communications:QTLNetworkR:an interactive R package for QTL visualization

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Journal of Zhejiang University-Science B(Biomedicine & Biotechnology) 2010年第7期11卷 512-515页

作者： Wen-jun ZHENG Jian YANG jun zhu Institute of Bioinformatics Zhejiang University Hangzhou 310029 China Queensland Institute of Medical Research Brisbane Queensland 4006 Australia

QTLNetworkR is an R package that aims to provide a user-friendly and platform-independent tool to visualize quantitative trait loci (QTL) mapping results. The graphical functions of the QTLNetworkR are based upon lattice and grid packages, and the graphical user interface (GUI) of the QTLNetworkR is built upon RGtk2 and gWidgetsRGtk2 packages. Six functions are designed to help visualize marker interval, putative QTL, QTL-by- environment interactions, marker interval interactions, epistasis, and the predicted genetic architecture of complex traits. It is especially helpful in profiling results for multiple traits at multiple environments. The current version of QTLNetworkR is able to accept QTL mapping results from QTLNetwork, and it is ready for possible extensions to import results from some other QTL mapping software packages. In addition, we presented a QTL mapping result in rice (Oryza sativa) as an example to describe the features of QTLNetworkR.

关键词： Visualization Quantitative trait loci (QTL) QTL mapping R package QTLNetworkR

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Surface quality of extruding metal special-shape products and frictional behavior in optimized die cavity

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中国有色金属学会会刊：英文版 2004年第Z1期14卷 468-471页

作者： QI Hong-yuan zhu Heng-jun School of Mechanical and Electric Control Engineering Beijing Jiaotong University Beijing 100044 China School of Mechanical and Electric Control Engineering Beijing Jiaotong University Beijing 100044 China

With the help of Complex Function Mapping theory, the complicated three-dimensional deformation problems are transferred into two-dimensional problems, and the function of strain ratio field is analyzed in the metal plastic extruding deformation. Taking the strain-hardening effect of metal deformation into account, the relationship between friction behavior and optimized mathematical model is analyzed by the numerical analysis friction energy dissipation function. As a result, the method of lowering the material hardening and decreasing the reduction ratio over multi-procedures can be used to improve the surface quality of metal special-shape extrusion products.

关键词： special-shape products extrusion surface quality Conformal Mapping

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Improved thermoelectric properties of zone-melted p-type bismuth-telluride-based alloys for power generation

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Rare Metals 2022年第5期41卷 1490-1495页

作者： Ren-Shuang Zhai Tie-jun zhu State Key Laboratory of Silicon Materials School of Materials Science and EngineeringZhejiang University.Hangzhou 310027China Thermoelectricity Technology Center Hangzhou Dahe Thermo-Magnetics Co.LtdHangzhou 310053China

Zone-melted bismuth-telluride-based alloys(ZM-BT) are extensively applied to manufacture commercial thermoelectric power generators(TEG). Optimizing the average figure of merit(zT) during 300–500 K of ZM-BT is favora... 详细信息

关键词： alloys bismuth power

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Runge-Kutta Discontinuous Galerkin Method Using WENO-Type Limiters:Three-Dimensional

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Communications in Computational Physics 2012年第3期11卷 985-1005页

作者： jun zhu Jianxian Qiu College of Science Nanjing University of Aeronautics and AstronauticsNanjingJiangsu 210016P.R.China School of Mathematical Sciences Xiamen UniversityXiamenFujian 361005P.R.China and Department of MathematicsNanjing UniversityNanjingJiangsu 210093P.R.China

This paper further considers weighted essentially non-oscillatory(WENO)and Hermite weighted essentially non-oscillatory(HWENO)finite volume methods as limiters for Runge-Kutta discontinuous Galerkin(RKDG)methods to solve problems involving nonlinear hyperbolic conservation *** application discussed here is the solution of 3-D problems on unstructured *** numerical tests again demonstrate this is a robust and high order limiting procedure,which simultaneously achieves high order accuracy and sharp non-oscillatory shock transitions.

关键词： Runge-Kutta discontinuous Galerkin method limiter WENO HWENO high order limiting procedure

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Finite Volume Hermite WENO Schemes for Solving the Hamilton-Jacobi Equation

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Communications in Computational Physics 2014年第4期15卷 959-980页

作者： jun zhu Jianxian Qiu College of Science Nanjing University of Aeronautics and AstronauticsNanjing 210016JiangsuChina School of Mathematical Sciences Xiamen UniversityXiamen 361005FujianChina.

In this paper,we present a new type of Hermite weighted essentially nonoscillatory(HWENO)schemes for solving the Hamilton-Jacobi equations on the finite volume *** cell averages of the function and its first one(in one dimension)or two(in two dimensions)derivative values are together evolved via time approaching and used in the *** the major advantages of the new HWENO schemes are their compactness in the spacial field,purely on the finite volume framework and only one set of small stencils is used for different type of the polynomial *** numerical tests are performed to illustrate the capability of the methodologies.

关键词： HWENO scheme finite volume Hamilton-Jacobi equation

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Statistical approaches in QTL mapping and molecular breeding for complex traits

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Chinese Science Bulletin 2012年第21期57卷 2637-2644页

作者： XU HaiMing zhu jun Institute of Bioinformatics College of Agriculture and BiotechnologyZhejiang UniversityHangzhou 310058China

Most of the important agronomic traits in crops,such as yield and quality,are complex traits affected by multiple genes with gene × gene interaction as well as gene × environment *** the genetic architecture of complex traits is a long-term task for quantitative geneticists and plant breeders who wish to design efficient breeding ***,the genetic properties of traits can be revealed by partitioning the total variation into variation components caused by specific genetic *** recent advances in molecular genotyping and high-throughput technology,the unraveling of the genetic architecture of complex traits by analyzing quantitative trait locus (QTL) has become *** improvement of complex traits has also been achieved by pyramiding individual *** this review,we describe some statistical methods for QTL mapping that can be used to analyze QTL × QTL interaction and QTL × environment interaction,and discuss their applications in crop breeding for complex traits.

关键词：基因定位农艺性状分子育种统计方法数量性状位点农作物育种相互作用遗传学家

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Trigonometric WENO Schemes for Hyperbolic Conservation Laws and Highly Oscillatory Problems

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Communications in Computational Physics 2010年第10期8卷 1242-1263页

作者： jun zhu Jianxian Qiu College of Science Nanjing University of Aeronautics and AstronauticsNanjingJiangsu 210016China Department of Mathematics Nanjing UniversityNanjingJiangsu 210093China

In this paper,we use trigonometric polynomial reconstruction,instead of algebraic polynomial reconstruction,as building blocks for the weighted essentially non-oscillatory(WENO)finite difference schemes to solve hyperbolic conservation laws and highly oscillatory *** goal is to obtain robust and high order accurate solutions in smooth regions,and sharp and non-oscillatory shock *** results are provided to illustrate the behavior of the proposed schemes.

关键词： TWENO scheme hyperbolic conservation laws highly oscillatory problem finite difference scheme

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