Characterizing differences in precipitation regimes of extreme wet and dry years: implications for climate change experiments

Abstract Climate change is intensifying the hydrologic cycle and is expected to increase the frequency of extreme wet and dry years. Beyond precipitation amount, extreme wet and dry years may differ in other ways, such as the number of precipitation events, event size, and the time between events. We assessed 1614 long-term (100 year) precipitation records from around the world to identify key attributes of precipitation regimes, besides amount, that distinguish statistically extreme wet from extreme dry years. In general, in regions where mean annual precipitation (MAP) exceeded 1000 mm, precipitation amounts in extreme wet and dry years differed from average years by~40% and 30%, respectively. The magnitude of these deviations increased to >60% for dry years and to >150% for wet years in arid regions (MAP<500 mm). Extreme wet years were primarily distinguished from average and extreme dry years by the presence of multiple extreme (large) daily precipitation events (events >99th percentile of all events); these occurred twice as often in extreme wet years compared to average years. In contrast, these large precipitation events were rare in extreme dry years. Less important for distinguishing extreme wet from dry years were mean event size and frequency, or the number of dry days between events. However, extreme dry years were distinguished from average years by an increase in the number of dry days between events. These precipitation regime attributes consistently differed between extreme wet and dry years across 12 major terrestrial ecoregions from around the world, from deserts to the tropics. Thus, we recommend that climate change experiments and model simulations incorporate these differences in key precipitation regime attributes, as well as amount into treatments. This will allow experiments to more realistically simulate extreme precipitation years and more accurately assess the ecological consequences

Collapse-and-revival dynamics of strongly laser-driven electrons

The relativistic quantum dynamics of an electron in an intense single-mode quantized electromagnetic field is investigated with special emphasis on the spin degree of freedom. In addition to fast spin oscillations at the laser frequency, a second time scale is identified due to the intensity dependent emissions and absorptions of field quanta. In analogy to the well-known phenomenon in atoms at moderate laser intensity, we put forward the conditions of collapses and revivals for the spin evolution in laser-driven electrons starting at feasible $10^{18}$ W/cm$^2$.Comment: 18 pages, 4 figure

Differential effects of temperature change and human impact on European Late Quaternary mammalian extinctions

Abstract Species that inhabited Europe during the Late Quaternary were impacted by temperature changes and early humans, resulting in the disappearance of half of the European large mammals. However, quantifying the relative importance that each factor had in the extinction risk of species has been challenging, mostly due to the spatio-temporal biases of fossil records, which complicate the calibration of realistic and accurate ecological niche modeling. Here, we overcome this problem by using ecotypes, and not real species, to run our models. We created 40 ecotypes with different temperature requirements (mean temperature from À20°C to 25°C and temperature range from 10°C to 40°C) and used them to quantify the effect of climate change and human impact. Our results show that cold-adapted ecotypes would have been highly affected by past temperature changes in Europe, whereas temperate and warm-adapted ecotypes would have been positively affected by temperature change. Human impact affected all ecotypes negatively, and temperate ecotypes suffered the greatest impacts. Based on these results, the extinction of cold-adapted species like Mammuthus primigenius may be related to temperature change, while the extinction of temperate species, like Crocuta crocuta, may be related to human impact. Our results suggest that temperature change and human impact affected different ecotypes in distinct ways, and that the interaction of both impacts may have shaped species extinctions in Europe

Genome-wide linkage scan in affected sibling pairs identifies novel susceptibility region for venous thromboembolism: Genetics In Familial Thrombosis study

To cite this article: de Visser MCH, van Minkelen R, van Marion V, den Heijer M, Eikenboom J, Vos HL, Slagboom PE, Houwing-Duistermaat JJ, Rosendaal FR, Bertina RM. Genome-wide linkage scan in affected sibling pairs identifies novel susceptibility region for venous thromboembolism: Genetics in Familial Thrombosis study. J Thromb Haemost 2013; 11: 1474-84. Summary. Background: Venous thromboembolism (VTE) is a multicausal disorder involving environmental and genetic risk factors. In many thrombophilic families the clustering of thrombotic events cannot be explained by known genetic risk factors, indicating that some remain to be discovered. Objectives: We aimed to identify novel thrombosis susceptibility alleles in a large panel of small thrombophilic families: the Genetics In Familial Thrombosis (GIFT) study. Patients/Methods: In the GIFT study, 201 families were recruited consisting of 438 siblings with an objectively confirmed VTE at a young age. Multipoint linkage analysis (402 SSR markers) and fine mapping were performed, followed by genotyping of tagging SNPs in positional candidate genes. Results: Established genetic risk factors such as factor V Leiden, ABO blood group non-O, prothrombin 20210A, fibrinogen gamma 10034T and deficiencies of antithrombin, protein C and protein S were more frequent in GIFT patients than in unselected VTE patients. Linkage supported the presence of novel thrombosis susceptibility loci on 7p21.3-22.2 (LOD score = 3.23) and Xq24-27.3 (LOD score = 1.95). Simulation analysis showed that the chr7 signal was genome-wide statistically significant (P = 0.022). Tagging SNPs (n = 157) in eight positional candidate genes (LOD drop 1.5 regions) were genotyped in GIFT patients and 332 healthy controls. Five chr7 SNPs associated with VTE. SNP THSD7A rs2074597 was responsible for part of the chr7 signal. Conclusions: The GIFT panel is rich in established genetic risk factors for VTE, but genetic factors remain unidentified in many families. Genome-wide linkage failed to identify the previously established genetic risk factors for VTE, but identified a novel VTE susceptibility locus on chr7

Genome-wide single nucleotide polymorphism analysis reveals recent genetic introgression from domestic pigs into Northwest European wild boar populations

Abstract Present-day genetic introgression from domestic pigs into European wild boar has been suggested in various studies. However, no hybrids have been identified beyond doubt mainly because available methods were unable to quantify the extent of introgression and rule out natural processes. Genetic introgression from domestic pigs may have farreaching ecological consequences by altering traits like the reproduction rate or immunology of wild boar. In this study, we demonstrate a novel approach to investigate genetic introgression in a Northwest (NW) European wild boar data set using a genomewide single nucleotide polymorphism (SNP) assay developed for domestic pigs. We quantified the extent of introgression using allele frequency spectrum analysis, in silico hybridization simulations and genome distribution patterns of introgressed SNPs. Levels of recent introgression in the study area were expected to be low, as pig farming practices are prevailingly intensive and indoors. However, evidence was found for geographically widespread presence of domestic pig SNPs in 10% of analysed wild boar. This was supported by the identification of two different pig mitochondrial DNA haplotypes in three of the identified hybrid wild boar, suggesting that introgression had occurred from multiple sources (pig breeds). In silico hybridization simulations showed that the level of introgression in the identified hybrid wild boar is equivalent to firstgeneration hybrids until fifth-generation backcrosses with wild boar. The distribution pattern of introgressed SNPs supported these assignments in four of nine hybrids. The other five hybrids are considered advanced-generation hybrids, resulting from interbreeding among hybrid individuals. Three of nine hybrids were genetically associated with a different wild boar population than the one in which they were sampled. This discrepancy suggests that genetic introgression has occurred through the escape or release of an already hybridized farmed wild boar stock. We conclude that genetic introgression from domestic pigs into NW European wild boar populations is more recent and more common than expected and that genome-wide SNP analysis is a promising tool to quantify recent hybridization in free-living populations

Fluorescence in situ hybridization: a new method for determining primary sex ratio in ants

Abstract The haplodiploid sex determining system in Hymenoptera, whereby males develop from haploid eggs and females from diploid eggs, allows females to control the primary sex ratio (the proportion of each sex at oviposition) in response to ecological and /or genetic conditions. Surprisingly, primary sex ratio adjustment by queens in eusocial Hymenoptera has been poorly studied, because of difficulties in sexing the eggs laid. Here, we show that fluorescence in situ hybridization (FISH) can be used to accurately determine the sex (haploid or diploid) of eggs, and hence the primary sex ratio, in ants. We first isolated the homologue coding sequences of the abdominal-A gene from 10 species of 8 subfamilies of Formicidae. Our data show that the nucleotide sequence of this gene is highly conserved among the different subfamilies. Second, we used a sequence of 4.5 kbp from this gene as a DNA probe for primary sex ratio determination by FISH. Our results show that this DNA probe hybridizes successfully with its complementary DNA sequence in all ant species tested, and allows reliable determination of the sex of eggs. Our proposed method should greatly facilitate empirical tests of primary sex ratio in ants

Self-recruitment and sweepstakes reproduction amid extensive gene flow in a coral-reef fish

Abstract Identifying patterns of larval dispersal within marine metapopulations is vital for effective fisheries management, appropriate marine reserve design, and conservation efforts. We employed genetic markers (microsatellites) to determine dispersal patterns in bicolour damselfish (Pomacentridae: Stegastes partitus). Tissue samples of 751 fish were collected in 2004 and 2005 from 11 sites encompassing the Exuma Sound, Bahamas. Bayesian parentage analysis identified two parent-offspring pairs, which is remarkable given the large population sizes and 28 day pelagic larval duration of bicolour damselfish. The two parent-offspring pairs directly documented self-recruitment at the two northern-most sites, one of which is a long-established marine reserve. Principal coordinates analyses of pair-wise relatedness values further indicated that self-recruitment was common in all sampled populations. Nevertheless, measures of genetic differentiation (F ST ) and results from assignment methods suggested high levels of gene flow among populations. Comparisons of heterozygosity and relatedness among samples of adults and recruits indicated spatially and temporally independent sweepstakes events, whereby only a subset of adults successfully contribute to subsequent generations. These results indicate that self-recruitment and sweepstakes reproduction are the predominant, ecologically-relevant processes that shape patterns of larval dispersal in this system

Josephson Coupling, Phase Correlations, and Josephson Plasma Resonance in Vortex Liquid Phase

Josephson plasma resonance has been introduced recently as a powerful tool to probe interlayer Josephson coupling in different regions of the vortex phase diagram in layered superconductors. In the liquid phase, the high temperature expansion with respect to the Josephson coupling connects the Josephson plasma frequency with the phase correlation function. This function, in turn, is directly related to the pair distribution function of the liquid. We develop a recipe to extract the phase and density correlation functions from the dependencies of the plasma resonance frequency $\omega_p({\bf B})$ and the $c$ axis conductivity $\sigma_c({\bf B})$ on the {\it ab}-component of the magnetic field at fixed {\it c} -component. Using Langevin dynamic simulations of two-dimensional vortex arrays we calculate density and phase correlation functions at different temperatures. Calculated phase correlations describe very well the experimental angular dependence of the plasma resonance field. We also demonstrate that in the case of weak damping in the liquid phase, broadening of the JPR line is caused mainly by random Josephson coupling arising from the density fluctuations of pancake vortices. In this case the JPR line has a universal shape, which is determined only by parameters of the superconductors and temperature.Comment: 22 pages, 6 figures, to appear in Phys. Rev. B, December

Guards and thieves: antagonistic interactions between two ant species coexisting on the same ant-plant

Abstract. 1. The simultaneous occupation of a rare understorey ant-acacia Acacia mayana by its guarding ant Pseudomyrmex ferrugineus, and an apparent opportunist parasite of the mutualism, the generalist ant Camponotus planatus is described. The two ant species occur together in 30.7% of the 26 mature A. mayana plants [23.5% of all trees (n ¼ 34)] surveyed, but C. planatus is absent from saplings below 1 m in height (n ¼ 8). 2. While P. ferrugineus shows behaviour compatible with effective host-tree defence, C. planatus does not attack phytophagous insects and appears ineffective as an ant-guard. Camponotus planatus does, however, occupy swollen thorns (pseudogalls) on the host tree, and harvests nectar from extrafloral leaf nectaries. It is proposed that C. planatus is a parasite of the Acacia-Pseudomyrmex mutualism. 3. Camponotus planatus does not harvest the second trophic reward produced by the tree for its Pseudomyrmex ant-guards, protein-rich food (Beltian) bodies. Camponotus planatus lack the specialised larval adaptations needed to use Beltian bodies as brood food, suggesting that this resource is potentially more resistant to exploitation by generalists than extrafloral nectar. 4. In competition for access to nectaries, C. planatus effectively displaced P. ferrugineus in 99.8% of encounters. These results suggest not only that C. planatus is a parasite of this mutualism, but also that it is able to effectively counteract the aggression shown to other insects by the resident ant-guards