Performance of Greater Sage-Grouse Models for Conservation Assessment in the Interior Columbia Basin, U.S.A.

Abstract: Valid modeling of habitats and populations of Greater Sage-Grouse ( Centrocercus urophasianus) is a critical management need because of increasing concern about population viability. Consequently, we evaluated the performance of two models designed to assess landscape conditions for Greater Sage-Grouse across 13.6 million ha of sagebrush steppe in the interior Columbia Basin and adjacent portions of the Great Basin of the western United States (referred to as the basin). The first model, the environmental index model, predicted conditions at the scale of the subwatershed (mean size of approximately 7800 ha) based on inputs of habitat density, habitat quality, and effects of human disturbance. Predictions ranged on a continuous scale from 0 for lowest environmental index to 2 for optimal environmental index. The second model, the population outcome model, predicted the composite, range-wide conditions for sage grouse based on the contribution of environmental index values from all subwatersheds and measures of range extent and connectivity. Population outcomes were expressed as five classes (A through E) that represented a gradient from continuous, well-distributed populations (outcome A) to sparse, highly isolated populations with a high likelihood of extirpation (outcome E). To evaluate performance, we predicted environmental index values and population outcome classes in areas currently occupied by sage grouse versus areas where extirpation has occurred. Our a priori expectations were that models should predict substantially worse environmental conditions ( lower environmental index) and a substantially higher probability of extirpation ( lower population outcome class) in extirpated areas. Results for both models met these expectations. For example, a population outcome of class E was predicted for extirpated areas, as opposed to class C for occupied areas. These results suggest that our models provided reliable landscape predictions for the conditions tested. This finding is important for conservation planning in the basin, where the models were used to evaluate management of federal lands for sage grouse.     

Comprehensive prenatal diagnostics: Exome versus genome sequencing

Objective

This study aimed to assess the diagnostic yield of prenatal genetic testing using trio whole exome sequencing (WES) and trio whole genome sequencing (WGS) in pregnancies with fetal anomalies by comparing the results with conventional chromosomal microarray (CMA) analysis.

Methods

A total of 40 pregnancies with fetal anomalies or increased nuchal translucency (NT ≥ 5 mm) were included between the 12th and 21st week of gestation. Trio WES/WGS and CMA were performed in all cases.

Results

The trio WES/WGS analysis increased the diagnostic yield by 25% in cases with negative CMA results. Furthermore, all six chromosomal aberrations identified by CMA were independently detected by WES/WGS analysis. In total, 16 out of 40 cases obtained a genetic sequence variant, copy number variant, or aneuploidy explaining the phenotype, resulting in an overall WES/WGS diagnostic yield of 40%. WES analysis provided a more reliable identification of mosaic sequence variants than WGS because of its higher sequencing depth.

Conclusions

Prenatal WES/WGS proved to be powerful diagnostic tools for fetal anomalies, surpassing the diagnostic yield of CMA. They have the potential to serve as standalone methods for prenatal diagnosis. The study highlighted the limitations of WGS in accurately detecting mosaic variants, which is particularly relevant when analyzing chorionic villus samples.     

Influence of COM-peptides/proteins on the properties of flocs formed at different shear rates

Coagulation followed by floc separation is a key process for the removal of algal organic matter(AOM) in water treatment. Besides optimizing coagulation parameters,knowledge of the properties of AOM-flocs is essential to maximizing AOM removal.However, the impact of AOM on the floc properties remains unclear. This study investigated how peptides/proteins derived from the cellular organic matter(COM) of the cyanobacterium Microcystis aeruginosa influenced the size, structure, and shape of flocs formed at different shear rates(G). Flocs formed by kaolinite, COM-peptides/proteins and a mixture of the same were studied, and the effect of intermolecular interactions between floc components on floc properties was assessed. The coagulation experiments were performed in a Taylor–Couette reactor, with aluminum(Al) or ferric sulphate(Fe) utilized as coagulants. Image analysis was performed to gauge floc size and obtain data on fractal dimension. It was found that floc properties were affected by the presence of the COM-peptides/proteins and the coagulant used. COM-peptides/proteins increased floc size and porosity and widened floc size distributions. The Fe coagulant produced larger and less compact flocs than Al coagulant. Moreover, the decrease in floc size that occurred in parallel with increase in shear rate was not smooth in progress. A rapid change for the kaolinite-coagulant suspension and two rapid changes for the suspensions containing COM were observed. These were attributed to various intermolecular interactions between floc components participating in coagulation at different G. Based on the results obtained, shear rates suitable for efficient separation of flocs containing COM were suggested.     

The applicability of compost,zeolite and calcium oxide in assisted remediation of acidic soil contaminated with Cr(III) and Cr(VI)

Environmental Science and Pollution Research - The effect of soil amendments, i.e., compost, zeolite, and calcium oxide, on the chemical properties of soil contaminated with Cr(III) and Cr(VI) and...     

Novel shoreline cap for controlling sheen and dissolved‐phase constituent discharge

A novel, multilayered shoreline cap was designed and installed to mitigate the release of petroleum light nonaqueous phase liquid (LNAPL) and dissolved‐phase groundwater constituents to the Willamette River in Portland, OR. Releases of LNAPL related to upland impacts caused occasional sheens on a portion of the river within the Portland Harbor Superfund Site. The frequency and volume of sheens decreased following the installation of an upland sheet pile barrier wall, but occasional sheens related to LNAPL impacts stranded downgradient of the wall continued–prompting the design of a shoreline remedy. Because the site is located within the Portland Harbor Superfund Site, the cap was designed to mitigate sheen and to meet the objectives specified in the Portland Harbor Record of Decision including limiting the discharge of certain dissolved‐phase constituents of interest. The cap design was the first instance of combining an oleophilic bio‐barrier to mitigate sheen and an activated carbon layer to capture dissolved‐phase constituents. No sheens have been visually observed since cap installation.     

Game theory, multi-modal signalling and the evolution of communication

We discuss how the theoretical framework related to selection pressures on multi-component and multi-modal signalling introduced by the article of Wilson et al. in this special issue could usefully be built both theoretically and empirically. Theoretically, we suggest that the game theory approach of Wilson et al. could be generalised using the methodology of adaptive dynamics in order to indicate evolutionary trajectories and paths of evolution. This might indicate the relative likelihood of finding different equilibriums empirically in situations where the game theory explorations of Wilson et al. suggest that multiple equilibriums may exist for a given system. We also suggest how the work of Wilson et al. could be extended theoretically and empirically to further capture the effects of receiver psychology on selective pressures on multi-component and multi-modal signals. We also highlight the assumptions and predictions of the existing theory that would most benefit from and would be most amenable to empirical testing.