Long-term drivers of persistence and colonization dynamics in spatially structured amphibian populations

Many organisms live in networks of local populations connected by dispersing individuals, called spatially structured populations (SSPs), where the long-term persistence of the entire network is determined by the balance between 2 processes acting at the scale of local populations: extinction and colonization. When multiple threats act on an SSP, a comparison of the different factors determining local extinctions and colonizations is essential to plan sound conservation actions. We assessed the drivers of long-term population dynamics of multiple amphibian species at the regional scale. We used dynamic occupancy models within a Bayesian framework to identify the factors determining persistence and colonization of local populations. Because connectivity among patches is fundamental to SSPs dynamics, we considered 2 measures of connectivity acting on each focal patch: incidence of the focal species and incidence of invasive crayfish. We used meta-analysis to summarize the effect of different drivers at the community level. Persistence and colonization of local populations were jointly determined by factors acting at different scales. Persistence probability was positively related to the area and the permanence of wetlands, whereas it was negatively related to occurrence of fish. Colonization probability was highest in semipermanent wetlands and in sites with a high incidence of the focal species in nearby sites, whereas it showed a negative relationship with the incidence of invasive crayfish in the landscape. By analyzing long-term data on amphibian population dynamics, we found a strong effect of some classic features commonly used in SSP studies, such as patch area and focal species incidence. The presence of an invasive non-native species at the landscape scale emerged as one of the strongest drivers of colonization dynamics, suggesting that studies on SSPs should consider different connectivity measures more frequently, such as the incidence of predators, especially when dealing with biological invasions.     

Long-term consequences of non-intentional flows of substances: Modelling non-intentional flows of lead in the Dutch economic system and evaluating their environmental consequences

Substances may enter the economy and the environment through both intentional and non-intentional flows. These non-intentional flows, including the occurrence of substances as pollutants in mixed primary resources (metal ores, phosphate ores and fossil fuels) and their presence in re-used waste streams from intentional use may have environmental and economic consequences in terms of pollution and resource availability. On the one hand, these non-intentional flows may cause pollution problems. On the other hand, these flows have the potential to be a secondary source of substances.This article aims to quantify and model the non-intentional flows of lead, to evaluate their long-term environmental consequences, and compare these consequences to those of the intentional flows of lead. To meet this goal, the model combines all the sources of non-intentional flows of lead within one model, which also includes the intentional flows.Application of the model shows that the non-intentional flows of lead related to waste streams associated with intentional use are decreasing over time, due to the increased attention given to waste management. However, as contaminants in mixed primary resources application, lead flows are increasing as demand for these applications is increasing.     

A new role for citizens’ initiatives: the difficulties in co-creating institutional change in urban planning

In this paper, we analyze the institutional work that underlies the attempt to institutionalize a more active role of citizens in urban planning. We draw on a case in which a group of citizens aims to redevelop a brownfield site into a vital urban area. This citizens’ initiative is co-creating a new form of urban planning with the municipality, private organizations and individual citizens. The study shows how citizens’ initiatives can be a driver for institutional change, but that uncertainties about new institutions tend to reinforce the maintenance of existing ones. This paradox explains why even if the ambition for a new form of planning is widely shared, actually realizing institutional change can still be difficult and time-consuming.     

All-in-one whole exome sequencing strategy with simultaneous copy number variant,single nucleotide variant and absence-of-heterozygosity analysis in fetuses with structural ultrasound anomalies: A 1-year experience

Objective

We performed a 1-year evaluation of a novel strategy of simultaneously analyzing single nucleotide variants (SNVs), copy number variants (CNVs) and copy-number-neutral Absence-of-Heterozygosity from Whole Exome Sequencing (WES) data for prenatal diagnosis of fetuses with ultrasound (US) anomalies and a non-causative QF-PCR result.

Methods

After invasive diagnostics, whole exome parent-offspring trio-sequencing with exome-wide CNV analysis was performed in pregnancies with fetal US anomalies and a non-causative QF-PCR result (WES-CNV). On request, additional SNV-analysis, restricted to (the) requested gene panel(s) only (with the option of whole exome SNV-analysis afterward) was performed simultaneously (WES-CNV/SNV) or as rapid SNV-re-analysis, following a normal CNV analysis.

Results

In total, 415 prenatal samples were included. Following a non-causative QF-PCR result, WES-CNV analysis was initially requested for 74.3% of the chorionic villus (CV) samples and 45% of the amniotic fluid (AF) samples. In case WES-CNV analysis did not reveal a causative aberration, SNV-re-analysis was requested in 41.7% of the CV samples and 17.5% of the AF samples. All initial analyses could be finished within 2 weeks after sampling. For SNV-re-analysis during pregnancy, turn-around-times (TATs) varied between one and 8 days.

Conclusion

We show a highly efficient all-in-one WES-based strategy, with short TATs, and the option of rapid SNV-re-analysis after a normal CNV result.     

Deterring predators, daunting opponents or drawing partners? Signaling rates across diverse contexts in the lizard Anolis sagrei

Although the visual display behavior in Anolis lizards has received ample attention, the function of dewlap extensions (DE), push-ups (PU), and head-nods (HN) in general, and in Anolis sagrei in particular, remains highly equivocal. Therefore, our primary goal was to quantify the display rates of these visual signal types (DE, PU, and HN) in a variety of contexts, using A. sagrei as study species. To our knowledge, this is the first study to test individuals of both sexes in a repeated-measures design across multiple contexts, including predator, non-predator and social interactions (mirror, male–male, male–female, female–male). We found that males have an overall higher signaling rate than females across all contexts. In addition, we found that lizards of both sexes exhibited higher display rates in the presence of conspecifics than when confronted with a predator or non-predator, suggesting that DE, PU, and HN function in intraspecific communication, not in predator deterrence. Whereas females did not significantly raise display rates in a consexual and heterosexual context with respect to subject-alone context, males did. The PU signal type only appears to play a major role for A. sagrei males during aggressive encounters. During heterosexual interactions, increased frequencies of all signal types suggest that DE, PU, and HN are essential for male courtship. Finally, we suggest that intersexual selection is probably a driving force for frequency-related dewlap use in both sexes. In contrast, pronounced intersexual differences were detected for PU and HN rates within a social context.