Ebola Scare and Measles Resurgence: Mandatory Isolation/quarantine and Vaccination

Public outcry for radical isolation and quarantine policies followed the first Ebola diagnosis in the United States when Eric Duncan, upon his return home Oct 2014 from West Africa, then in the midst of a catastrophic Ebola epidemic, tested positive for Ebola. Likewise, the Dec 2014 Disneyland measles outbreak unleashed an angry backlash against parents who refused to have their children vaccinated; and there was public momentum to repeal all legal exemptions to mandatory vaccination of school children. This paper presents an ethical and legal analysis to adjudicate the issue which is at stake in both controversies; namely the inherent conflict between individual rights v. public health when the nation is threatened by serious communicable disease. It presents reasoned arguments, weighing duty-based v. consequence-maximizing ethical principles of right action through application of the felicity calculus (net utility). And the paper demonstrates how the metaethical theory of emotivism is operative in formation and expression of public sentiment which fueled the ethical and legal deliberations

Effect of host species on the topography of fitness landscape for a plant RNA virus

[EN] Adaptive fitness landscapes are a fundamental concept in evolutionary biology that relate the genotype of individuals with their fitness. At the end, the evolutionary fate of evolving populations depends on the topography of the landscape, that is, the number of accessible mutational pathways and of possible fitness peaks (i.e, adaptive solutions). For long time, fitness landscapes were only theoretical constructions due to a lack of precise information on the mapping between genotypes and phenotypes. In recent years, however, efforts have been devoted to characterize the properties of empirical fitness landscapes for individual proteins or for microbes adapting to artificial environments. In a previous study, we had characterized the properties of the empirical fitness landscape defined by the first five mutations fixed during adaptation of tobacco etch potyvirus (TEV) to a new experimental host, Arabidopsis thaliana. Here we evaluate the topography of this landscape in the ancestral host Nicotiana tabacum. Comparing the topographies of the landscape in the two hosts, we found that some features remain similar, such as the existence of fitness holes and the prevalence of epistasis, including cases of sign and of reciprocal sign that create rugged, uncorrelated and highly random topographies. However, we also observed significant differences in the fine grained details among both landscapes due to changes in the fitness and epistatic interactions of some genotypes. Our results support the idea that not only fitness tradeoffs between hosts but also topographical incongruences among fitness landscapes in alternative hosts may contribute to virus specialization.This project was funded by grants BFU2012-30805 and BFU2015-65037P from the Spanish Ministry of Economy and Competitiveness (MINECO), PROMETEOII/2014/021 from the Generalitat Valenciana, and EvoEvo (ICT610427) from the European Commission 7th Framework Program to S.F.E. H.C. was supported by contract BES2013-065595 from MINECO. J.L. was supported by a JAE-pre contract from CSIC.Cervera-Benet, H.; Lalic, J.; Elena Fito, SF. (2016). Effect of host species on the topography of fitness landscape for a plant RNA virus. Journal of Virology. 90(22):10160-10169. https://doi.org/10.1128/JVI.01243-16S1016010169902

Experimental Rugged Fitness Landscape in Protein Sequence Space

The fitness landscape in sequence space determines the process of biomolecular evolution. To plot the fitness landscape of protein function, we carried out in vitro molecular evolution beginning with a defective fd phage carrying a random polypeptide of 139 amino acids in place of the g3p minor coat protein D2 domain, which is essential for phage infection. After 20 cycles of random substitution at sites 12–130 of the initial random polypeptide and selection for infectivity, the selected phage showed a 1.7×10(4)-fold increase in infectivity, defined as the number of infected cells per ml of phage suspension. Fitness was defined as the logarithm of infectivity, and we analyzed (1) the dependence of stationary fitness on library size, which increased gradually, and (2) the time course of changes in fitness in transitional phases, based on an original theory regarding the evolutionary dynamics in Kauffman's n-k fitness landscape model. In the landscape model, single mutations at single sites among n sites affect the contribution of k other sites to fitness. Based on the results of these analyses, k was estimated to be 18–24. According to the estimated parameters, the landscape was plotted as a smooth surface up to a relative fitness of 0.4 of the global peak, whereas the landscape had a highly rugged surface with many local peaks above this relative fitness value. Based on the landscapes of these two different surfaces, it appears possible for adaptive walks with only random substitutions to climb with relative ease up to the middle region of the fitness landscape from any primordial or random sequence, whereas an enormous range of sequence diversity is required to climb further up the rugged surface above the middle region

Transient effects in the backscattered current of a Luttinger liquid

We study the backscattered current in a Luttinger liquid in the presence of a point like weak impurity switched on at finite time, taking into account finite-temperature effects. We show how the well-known results for a static impurity are distorted. We derive a dimensionless parameter $\tau_{R}$ as function of the electron-electron interaction and the temperature, such that for $\tau_{R} 1$) the switching process is relevant (irrelevant). Our results suggest the possibility of determining the value of the Luttinger parameter $K$ through time measurements in transport experiments at fixed voltage.Comment: 8 pages, 3 figures. To appear in Physical Review

Synoptic relationships between surface Chlorophyll-<i>a</i> and diagnostic pigments specific to phytoplankton functional types

Error-quantified, synoptic-scale relationships between chlorophyll-<i>a</i> (Chl-<i>a</i>) and phytoplankton pigment groups at the sea surface are presented. A total of ten pigment groups were considered to represent three Phytoplankton Size Classes (PSCs, micro-, nano- and picoplankton) and seven Phytoplankton Functional Types (PFTs, i.e. diatoms, dinoflagellates, green algae, prymnesiophytes (haptophytes), pico-eukaryotes, prokaryotes and <i>Prochlorococcus</i> sp.). The observed relationships between Chl-<i>a</i> and PSCs/PFTs were well-defined at the global scale to show that a community shift of phytoplankton at the basin and global scales is reflected by a change in Chl-<i>a</i> of the total community. Thus, Chl-<i>a</i> of the total community can be used as an index of not only phytoplankton biomass but also of their community structure. Within these relationships, we also found non-monotonic variations with Chl-<i>a</i> for certain pico-sized phytoplankton (pico-eukaryotes, Prokaryotes and <i>Prochlorococcus</i> sp.) and nano-sized phytoplankton (Green algae, prymnesiophytes). The relationships were quantified with a least-square fitting approach in order to enable an estimation of the PFTs from Chl-<i>a</i> where PFTs are expressed as a percentage of the total Chl-<i>a</i>. The estimated uncertainty of the relationships depends on both PFT and Chl-<i>a</i> concentration. Maximum uncertainty of 31.8% was found for diatoms at Chl-<i>a</i> = 0.49 mg m⁻³. However, the mean uncertainty of the relationships over all PFTs was 5.9% over the entire Chl-<i>a</i> range observed in situ (0.02 &lt; Chl-<i>a</i> &lt; 4.26 mg m^&minus;3). The relationships were applied to SeaWiFS satellite Chl-<i>a</i> data from 1998 to 2009 to show the global climatological fields of the surface distribution of PFTs. Results show that microplankton are present in the mid and high latitudes, constituting only ~10.9% of the entire phytoplankton community in the mean field for 1998–2009, in which diatoms explain ~7.5%. Nanoplankton are ubiquitous throughout the global surface oceans, except the subtropical gyres, constituting ~45.5%, of which prymnesiophytes (haptophytes) are the major group explaining ~31.7% while green algae contribute ~13.9%. Picoplankton are dominant in the subtropical gyres, but constitute ~43.6% globally, of which prokaryotes are the major group explaining ~26.5% (<i>Prochlorococcus</i> sp. explaining 22.8%), while pico-eukaryotes explain ~17.2% and are relatively abundant in the South Pacific. These results may be of use to evaluate global marine ecosystem models

Observational Search for PeV-EeV Tau Neutrino from GRB081203A

We report the first observational search for tau neutrinos from gamma ray bursts (GRBs) using one of the Ashra light collectors. The earth-skimming tau-neutrino technique of imaging Cherenkov tau showers was applied as a detection method. We set stringent upper limits on the tau-neutrino fluence in PeV-EeV region for 3780 s (between 2.83 and 1.78 hours before) and another 3780 s (between 21.2 and 22.2 hours after) surrounding GRB081203A triggered by the Swift satellite. This first search for PeV-EeV tau neutrino complements other experiments in energy range and methodology, and suggests the prologue of "multi-particle astronomy" with a precise determination of time and location.Comment: 13 pages, 4 figure

Optimization of sample unit size for sampling stink bugs (Hemiptera: Pentatomidae) in soybean

Cost-effective and reliable sampling procedures are crucial for integrated pest management. Sweep net sampling is commonly used for stink bugs (Hemiptera: Pentatomidae) in soybean, with sample size being the number of sets of sweeps, and sample unit size the number of sweeps in each set. Sample unit size has received little attention, but can affect sampling parameters. Here, two sample unit sizes (10 vs. 25 sweeps) were compared for the sampling of stink bug taxa. On average, sampling for stink bugs took 3.6 more minutes with the 25-sweep than with the 10-sweep sample unit size. Generally, estimates of the mean number of stink bugs per sweep were similar between the two sample unit sizes for Euschistus spp. and Chinavia hilaris combined (“combined herbivores”) and Euschistus spp. The 25-sweep sample unit size had a higher probability of detecting combined herbivores, Euschistus spp. and Podisus spp., lower standard errors and relative variance for combined herbivores and Euschistus spp., lower standard errors for C. hilaris, and higher relative net precision [which accounts for sampling cost (i.e., time)] for combined herbivores and Euschistus spp. Taken together, the better probability of detection, precision and efficiency of the 25-sweep sample unit size support the continued use of sampling plans developed for that sample unit size. The optimization of sample unit sizes is an important factor that should be accounted for in the development of sampling plans

Predictability of evolutionary trajectories in fitness landscapes

Experimental studies on enzyme evolution show that only a small fraction of all possible mutation trajectories are accessible to evolution. However, these experiments deal with individual enzymes and explore a tiny part of the fitness landscape. We report an exhaustive analysis of fitness landscapes constructed with an off-lattice model of protein folding where fitness is equated with robustness to misfolding. This model mimics the essential features of the interactions between amino acids, is consistent with the key paradigms of protein folding and reproduces the universal distribution of evolutionary rates among orthologous proteins. We introduce mean path divergence as a quantitative measure of the degree to which the starting and ending points determine the path of evolution in fitness landscapes. Global measures of landscape roughness are good predictors of path divergence in all studied landscapes: the mean path divergence is greater in smooth landscapes than in rough ones. The model-derived and experimental landscapes are significantly smoother than random landscapes and resemble additive landscapes perturbed with moderate amounts of noise; thus, these landscapes are substantially robust to mutation. The model landscapes show a deficit of suboptimal peaks even compared with noisy additive landscapes with similar overall roughness. We suggest that smoothness and the substantial deficit of peaks in the fitness landscapes of protein evolution are fundamental consequences of the physics of protein folding.Comment: 14 pages, 7 figure