Matrix elements of atomic interaction operators for d sup n configurations

Tabulation of matrix elements of atomic interaction operators for various configuration

Colloidal ionic complexes on periodic substrates: ground state configurations and pattern switching

We theoretically and numerically studied ordering of "colloidal ionic clusters" on periodic substrate potentials as those generated by optical trapping. Each cluster consists of three charged spherical colloids: two negatively and one positively charged. The substrate is a square or rectangular array of traps, each confining one such cluster. By varying the lattice constant from large to small, the observed clusters are first rod-like and form ferro- and antiferro-like phases, then they bend into a banana-like shape and finally condense into a percolated structure. Remarkably, in a broad parameter range between single-cluster and percolated structures, we have found stable supercomplexes composed of six colloids forming grape-like or rocket-like structures. We investigated the possibility of macroscopic pattern switching by applying external electrical fields.Comment: 14 pages, 13 figure

W(h)ither Fossils? Studying Morphological Character Evolution in the Age of Molecular Sequences

A major challenge in the post-genomics era will be to integrate molecular sequence data from extant organisms with morphological data from fossil and extant taxa into a single, coherent picture of phylogenetic relationships; only then will these phylogenetic hypotheses be effectively applied to the study of morphological character evolution. At least two analytical approaches to solving this problem have been utilized: (1) simultaneous analysis of molecular sequence and morphological data with fossil taxa included as terminals in the analysis, and (2) the molecular scaffold approach, in which morphological data are analyzed over a molecular backbone (with constraints that force extant taxa into positions suggested by sequence data). The perceived obstacles to including fossil taxa directly in simultaneous analyses of morphological and molecular sequence data with extant taxa include: (1) that fossil taxa are missing the molecular sequence portion of the character data; (2) that morphological characters might be misleading due to convergence; and (3) character weighting, specifically how and whether to weight characters in the morphological partition relative to characters in the molecular sequence data partition. The molecular scaffold has been put forward as a potential solution to at least some of these problems. Using examples of simultaneous analyses from the literature, as well as new analyses of previously published morphological and molecular sequence data matrices for extant and fossil Chiroptera (bats), we argue that the simultaneous analysis approach is superior to the molecular scaffold approach, specifically addressing the problems to which the molecular scaffold has been suggested as a solution. Finally, the application of phylogenetic hypotheses including fossil taxa (whatever their derivation) to the study of morphological character evolution is discussed, with special emphasis on scenarios in which fossil taxa are likely to be most enlightening: (1) in determining the sequence of character evolution; (2) in determining the timing of character evolution; and (3) in making inferences about the presence or absence of characteristics in fossil taxa that may not be directly observable in the fossil record. Published By: Missouri Botanical Garde

Lignin biomarkers as tracers of mercury sources in lakes water column

This study presents the role of specific terrigenous organic compounds as important vectors of mercury (Hg) transported from watersheds to lakes of the Canadian boreal forest. In order to differentiate the autochthonous from the allochthonous organic matter (OM), lignin derived biomarker signatures [Lambda, S/V, C/V, P/(V ? S), 3,5-Bd/V and (Ad/Al)v] were used. Since lignin is exclusively produced by terrigenous plants, this approach can give a non equivocal picture of the watershed inputs to the lakes. Moreover, it allows a characterization of the source of OM and its state of degradation. The water column of six lakes from the Canadian Shield was sampled monthly between June and September 2005. Lake total dissolved Hg concentrations and Lambda were positively correlated, meaning that Hg and ligneous inputs are linked (dissolved OM r2 = 0.62, p\0.0001; particulate OM r2 = 0.76, p\0.0001). Ratios of P/(V ? S) and 3,5-Bd/V from both dissolved OM and particulate OM of the water column suggest an inverse relationship between the progressive state of pedogenesis and maturation of the OM in soil before entering the lake, and the Hg concentrations in the water column. No relation was found between Hg levels in the lakes and the watershed flora composition—angiosperm versus gymnosperm or woody versus non-woody compounds. This study has significant implications for watershed management of ecosystems since limiting fresh terrestrial OM inputs should reduce Hg inputs to the aquatic systems. This is particularly the case for largescale land-use impacts, such as deforestation, agriculture and urbanization, associated to large quantities of soil OM being transferred to aquatic systems

Average of trial peaks versus peak of average profile : impact on change of direction biomechanics

The aims of this study were twofold: firstly, to compare lower limb kinematic and kinetic variables during a sprint and 90° cutting task between two averaging methods of obtaining discrete data (peak of average profile vs. average of individual trial peaks); secondly, to determine the effect of averaging methods on participant ranking of each variable within a group. Twenty-two participants, from multiple sports, performed a 90° cut, whereby lower limb kinematics and kinetics were assessed via 3D motion and ground reaction force (GRF) analysis. Six of the eight dependent variables (vertical and horizontal GRF; hip flexor, knee flexor, and knee abduction moments, and knee abduction angle) were significantly greater (p ≤ 0.001, g = 0.10-0.37, 2.74-10.40%) when expressed as an average of trial peaks compared to peak of average profiles. Trivial (g ≤ 0.04) and minimal differences (≤ 0.94%) were observed in peak hip and knee flexion angle between averaging methods. Very strong correlations (ρ ≥ 0.901, p <0.001) were observed for rankings of participants between averaging methods for all variables. Practitioners and researchers should obtain discrete data based on the average of trial peaks because it is not influenced by misalignments and variations in trial peak locations, in contrast to the peak from average profile

Consistent alleviation of abiotic stress with silicon addition: a meta-analysis

1. Hundreds of single species studies have demonstrated the facility of silicon (Si) to alleviate diverse abiotic stresses in plants. Understanding of the mechanisms of Si-mediated stress alleviation is progressing, and several reviews have brought information together. A quantitative assessment of the alleviative capacity of Si, however, which could elucidate plant Si function more broadly, was lacking. 2. We combined the results of 145 experiments, predominantly on agricultural species, in a meta-analysis to statistically assess the responses of stressed plants to Si supply across multiple plant families and abiotic stresses. We interrogated our database to determine whether stressed plants increased in dry mass and net assimilation rate, oxidative stress markers were reduced, antioxidant responses were increased and whether element uptake showed consistent changes when supplied with Si. 3. We demonstrated that across plant families and stress types, Si increases dry weight, assimilation rate and chlorophyll biosynthesis and alleviates oxidative damage in stressed plants. In general, results indicated that plant family (as a proxy for accumulator type) and stress type had significant explanatory power for variation in responses. The consistent reduction in oxidative damage was not mirrored by consistent increases in antioxidant production, indicative of the several different stress alleviation mechanisms in which Si is involved. Silicon addition increased K in shoots, decreased As and Cd in roots and Na and Cd in shoots. Silicon addition did not affect Al, Ca or Mn concentration in shoots and roots of stressed plants. Plants had significantly lower concentrations of Si accumulated in shoots but not in roots when stressed. 4. Meta-analyses showed consistent alleviation by Si of oxidative damage caused by a range of abiotic stresses across diverse species. Our findings indicate that Si is likely to be a useful fertilizer for many crops facing a spectrum of abiotic stresses. Similarities in responses across families provide strong support for a role of Si in the alleviation of abiotic stress in natural systems, where it has barely been explored. We suggest this role may become more important under a changing climate and more experiments using non-agricultural species are now needed

Modeling the Amplification Dynamics of Human Alu Retrotransposons

Retrotransposons have had a considerable impact on the overall architecture of the human genome. Currently, there are three lineages of retrotransposons (Alu, L1, and SVA) that are believed to be actively replicating in humans. While estimates of their copy number, sequence diversity, and levels of insertion polymorphism can readily be obtained from existing genomic sequence data and population sampling, a detailed understanding of the temporal pattern of retrotransposon amplification remains elusive. Here we pose the question of whether, using genomic sequence and population frequency data from extant taxa, one can adequately reconstruct historical amplification patterns. To this end, we developed a computer simulation that incorporates several known aspects of primate Alu retrotransposon biology and accommodates sampling effects resulting from the methods by which mobile elements are typically discovered and characterized. By modeling a number of amplification scenarios and comparing simulation-generated expectations to empirical data gathered from existing Alu subfamilies, we were able to statistically reject a number of amplification scenarios for individual subfamilies, including that of a rapid expansion or explosion of Alu amplification at the time of human–chimpanzee divergence