Wnt signals across the plasma membrane to activate the beta-catenin pathway by forming oligomers containing its receptors, Frizzled and LRP

Wnt-induced signaling via beta-catenin plays crucial roles in animal development and tumorigenesis. Both a seven-transmembrane protein in the Frizzled family and a single transmembrane protein in the LRP family (LDL-receptor-related protein 5/6 or Arrow) are essential for efficiently transducing a signal from Wnt, an extracellular ligand, to an intracellular pathway that stabilizes beta-catenin by interfering with its rate of destruction. However, the molecular mechanism by which these two types of membrane receptors synergize to transmit the Wnt signal is not known. We have used mutant and chimeric forms of Frizzled, LRP and Wnt proteins, small inhibitory RNAs, and assays for beta-catenin-mediated signaling and protein localization in Drosophila S2 cells and mammalian 293 cells to study transmission of a Wnt signal across the plasma membrane. Our findings are consistent with a mechanism by which Wnt protein binds to the extracellular domains of both LRP and Frizzled receptors, forming membrane-associated hetero-oligomers that interact with both Disheveled (via the intracellular portions of Frizzled) and Axin (via the intracellular domain of LRP). This model takes into account several observations reported here: the identification of intracellular residues of Frizzled required for beta-catenin signaling and for recruitment of Dvl to the plasma membrane; evidence that Wnt3A binds to the ectodomains of LRP and Frizzled; and demonstrations that a requirement for Wnt ligand can be abrogated by chimeric receptors that allow formation of Frizzled-LRP hetero-oligomers. In addition, the beta-catenin signaling mediated by ectopic expression of LRP is not dependent on Disheveled or Wnt, but can also be augmented by oligomerization of LRP receptors.     

Age estimations of wild pallid sturgeon (Scaphirhynchus albus,Forbes & Richardson 1905) based on pectoral fin spines,otoliths and bomb radiocarbon: inferences on recruitment in the dam‐fragmented Missouri River

An extant stock of wild pallid sturgeon Scaphirhynchus albus persists in the fragmented upper Missouri River basin of Montana and North Dakota. Although successful spawning and hatch of embryos has been verified, long‐term catch records suggest that recruitment has not occurred for several decades as the extant stock lacks juvenile size classes and is comprised exclusively of large, presumably old individuals. Ages of 11 deceased (death years 1997–2007) wild S. albus (136–166 cm fork length) were estimated based on pectoral fin spines, sagittal otoliths and bomb radiocarbon (¹⁴C) assays of otoliths to test the hypothesis that members of this stock are old and to provide inferences on recruitment years that produced the extant stock. Age estimations based on counts of presumed annuli were about 2 years greater for otoliths (mean = 51 years, range = 43–57 years) than spines (mean = 49 years, range = 37–59 years). Based on ¹⁴C assays, confirmed birth years for all individuals occurred prior to 1957, thus establishing known longevity of at least 50 years. Estimated age based on presumed otolith annuli for one S. albus was validated to at least age 49. Although ¹⁴C assays confirmed pre‐1957 birth years for all S. albus, only 56% of estimated ages from spines and 91% of estimated ages from otoliths depicted pre‐1957 birth years. Both ageing structures were subject to under‐ageing error (up to 15 years). Lack of or severe curtailment of S. albus recruitment in the upper Missouri River basin since the mid‐1950s closely parallels the 1953–1957 timeframe when a mainstem reservoir was constructed and started to fill. This reservoir may function as a system‐wide stressor to diminish recruitment success of S. albus in the upper Missouri River basin.     

Size distribution,growth and production of Sargassum thunbergii in an intertidal zone of Padori,west coast of Korea

This paper considers an estimation of population parameters by mathematical equations on the basis of size distribution and biomass obtained from a field survey. Sargassum thunbergii, a dominant alga in t he surf zone of Korean coast, was investigated from June 1990 to August 1991. We divided the population into interval groups according to the time of recruitment. A separation of the population by age or size was impossible because of difficulties arising from continuous recruitment over the growing season. The basic idea for the solution is based on the assumption that the estimated values of the growth rate, number of births and deaths reflect real values, if the biomass and coefficient of variation obtained from the field investigation are coincident with those calculated by equations. The predicted behavior of the population is as follows: the proportion of numbers of recruits is large, but the contribution of recruits to biomass and production is insignificant, and the growth curve shows a sigmoid pattern.     

The hockey-stick method to estimate evening dim light melatonin onset (DLMO) in humans

The onset of melatonin secretion in the evening is the most reliable and most widely used index of circadian timing in humans. Saliva (or plasma) is usually sampled every 0.5–1 hours under dim-light conditions in the evening 5–6 hours before usual bedtime to assess the dim-light melatonin onset (DLMO). For many years, attempts have been made to find a reliable objective determination of melatonin onset time either by fixed or dynamic threshold approaches. The here-developed hockey-stick algorithm, used as an interactive computer-based approach, fits the evening melatonin profile by a piecewise linear-parabolic function represented as a straight line switching to the branch of a parabola. The switch point is considered to reliably estimate melatonin rise time. We applied the hockey-stick method to 109 half-hourly melatonin profiles to assess the DLMOs and compared these estimates to visual ratings from three experts in the field. The DLMOs of 103 profiles were considered to be clearly quantifiable. The hockey-stick DLMO estimates were on average 4 minutes earlier than the experts' estimates, with a range of ?27 to +13 minutes; in 47% of the cases the difference fell within ±5 minutes, in 98% within ?20 to +13 minutes. The raters' and hockey-stick estimates showed poor accordance with DLMOs defined by threshold methods. Thus, the hockey-stick algorithm is a reliable objective method to estimate melatonin rise time, which does not depend on a threshold value and is free from errors arising from differences in subjective circadian phase estimates. The method is available as a computerized program that can be easily used in research settings and clinical practice either for salivary or plasma melatonin values.     

Inverse probability weighting methods for Cox regression with right-truncated data

Right-truncated data arise when observations are ascertained retrospectively, and only subjects who experience the event of interest by the time of sampling are selected. Such a selection scheme, without adjustment, leads to biased estimation of covariate effects in the Cox proportional hazards model. The existing methods for fitting the Cox model to right-truncated data, which are based on the maximization of the likelihood or solving estimating equations with respect to both the baseline hazard function and the covariate effects, are numerically challenging. We consider two alternative simple methods based on inverse probability weighting (IPW) estimating equations, which allow consistent estimation of covariate effects under a positivity assumption and avoid estimation of baseline hazards. We discuss problems of identifiability and consistency that arise when positivity does not hold and show that although the partial tests for null effects based on these IPW methods can be used in some settings even in the absence of positivity, they are not valid in general. We propose adjusted estimating equations that incorporate the probability of observation when it is known from external sources, which results in consistent estimation. We compare the methods in simulations and apply them to the analyses of human immunodeficiency virus latency.     

Directly parameterized regression conditioning on being alive: analysis of longitudinal data truncated by deaths

For observational longitudinal studies of geriatric populations, outcomes such as disability or cognitive functioning are often censored by death. Statistical analysis of such data may explicitly condition on either vital status or survival time when summarizing the longitudinal response. For example a pattern-mixture model characterizes the mean response at time t conditional on death at time S = s (for s > t), and thus uses future status as a predictor for the time t response. As an alternative, we define regression conditioning on being alive as a regression model that conditions on survival status, rather than a specific survival time. Such models may be referred to as partly conditional since the mean at time t is specified conditional on being alive (S > t), rather than using finer stratification (S = s for s > t). We show that naive use of standard likelihood-based longitudinal methods and generalized estimating equations with non-independence weights may lead to biased estimation of the partly conditional mean model. We develop a taxonomy for accommodation of both dropout and death, and describe estimation for binary longitudinal data that applies selection weights to estimating equations with independence working correlation. Simulation studies and an analysis of monthly disability status illustrate potential bias in regression methods that do not explicitly condition on survival.     

An Epidemiologic Study of Arsenic-Related Skin Disorders and Skin Cancer and the Consumption of Arsenic-Contaminated Well Waters in Huhhot,Inner Mongolia,China

Well-use histories were obtained and dermatological examinations were conducted for 3,179 of the 3,228 (98.5%) residents of 3 villages in Inner Mongolia with well water arsenic levels as high as 2,000 ppb (ug/L). Eight persons were found to have skin cancer, 172 had hyperkeratoses, 121 had dyspigmentation, 94 had both hyperkeratoses and dyspigmentation, and, strikingly, none had Blackfoot disease. All 8 subjects with skin cancer also had both hyperkeratoses and dyspigmentation. Arsenic levels were measured for 184 wells and individual well-use histories were obtained. Arsenic exposure histories were summarized as both highest arsenic concentration (highest exposure level for at least 1-year duration) and cumulative arsenic exposure (ppb-years). Sixty-nine percent of the participants had highest arsenic concentrations below 100 ppb; 71% had cumulative arsenic exposures below 2,000 ppb-years. Exposure-response analyses included frequency-weighted, simple linear regression, and most-likely estimate (hockey-stick) models. Skin cancer cases were only found for those with a highest arsenic concentration greater than 150 ppb, and those with exposure less than 150 ppb had a statistically significant deficit. A frequency-weighted model showed a threshold at 150 ppb, and a hockey-stick model showed a threshold at 122 ppb. Considerations of duration, age, latency, and misclassification did not appear to markedly affect the analysis. The non-malignant skin findings showed thresholds of 40–50 ppb in the hockey-stick models. Application of these analytic models to the data from other epidemiological studies of arsenic ingestion and malignant and non-malignant skin disorders can be used to examine patterns of arsenic carcinogenicity.     

Measurement error affects risk estimates for recruitment to the Hudson River stock of striped bass

We examined the consequences of ignoring the distinction between measurement error and natural variability in an assessment of risk to the Hudson River stock of striped bass posed by entrainment at the Bowline Point, Indian Point, and Roseton power plants. Risk was defined as the probability that recruitment of age-1+ striped bass would decline by 80% or more, relative to the equilibrium value, at least once during the time periods examined (1, 5, 10, and 15 years). Measurement error, estimated using two abundance indices from independent beach seine surveys conducted on the Hudson River, accounted for 50% of the variability in one index and 56% of the variability in the other. If a measurement error of 50% was ignored and all of the variability in abundance was attributed to natural causes, the risk that recruitment of age-1+ striped bass would decline by 80% or more after 15 years was 0.308 at the current level of entrainment mortality (11%). However, the risk decreased almost tenfold (0.032) if a measurement error of 50% was considered. The change in risk attributable to decreasing the entrainment mortality rate from 11 to 0% was very small (0.009) and similar in magnitude to the change in risk associated with an action proposed in Amendment #5 to the Interstate Fishery Management Plan for Atlantic striped bass (0.006)--an increase in the instantaneous fishing mortality rate from 0.33 to 0.4. The proposed increase in fishing mortality was not considered an adverse environmental impact, which suggests that potentially costly efforts to reduce entrainment mortality on the Hudson River stock of striped bass are not warranted.     

Hidden population size estimation and diagnostics using two respondent-driven samples with applications in Armenia

Estimating the size of hidden populations is essential to understand the magnitude of social and healthcare needs, risk behaviors, and disease burden. However, due to the hidden nature of these populations, they are difficult to survey, and there are no gold standard size estimation methods. Many different methods and variations exist, and diagnostic tools are needed to help researchers assess method-specific assumptions as well as compare between methods. Further, because many necessary mathematical assumptions are unrealistic for real survey implementation, assessment of how robust methods are to deviations from the stated assumptions is essential. We describe diagnostics and assess the performance of a new population size estimation method, capture–recapture with successive sampling population size estimation (CR-SS-PSE), which we apply to data from 3 years of studies from three cities and three hidden populations in Armenia. CR-SS-PSE relies on data from two sequential respondent-driven sampling surveys and extends the successive sampling population size estimation (SS-PSE) framework by using the number of individuals in the overlap between the two surveys and a model for the successive sampling process to estimate population size. We demonstrate that CR-SS-PSE is more robust to violations of successive sampling assumptions than SS-PSE. Further, we compare the CR-SS-PSE estimates to population size estimations using other common methods, including unique object and service multipliers, wisdom of the crowd, and two-source capture–recapture to illustrate volatility across estimation methods.     

Caveolin is necessary for Wnt-3a-dependent internalization of LRP6 and accumulation of beta-catenin

beta-catenin-mediated Wnt signaling is critical in animal development and tumor progression. The single-span transmembrane Wnt receptor, low-density lipoprotein receptor-related protein 6 (LRP6), interacts with Axin to promote the Wnt-dependent accumulation of beta-catenin. However, the molecular mechanism of receptor internalization and its impact on signaling are unclear. Here, we present evidence that LRP6 is internalized with caveolin and that the components of this endocytic pathway are required not only for Wnt-3a-induced internalization of LRP6 but also for accumulation of beta-catenin. Overall, our data suggest that Wnt-3a triggers the interaction of LRP6 with caveolin and promotes recruitment of Axin to LRP6 phosphorylated by glycogen synthase kinase-3beta and that caveolin thereby inhibits the binding of beta-catenin to Axin. Thus, caveolin plays critical roles in inducing the internalization of LRP6 and activating the Wnt/beta-catenin pathway. We also discuss the idea that distinct endocytic pathways correlate with the specificity of Wnt signaling events.     

Involvement of G1-to-S transition and AhAUX-dependent auxin transport in abscisic acid-induced inhibition of lateral root primodia initiation in Arachis hypogaea L

Previous study indicated that increasing endogenous abscisic acid (ABA) level could inhibit the lateral root (LR) formation of peanuts. In this study, we investigated the mechanisms by which ABA regulated lateral root primordia (LRP) initiation in peanuts (Arachis hypogaea L). Results suggested that ABA inhibited LRP initiation through blocking G1-to-S transition in seedlings and mature roots: e.g. 5.8% increase in the proportion of G1 phase and 18% decrease in the proportion of S phase after ABA treatment for 6 days. Further study of the expression of the cell cycle marker gene for G2-to-M transition in peanut roots suggested that AhCYCB1 expression was regulated by ABA. We also investigated the cooperative regulation of LRP initiation by ABA and indole-3-acetic acid (IAA). ABA treatment greatly reduced the effects of endogenous IAA on mature roots. The expression of the IAA polar transport gene AhAUX1 appeared to be regulated by ABA since ABA inhibited auxin-mediated LRP initiation by suppressing AhAUX-dependent auxin transport in peanut roots. We further examined the effect of ABA on the expression of DR5::GUS and AtAUX1 in the model plant Arabidopsis. The results of Arabidopsis were consistent with that of the peanut.     

Recruitment prediction for Pacific herring (Clupea pallasi) on the west coast of Vancouver Island, Canada

The accurate prediction of recruitment to the fishery is a very important tool within the management structure of any fish stock being exploited. In the case of the Pacific herring, Clupea pallasi, fishery in Canada, a forecast of the abundance of each herring stock is particularly important for formulating an annual catch quota. The sustainable management of the fishery and the resource is based in part on accurate recruitment forecasting because Pacific herring are short-lived and so the recruitment contributes a significant part of the total spawning run targeted by the fishery each year. Several factors are believed be important in determining the success of recruitment besides spawners biomass. Since herrings are “r” strategists, conditions related to the egg, the planktonic, or even the juvenile stage might determine the future level of recruitment. Recently a formula that defines conditions for a semi-quantitative level of recruitment forecast was elaborated using genetic algorithms and current study attempts to improve on this model. Using salinity in two quarterly periods during the planktonic and pre-recruit stages, temperature and spawning biomass for the west coast of Vancouver Island stock, classification rules that define recruitment in 3 different levels (low, medium and high) were developed with a genetic algorithm, setting low and high boundaries for each condition. A 75% success in classifying recruitment was obtained. The model was shown to be particularly effective at predicting when the recruitment would be low, which could be important from the perspective of the Precautionary Approach and the sustainable management of this stock.     

Propagating Uncertainty in Plot-based Estimates of Forest Carbon Stock and Carbon Stock Change

Ecosystem science increasingly relies on highly derived metrics to synthesize across large datasets. However, full uncertainty associated with these metrics is seldom quantified. Our objective was to evaluate measurement error and model uncertainty in plot-based estimates of carbon stock and carbon change. We quantified the measurement error associated with live stems, deadwood and plot-level variables in temperate rainforest in New Zealand. We also quantified model uncertainty for height–diameter allometry, stem volume equations and wood-density estimates. We used Monte Carlo simulation to assess the net effects on carbon stock and carbon change estimated using data from 227 plots from throughout New Zealand. Plot-to-plot variation was the greatest source of uncertainty, amounting to 9.1% of mean aboveground carbon stock estimates (201.11 MgC ha^?1). Propagation of the measurement error and model uncertainty resulted in a 1% increase in uncertainty (0.1% of mean stock estimate). Carbon change estimates (mean ?0.86 MgC ha^?1 y^?1) were more uncertain, with sampling error equating to 56% of the mean, and when measurement error and model uncertainty were included this uncertainty increased by 35% (22.1% of the mean change estimate). For carbon change, the largest sources of measurement error were missed/double counted stems and fallen coarse woody debris. Overall, our findings show that national-scale plot-based estimates of carbon stock and carbon change in New Zealand are robust to measurement error and model uncertainty. We recommend that calculations of carbon stock and carbon change incorporate both these sources of uncertainty so that management implications and policy decisions can be assessed with the appropriate level of confidence.     

Harvesting impact and economic value ofGeonoma deversa, arecaceae, an understory palm used for roof Thatching in the Peruvian Amazon

We evaluated the impact of two leaf harvesting methods on the clonal understory palm Geonoma deversa. In the first method only the leaves are cut, in the second the complete crown is severed. Stands representative for each method are compared with unharvested stands. Both methods of harvesting reduce clone size and reproductive output (inflorescence and infructescence per clone), and lower the number of ramets available for the next harvest. Cutting only the leaves represents a better method of harvest because of a lower impact on the residual stock. Economic analysis reveals that the value of this resource (standing leaf value) is low (2 to 26 U.S. $/ha) compared with labor costs that can be between 55 to 86% of palm thatch revenues. Harvesting Geonoma leaves generates a net present value (NPV) that ranges from 3 to 191 U.S. $/ha depending on the stand location, the wage, and the interest rate employed for the calculation.     

How Big Is It Really? Assessing the Efficacy of Indirect Estimates of Body Size in Asian Elephants

Information on an organism’s body size is pivotal in understanding its life history and fitness, as well as helping inform conservation measures. However, for many species, particularly large-bodied wild animals, taking accurate body size measurements can be a challenge. Various means to estimate body size have been employed, from more direct methods such as using photogrammetry to obtain height or length measurements, to indirect prediction of weight using other body morphometrics or even the size of dung boli. It is often unclear how accurate these measures are because they cannot be compared to objective measures. Here, we investigate how well existing estimation equations predict the actual body weight of Asian elephants Elephas maximus, using body measurements (height, chest girth, length, foot circumference and neck circumference) taken directly from a large population of semi-captive animals in Myanmar (n = 404). We then define new and better fitting formulas to predict body weight in Myanmar elephants from these readily available measures. We also investigate whether the important parameters height and chest girth can be estimated from photographs (n = 151). Our results show considerable variation in the ability of existing estimation equations to predict weight, and that the equations proposed in this paper predict weight better in almost all circumstances. We also find that measurements from standardised photographs reflect body height and chest girth after applying minor adjustments. Our results have implications for size estimation of large wild animals in the field, as well as for management in captive settings.     

Maturity Dispersion,Stock Auto-Correlation,and Management Strategy in Exploited Populations

Fishery management policies need to be based on historical summaries of stock status which are well correlated with the size of the group of individuals who will be affected by any harvest. This paper is motivated by the problem of managing stocks of Atlantic salmon, which can be accurately monitored during the riverine stages of their life-history, but which spend a lengthy period at sea before returning to spawn. We begin by formulating a minimal stochastic model of stock-recruitment driven population dynamics, which linearises to a standard ARMA form. We investigate the relation between maturity dispersion and the auto-covariance of stock fluctuations driven by process noise in the recruitment process and/or random variability in survival from recruitment to spawning. We demonstrate that significant reductions in fluctuation intensity and/or increases in long-run average yield can be achieved by controlling harvesting in response to the value of a historical summary focussed on lags at which the uncontrolled population dynamics produce strong correlations. We apply our minimal model to two well-characterised Atlantic salmon populations, and find poor agreement between predicted and observed stock fluctuation ACF. Re-examination of the ancilliary data available for one of our two exemplary systems leads us to propose an extended model which also linearises to ARMA form, and which predicts a fluctuation ACF more closely in agreement with that observed, and could thus form a satisfactory vehicle for policy discussion.     

Wnt signal amplification via activity, cooperativity, and regulation of multiple intracellular PPPSP motifs in the Wnt co-receptor LRP6

Low density lipoprotein receptor-related protein 6 (LRP6) and its homologue LRP5 serve as Wnt co-receptors that are essential for the Wnt/beta-catenin pathway. Wnt activation of LRP6 leads to recruitment of the scaffolding protein Axin and inhibition of Axin-mediated phosphorylation/destruction of beta-catenin. We showed that five conserved PPPSP motifs in the LRP6 intracellular domain are required for LRP6 function, and mutation of these motifs together abolishes LRP6 signaling activity. We further showed that Wnt induces the phosphorylation of a prototypic PPPSP motif, which provides a docking site for Axin and is sufficient to transfer signaling activity to a heterologous receptor. However, the activity, regulation, and functionality of multiple PPPSP motifs in LRP6 have not been characterized. Here we provide a comprehensive analysis of all five PPPSP motifs in LRP6. We define the core amino acid residues of a prototypic PPPSP motif via alanine scanning mutagenesis and demonstrate that each of the five PPPSP motifs exhibits signaling and Axin binding activity in isolation. We generated two novel phosphorylation-specific antibodies to additional PPPSP motifs and show that Wnt induces phosphorylation of these motifs in the endogenous LRP6 through glycogen synthase kinase 3. Finally, we uncover the critical cooperativity of PPPSP motifs in the full-length LRP6 by demonstrating that LRP6 mutants lacking a single PPPSP motif display compromised function, whereas LRP6 mutants lacking two of the five PPPSP motifs are mostly inactive. This cooperativity appears to reflect the ability of PPPSP motifs to promote the phosphorylation of one another and to interact with Axin synergistically. These results establish the critical role and a common phosphorylation/activation mechanism for the PPPSP motifs in LRP6 and suggest that the conserved multiplicity and cooperativity of the PPPSP motifs represents a built-in amplifier for Wnt signaling by the LRP6 family of receptors.     

A Probabilistic Dynamic Material Flow Analysis Model for Chinese Urban Housing Stock

The stock‐driven dynamic material flow analysis (MFA) model is one of the prevalent tools to investigate the evolution and related material metabolism of the building stock. There exists substantial uncertainty inherent to input parameters of the stock‐driven dynamic building stock MFA model, which has not been comprehensively evaluated yet. In this study, a probabilistic, stock‐driven dynamic MFA model is established and China's urban housing stock is selected as the empirical case. This probabilistic dynamic MFA model has the ability to depict the future evolution pathway of China's housing stock and capture uncertainties in its material stock, inflow, and outflow. By means of probabilistic methods, a detailed and transparent estimation of China's housing stock and its material metabolism behavior is presented. Under a scenario with a saturation level of the population, urbanization, and living space, the median value of the urban housing stock area, newly completed area, and demolished area would peak at around 49, 2.2, and 2.2 billion square meters, respectively. The corresponding material stock and flows are 79, 3.5, and 3.3 billion tonnes, respectively. Uncertainties regarding housing stock and its material stock and flows are non‐negligible. Relative uncertainties of the material stock and flows are above 50%. The uncertainty importance analysis demonstrates that the material intensity and the total population are major contributions to the uncertainty. Policy makers in the housing sector should consider the material efficiency as an essential policy to mitigate material flows of the urban building stock and to lower the risk of policy failures.