Mobility Analysis of Altmann Overconstrained Linkages by Modified Grübler-Kutzbach Criterion

Developing a general mobility method/formula is a hot topic lasting for more than 150 years in kinematics. It is necessary to apply any mobility method to puzzling overconstrained mechanisms for verification of its generality. Altmann linkages are such recognized puzzling mechanisms that their mobility analysis is of important significance. A necessary condition for judging a general mobility method is that the method can be fit for Altmann linkages. Firstly, this study classes Altmann linkages into 17 types in terms of the numbers and types of kinematic pairs, and then Altmann overconstrained linkages are further classified into 4 types. Secondly, the mobility of Altmann overconstrained linkages is systematically analyzed by the Modified Grübler-Kutzbach criterion based on screw theory, where passive freedoms are defined as limb passive freedoms and mechanism passive freedoms. In addition, the full-cycle mobility is judged, which overcomes the shortcoming of instantaneous property of screw theory. It is shown that Modified Grübler-Kutzbach criterion not only obtains the correct numerical mobility, but also gives the mobility character by resolving reciprocal screws for the constraint system. This study lays the foundation of verification for the generality of Modified Grübler-Kutzbach criterion. Besides, Altmann overconstrained linkages almost comprise all kinds of modern parallel mechanisms and some classical mechanisms, which provides an important reference for mechanism mobility calculation.

An approach to incorporate linkage disequilibrium structure into genomic association analysis

In this study, we propose to use the principal component analysis （PCA） and regression model to incorporate linkage disequilibrium （LD） in genomic association data analysis. To accommodate LD in genomic data and reduce multiple testing, we suggest performing PCA and extracting the PCA score to capture the variation of genomic data, after which regression analysis is used to assess the association of the disease with the principal component score. An empirical analysis result shows that both genotype-based correlation matrix and haplotype-based LD matrix can produce similar results for PCA. Principal component score seems to be more powerful in detecting genetic association because the principal component score is quantitatively measured and may be able to capture the effect of multiple loci.

PROBABILISTIC ANALYSIS AND MONTE CARLO SIMULATION OF THE KINEMATIC ERROR IN A SPATIAL LINKAGE

The stochastic models of the usual joints are first established through intro-ducing the concepts of“clearance characteristic element”and“clearance space”.After de-riving the probability density function of the joint clearance and making the probabilisticanalysis of the resulted kinematic errors,the sampling formulas of the independent varia-bles of the joint clearances are further deduced.Through Monte Carlo simulation,the sta-tistical characteristics and frequency histograms of the kinematic errors are then analysedon computer.

Genetic dissection of the grain-filling rate and related traits through linkage analysis and genome-wide association study in bread wheat

Wheat grain yield is generally sink-limited during grain filling.The grain-filling rate(GFR)plays a vital role but is poorly studied due to the difficulty of phenotype surveys.This study explored the grain-filling traits in a recombinant inbred population and wheat collection using two highly saturated genetic maps for linkage analysis and genome-wide association study(GWAS).Seventeen stable additive quantitative trait loci(QTLs)were identified on chromosomes 1B,4B,and 5A.The linkage interval between IWB19555 and IWB56078 showed pleiotropic effects on GFR_(1),GFR_(max),kernel length(KL),kernel width(KW),kernel thickness(KT),and thousand kernel weight(TKW),with the phenotypic variation explained(PVE)ranging from 13.38%(KW)to 33.69%(TKW).198 significant marker-trait associations(MTAs)were distributed across most chromosomes except for 3D and 4D.The major associated sites for GFR included IWB44469(11.27%),IWB8156(12.56%)and IWB24812(14.46%).Linkage analysis suggested that IWB35850,identified through GWAS,was located in approximately the same region as QGFR_(max)2B.3-11,where two high-confidence candidate genes were present.Two important grain weight(GW)-related QTLs colocalized with grain-filling QTLs.The findings contribute to understanding the genetic architecture of the GFR and provide a basic approach to predict candidate genes for grain yield trait QTLs.

A Study of Dynamic Analysis Method for the Rigid-Flexible Coupled Bar Linkage System

In order to present a dynamic analysis method for the rigid-flexible coupled bar linkage system(RFCBLS),the flexible element motion equation was gotten by Lagrange Equation and the rigid element motion equation was gotten based on rigid constraint conditions.The multi-body system(MBS) is a complex mechanism and its components have quite different rigidities.If it is considered as a rigid MBS(RMBS) to do its dynamic analysis,elastic deformation's ignorance will lead to inaccurate analysis.If it is considered as a flexible MBS(FMBS) to establish,analyze,and solve the model,quite large system equations make it difficult to solve.The better method is as follows:the complex mechanism system is regarded as a rigid-flexible coupled system(RFCS) to make dynamic characteristic of rigid components be equivalent,system equation is established by FMBS' way,and system equation dimensions are reduced by transition matrices' introduction.A dynamic analysis method for rigid element and flexible element coupling was presented based on the FMBS.The analyzed crank slide-block mechanism results show that the dynamic analysis method for RFCBLS is quick and convenient.

FURTHER RESEARCH ON THE SPLINE MODEL METHOD OF KED ANALYSIS IN A PLANAR FLEXIBLE LINKAGE

This paper relates to the deep research on the Splinc Model Method of KED analysis. With the use of cubic B-splinc function as a link’s transverse deflection interpolation function, the principle of virtual displacement is presented as a basic theory for the general formulation of the equations of motion, and thus abandoned the kinematic assumption and the instantaneous structure assumption which arc used in the Spline Model Method. In thc same time, the nonlinear terms sue as coupling terms between thc rigid body motion and elastic deformation arc included. New member’s spline models are established. Mass matrix, Coriolis mass matrix, normal and tangential mass matrix, linear stiffness matrix, nonlinear stiffness matrix and rotation matrix arc derived. The kinematic differential equations of a member and system are deduced in the end. The Newmark direct integration method is used as the solution scheme of the kinematic differential equations to get the periodic response.

Genetic Linkage Analysis of the Natural Colored Fiber and Fuzzless Traits in Cotton

Genetic linkage relationship of the natural colored fiber and six fuzzless seed germplasms in obsolete backgrounds of Gossypium hirsutum(AD genome) and G.barbadense were analyzed in the

Genetic Linkage Map and Comparative Genome Analysis for the Atlantic Killifish (Fundulus heteroclitus)

Genetic linkage maps are valuable tools in evolutionary biology;however, their availability for wild populations is extremely limited. Fundulus heteroclitus (Atlantic killifish) is a non-migratory estuarine fish that exhibits high allelic and phenotypic diversity partitioned among subpopulations that reside in disparate environmental conditions. An ideal candidate model organism for studying gene-environment interactions, the molecular toolbox for F. heteroclitus is limited. We identified hundreds of novel microsatellites which, when combined with existing microsatellites and single nucleotide polymorphisms (SNPs), were used to construct the first genetic linkage map for this species. By integrating independent linkage maps from three genetic crosses, we developed a consensus map containing 24 linkage groups, consistent with the number of chromosomes reported for this species. These linkage groups span 2300 centimorgans (cM) of recombinant genomic space, intermediate in size relative to the current linkage maps for the teleosts, medaka and zebrafish. Comparisons between fish genomes support a high degree of synteny between the consensus F. heteroclitus linkage map and the medaka and (to a lesser extent) zebrafish physical genome assemblies.

An Analysis-of-Variance (ANOVA) Approach for Sib-pair Linkage Analysis of Complex Ordinal Human Diseases

Sib-pair linkage analysis of complex human diseases has become a method of choice in modern human genetic studies, especially for the diseases with a late age at onset. The traditional parametric methods for sib pair data need to take the categorical nature of a disease phenotype into account and to explicitly model the non-linear relationship between the discrete phenotype and genetic determinants, or to force their relationship to be linear. The first approach is desirable theoretically, but explicitly modeling the sophisticated genetic architecture of a complex disease can be prohibitively complex and computational demand is high. The second approach, typically a linear regression, relies on a large sample theory and is not appropriate. In this paper, we propose to apply Analysis of Variance (ANOVA) to sib pair linkage analysis of complex human diseases. This approach has avoided building the complicated relationship between the phenotype (the affection group or status of a sib pair) and the underlying genetic determinant (identical-by-decent (IBD) values etc). We have explored its statistical efficiency and properties in sibpair linkage analysis of ordinal complex human diseases via simulation. The simulation suggests that it is a powerful approach for locating genes that presumably control phenotypic expression of complex human diseases.

Performance Analysis of a Six-bar Linkage Pumping Unit Based on a Small Fluctuations Load Shape

Crank shaft net torque of pumping units is a volatile alternating load, while output torque of a general motor is basically constant. Thus, load characteristics of pumping units and motors are not able to ＂harmoniously＂ match each other; this resulted in a higher output of the motor, lower efficiency, and higher energy consumption of the pumping units. A new six-bar linkage pumping unit is presented according to moment-changing theory. It allows to adjust automatically following the changes of polished rod load, and achieves small crank shaft curve fluctuation. The new pumping unit improves motor efficiency, reduces motor output power, and saves energy. According to the design scheme, kinematics and kinetics models of the new six-bar linkages pumping unit are built up. An optimum design on the main peoCormance parameters and functional analysis were peoCormed.

Mapping of putative sucking inhibitory gene to whitebacked planthopper by linkage analysis with CAPS markers

Resistance to whitebacked planthopper(WBPH)in Chinese japonica riceChunjiang 06(CJ-06)was mediated by sucking inhibitory and ovicidal mecha-nism.The ovicidal reponse was a common self-defense mechanism againstWBPH in japonica.The ovicidal gene and its chromosomal position had alreadybeen identified.The sucking inhibitory nature of CJ-06 caused a definenon-preference behavior of WBPH in fields.A single dominant gene governed

KINEMATICS ANALYSIS OF GUIDED CHAIN DRIVE MECHANISM WITH LINKAGES

A method of analyzing the motion of guided chain drive mechanism with linkages is presented. The method studies the output motion of a point on connecting rod including motion track, velocity and acceleration.

Evolution of economic linkage network of the cities and counties on the northern slope of the Tianshan Mountains,China

The exchanges between cities and counties in the northern slope economic belt of Tianshan Mountains(NSEBTM)are increasingly frequent and the economic linkages are increasingly close,but the spatial distribution of economic development and linkages among the cities and counties within NSEBTM is uneven.Therefore,it is of great significance to study the evolution of spatial-temporal pattern of the economic linkage network of cities and counties on NSEBTM to promote the coordinated and integrated development of the regional economy on NSEBTM.In this study,we used the modified gravity model and social network analysis method to analyze the spatio-temporal evolution characteristics of the economic linkage network structure of cities and counties on NSEBTM in 2000,2010,and 2020.The results showed that the comprehensive development quality level of cities and counties on NSEBTM increased from 2000 to 2020,its growth rate also increased,and its gap between cities and counties continued expanding.Both the spatial distribution patterns of the comprehensive development quality level of cities and counties on NSEBTM in 2000 and 2010 were presented as“high in the middle and low at both ends”,while the spatial distribution pattern of 2020 was exhibited as“high value and low value staggered”.The total amount of external economic linkages of cities and counties on NSEBTM showed an obvious upward trend,and its gap between cities and counties continued expanding,presenting a pattern of“a strong middle section and weak ends”.The direction of economic linkages of NSEBTM existed obvious central orientation and geographical proximity.The density of economic linkage network of NSEBTM increased from 2000 to 2020,and the structure of economic linkage network changed from single-core structure centered with Urumqi City to multicore structure centered with Urumqi City,Karamay City,Shihezi City,and Changji City,shifting from unbalanced development to balanced development.In the future,we should accelerate the construction of urban agglomeration on NSEBTM,cultivate a modern Urumqi metropolitan area,improve comprehensive development quality of the cities and counties at the eastern and western ends,strengthen the intensity of economic linkages between cities and counties,optimize the economic linkage network,and promote the coordinated and integrated development of regional economy.

Comparative Analysis of Climatic Change Trend and Change-Point Analysis for Long-Term Daily Rainfall Annual Maximum Time Series Data in Four Gauging Stations in Niger Delta

The aim of this study is to establish the prevailing conditions of changing climatic trends and change point dates in four selected meteorological stations of Uyo, Benin, Port Harcourt, and Warri in the Niger Delta region of Nigeria. Using daily or 24-hourly annual maximum series (AMS) data with the Indian Meteorological Department (IMD) and the modified Chowdury Indian Meteorological Department (MCIMD) models were adopted to downscale the time series data. Mann-Kendall (MK) trend and Sen’s Slope Estimator (SSE) test showed a statistically significant trend for Uyo and Benin, while Port Harcourt and Warri showed mild trends. The Sen’s Slope magnitude and variation rate were 21.6, 10.8, 6.00 and 4.4 mm/decade, respectively. The trend change-point analysis showed the initial rainfall change-point dates as 2002, 2005, 1988, and 2000 for Uyo, Benin, Port Harcourt, and Warri, respectively. These prove positive changing climatic conditions for rainfall in the study area. Erosion and flood control facilities analysis and design in the Niger Delta will require the application of Non-stationary IDF modelling.

General Order Principle for Multi-Bennett Linkages

Order analysis for multi-Bennett linkages is a difficult topic in kinematics. Traditional methods fail to obtain the order of multi-Bennett linkages due to considering the special geometric distributions among joint axes. An order principle for multi-Bennett linkages is presented. For a summated multi-Bennett linkage, three procedures are included in the order principle. Firstly, a homogeneous screw equation is obtained by taking linear superposition operations and then the maximum order is determined according to linear dependency of all screws. Secondly, two theorems are employed to determine the maximum order, where the first is used to judge the linear independency of four-system screws and the second is fit for identifying the linear independency of five-system screws. Lastly, all possible cases in the order range are considered until the valid order is screened out. For a syncopated multi-Bennett linkage, an equivalent summated model is built and then the order analysis is the same as that of summated linkages. In order to verify the effectiveness of the presented order principle, the orders of summated 5R and 6R linkages as well as a syncopated 6R linkage are analyzed. The computed orders of the former two summated linkages are both 4 and the computed order of the last syncopated 6R linkage is 5. The results coincide with the prototype data. The advantage of the proposed principle is that it can get the correct order of a multi-Bennett linkage without solving the geometric conditions of joint axes and has wide application in variety of multi-Bennett linkages.

Molecular Diversity and Association Analysis of Drought and Salt Tolerance in Gossypium hirsutum L. Germplasm

Association mapping is a useful tool for the detection of genes selected during plant domestication based on their linkage disequilibrium（LD）. This study was carried out to estimate genetic diversity, population structure and the extent of LD to develop an association framework in order to identify genetic variations associated with drought and salt tolerance traits. 106 microsatellite marker primer pairs were used in 323 Gossypium hirsutum germplasms which were grown in the drought shed and salt pond for evaluation. Polymorphism（PIC=0.53） was found, and three groups were detected（K=3） with the second likelihood ΔK using STRUCTURE software. LD decay rates were estimated to be 13-15 cM at r2 0.20. Significant associations between polymorphic markers and drought and salt tolerance traits were observed using the general linear model（GLM） and mixed linear model（MLM）（P 0.01）. The results also demonstrated that association mapping within the population structure as well as stratification existing in cotton germplasm resources could complement and enhance quantitative trait loci（QTLs） information for marker-assisted selection.

SNP-based linkage mapping for validation of adult plant stripe rust resistance QTL in common wheat cultivar Chakwal 86

Wheat crops in China are constantly challenged by stripe rust. Deployment of cultivars with diverse resistances is the best strategy to control the disease. A recombinant inbred line(RIL) population derived from a cross between the resistant cultivar Chakwal 86 and susceptible landrace Mingxian 169 was studied in multiple environments to examine the underlying genetics and to identify quantitative trait loci(QTL) for stripe rust resistance.One hundred and twenty-eight RILs were genotyped with wheat 35 K SNP array and a genome-wide linkage map with 1480 polymorphic SNP markers, or bins, was constructed.Two major QTL on chromosomes 1BL and 3BS, and one minor QTL on 6BS had significant effects in reducing stripe rust severity. The QTL were validated using composite interval mapping(CIM) and inclusive composite interval mapping(ICIM). These methods explained59.0%–74.1% of the phenotype variation in disease response. The QTL on chromosome 1 BL was confirmed to be Yr29/Lr46 and the one on 3BS was the resistance allele identified in CIMMYT germplasm but was not Yr30/Sr2. The QTL on 6BS probably corresponded to previously known QTL. RILs with combined QTL were more resistant than those with single or no QTL. Kompetitive allele-specific PCR(KASP) assays for the QTL with largest effect QTL on chromosome 3BS were performed on a subset of RILs and 150 unrelated wheat lines. The QTL on 3BS with its linked KASP markers can be used in marker-assisted selection to improve stripe rust resistance in breeding programs.

Application of Statistical Tools for Data Analysis and Interpretation in Rice Plant Pathology

There has been a significant advancement in the application of statistical tools in plant pathology during the past four decades. These tools include multivariate analysis of disease dynamics involving principal component analysis, cluster analysis, factor analysis, pattern analysis, discriminant analysis, multivariate analysis of variance, correspondence analysis, canonical correlation analysis, redundancy analysis, genetic diversity analysis, and stability analysis, which involve in joint regression, additive main effects and multiplicative interactions, and genotype-by-environment interaction biplot analysis. The advanced statistical tools, such as non-parametric analysis of disease association, meta-analysis, Bayesian analysis, and decision theory, take an important place in analysis of disease dynamics. Disease forecasting methods by simulation models for plant diseases have a great potentiality in practical disease control strategies. Common mathematical tools such as monomolecular, exponential, logistic, Gompertz and linked differential equations take an important place in growth curve analysis of disease epidemics. The highly informative means of displaying a range of numerical data through construction of box and whisker plots has been suggested. The probable applications of recent advanced tools of linear and non-linear mixed models like the linear mixed model, generalized linear model, and generalized linear mixed models have been presented. The most recent technologies such as micro-array analysis, though cost effective, provide estimates of gene expressions for thousands of genes simultaneously and need attention by the molecular biologists. Some of these advanced tools can be well applied in different branches of rice research, including crop improvement, crop production, crop protection, social sciences as well as agricultural engineering. The rice research scientists should take advantage of these new opportunities adequately in adoption of the new highly potential advanced technologies while planning experimental designs, data collection, analysis and interpretation of their research data sets.

SHEsis,a powerful software platform for analyses of linkage disequilibrium,haplotype construction,and genetic association at polymorphism loci

In multiloci-based genetic association studies of complex diseases, a powerful and high efficient tool for analyses oflinkage disequilibrium (LD) between markers, haplotype distributions and many chi-square/p values with a large numberof samples has been sought for long. In order to achieve the goal of obtaining meaningful results directly from raw data,we developed a robust and user-friendly software platform with a series of tools for analysis in association study withhigh efficiency. The platform has been well evaluated by several sets of real data.