Recombination and linkage disequilibrium in Arabidopsis thaliana

Linkage disequilibrium (LD) is a major aspect of the organization of genetic variation in natural populations. Here we describe the genome-wide pattern of LD in a sample of 19 Arabidopsis thaliana accessions using 341,602 non-singleton SNPs. LD decays within 10 kb on average, considerably faster than previously estimated. Tag SNP selection algorithms and 'hide-the-SNP' simulations suggest that genome-wide association mapping will require only 40%-50% of the observed SNPs, a reduction similar to estimates in a sample of African Americans. An Affymetrix genotyping array containing 250,000 SNPs has been designed based on these results; we demonstrate that it should have more than adequate coverage for genome-wide association mapping. The extent of LD is highly variable, and we find clear evidence of recombination hotspots, which seem to occur preferentially in intergenic regions. LD also reflects the action of selection, and it is more extensive between nonsynonymous polymorphisms than between synonymous polymorphisms.     

A single positively selected West Nile viral mutation confers increased virogenesis in American crows

West Nile virus (WNV), first recognized in North America in 1999, has been responsible for the largest arboviral epiornitic and epidemic of human encephalitis in recorded history. Despite the well-described epidemiological patterns of WNV in North America, the basis for the emergence of WNV-associated avian pathology, particularly in the American crow (AMCR) sentinel species, and the large scale of the North American epidemic and epiornitic is uncertain. We report here that the introduction of a T249P amino acid substitution in the NS3 helicase (found in North American WNV) in a low-virulence strain was sufficient to generate a phenotype highly virulent to AMCRs. Furthermore, comparative sequence analyses of full-length WNV genomes demonstrated that the same site (NS3-249) was subject to adaptive evolution. These phenotypic and evolutionary results provide compelling evidence for the positive selection of a mutation encoding increased viremia potential and virulence in the AMCR sentinel bird species.     

层次分析法在西藏日土地区旅游资源评价中的应用

旅游资源评价是科学开发旅游资源的基础.以西藏日土地区为例,运用层次分析法对其旅游资源进行评价,在系统分析基础上建立综合评价模型,经一致性检验后计算各因子的相对权值并模糊打分.结合权值结果和得分,分析了旅游品质、主次因子和旅游潜力.评价结果表明,日土地区旅游品质较高,在生态容量和环境容量框架内系统有序地开发当地旅游资源现实可行.为进一步开发日土地区旅游资源提供了可行性论证和参考措施.     

A HEURISTIC PATH-PLANNING METHOD FOR ENHANCING MACHINE-TOOL CONTOUR-FOLLOWING

Nomenclature ki integral action coefficient[s-1]kp speed proportional gain[s-1]kv position proportional gain[s-1]kf feed forward factor of the speed loop[%]M axis mass[kg]V speed[m/s]F driving effort[N]Rc radius of curvature[m]d distance to the apex[m]o lateral offset[m]εcontouring error[m]ωm lowest mechanical resonant frequency[s-1]ζdamping coefficient[-]r inertia ratio[-]μmembership function[-]αcorner angle[rad]x,y horizontal and vertical coordinates[m]?angle to the normal line[rad]1.I…     

Butterflies (Lepidoptera: Papilionoidea) of Mount Kilimanjaro: Nymphalidae subfamilies Libytheinae,Danainae, Satyrinae and Charaxinae

This paper, which presents an annotated checklist of the ‘lower Nymphalidae’ (Libytheinae, Danainae, Satyrinae, Charaxinae), is the fourth in a series on the butterfly fauna of Mount Kilimanjaro. Four genera of lower Nymphalidae (Danaus, Amauris, Bicyclus, Charaxes), with a total of 11 included species, are known or believed to occur within the main forest zone, from c. 1800 to 2800 m. Of these, only three species of Charaxes (Charaxes berkeleyi, Charaxes ansorgei, Charaxes xiphares) may be restricted locally to this primary forest. The lower slopes fauna, below 1800 m, is considerably richer, with a total of 11 genera and 41 species listed (8 species of which extend into the forest zone). Possible additional species, dubious earlier records, problems with African subspecies of Danaus chrysippus, a need for more work on certain Satyrinae, and classification of the genus Charaxes are discussed. An identification key to the subfamilies of Nymphalidae, and the 19 genera of Libytheinae, Danainae, Satyrinae, Charaxinae that occur in Tanzania, together with a key to the adults of all the species of these four subfamilies considered to occur or have occurred on Kilimanjaro, with 206 colour images, are included as online Supplementary Information.     

Treed Avalanche Forecasting: Mitigating Avalanche Danger Utilizing Bayesian Additive Regression Trees

Little Cottonwood Canyon Highway is a dead‐end, two‐lane road leading to Utah's Alta and Snowbird ski resorts. It is the only road access to these resorts and is heavily traveled during the ski season. Professional avalanche forecasters monitor this road throughout the ski season in order to make road closure decisions in the face of avalanche danger. Forecasters at the Utah Department of Transportation (UDOT) avalanche guard station at Alta have maintained an extensive daily winter database on explanatory variables relating to avalanche prediction. Whether or not an avalanche crosses the road is modeled in this paper via Bayesian additive tree methods. Utilizing daily winter data from 1995 to 2011, results show that using Bayesian tree analysis outperforms traditional statistical methods in terms of realized misclassification costs that take into consideration asymmetric losses arising from two types of error. Closing the road when an avalanche does not occur is an error harmful to resort owners, and not closing the road when one does may result in injury or death. Copyright © 2016 John Wiley & Sons, Ltd.     

The role of meta-empirical theory assessment in the acceptance of atomism

The universal acceptance of atomism in physics and chemistry in the early 20th century went along with an altered view on the epistemic status of microphysical conjectures. Contrary to the prevalent understanding during the 19th century, on the new view unobservable objects could be ‘discovered’. It is argued in the present paper that this shift can be connected to the implicit integration of elements of meta-empirical theory assessment into the concept of theory confirmation.