Remedies for pseudoreplication

Pseudoreplication is the failure of a statistical analysis to properly incorporate the true structure of randomness present in the data. It has been well documented and studied in the ecological literature but has received little attention in the fisheries literature. Avoiding pseudoreplication in analyses of fisheries data can be difficult due to the complexity of the statistical procedures required. However, recent developments in statistical methodology are decreasing the extent to which pseudoreplication has to be tolerated. Seven examples are given here, beginning with simple design-based remedies and progressing to more challenging examples including the model-based remedies of mixed-effects modelling, generalized linear mixed models, state-space models, and geostatistics.     

Machine learning highlights the importance of primary and secondary production in determining habitat for marine fish and macroinvertebrates

1. Species distribution models for marine organisms are increasingly used for a range of applications, including spatial planning, conservation, and fisheries management. These models have been constructed using a variety of mathematical forms and drawing on both physical and biological independent variables; however, what might be called first-generation models have mainly followed the form of linear models, or smoothing splines, informed by data collected in the context of fish surveys.
2. The performance of different classes of variables were tested in a series of species occurrence models built with machine learning methods, specifically evaluating the potential contribution of lower trophic level data. Random forest models were fitted based on the classification of the absence/presence for fish and macroinvertebrates surveyed on the US Northeast Continental Shelf.
3. The potential variables included physical, primary production, secondary production, and terrain variables. For accepted model fits, six variable importance measures were computed, which collectively showed that physical and secondary production variables make the greatest contribution across all models. In contrast, terrain variables made the least contribution to these models.
4. Multivariable analyses that account for all performance measures reinforce the role of water depth and temperature in defining species presence and absence; however, chlorophyll concentration and some specific zooplankton taxa, such as Metridia lucens and Paracalanus parvus, also make important contributions with strong seasonal variations.
5. Our results suggest that lower trophic level variables, if available, are valuable in the creation of species distribution models for marine organisms.

     

Connectivity,habitat, and flow regime influence fish assemblage structure: Implications for environmental water management in a perennial river of the wet–dry tropics of northern Australia

1. Environmental water management seeks to balance competing demands between the water needed to sustain human populations and their economic activities and that required to sustain functioning freshwater ecosystems and the species they support. It must be predicated on an understanding of the environmental, hydrological, and biological factors that determine the distribution and abundance of aquatic species.
2. The Daly River of the wet–dry tropics of northern Australia consists of a perennially flowing main stem and large tributaries, as well as many small to large naturally intermittent tributaries, and associated off‐channel wetlands. Increased groundwater abstraction to support irrigated agriculture during the dry season threatens to reduce dry‐season flows that maintain perenniality and persistence of freshwater fishes.
3. Fish assemblages were surveyed at 55 locations during the dry season over a 2‐year period with the goal of establishing the key landscape‐scale and local‐scale (i.e. habitat) drivers of fish species distribution.
4. Longitudinal (upstream/downstream) and lateral (river/floodplain) gradients in assemblage structure were observed with the latter dependent on the position in the river landscape. Underlying these gradients, stream flow intermittency influenced assemblage composition, species richness, and body size distributions. Natural constraints to dispersal were identified and their influence on assemblage structure was also dependent on position within the catchment.
5. Eight distinct assemblage types were identified, defined by differences in the abundance of species within five groups differing in functional traits describing body size, spawning requirements, and dispersal capacity. These functional groups largely comprised species widely distributed in northern Australia.
6. The results of the study are discussed with reference to the environmental flow needs of the Daly River and other rivers of northern Australia. The findings may also be applied to environmental flow management in savannah rivers elsewhere.

     

Heterogeneous reaction probabilities, solubilities, and the physical state of cold volcanic aerosols

On 19 January 1992, heterogeneous loss of HNO(3), ClNO(3), and HCl was observed in part of the Mount Pinatubo volcanic cloud that had cooled as a result of forced ascent. Portions of the volcanic cloud froze near 191 kelvin. The reaction probability of ClNO(3) and the solubility of HNO(3) were close to laboratory measurements on liquid sulfuric acid. The magnitude of the observed loss of HCl suggests that it underwent a heterogeneous reaction. Such reactions could lead to substantial loss of HCl on background sulfuric acid particles and so be important for polar ozone loss.     

Spectroscopic characterization of mineralogy and its diversity across Vesta

The mineralogy of Vesta, based on data obtained by the Dawn spacecraft's visible and infrared spectrometer, is consistent with howardite-eucrite-diogenite meteorites. There are considerable regional and local variations across the asteroid: Spectrally distinct regions include the south-polar Rheasilvia basin, which displays a higher diogenitic component, and equatorial regions, which show a higher eucritic component. The lithologic distribution indicates a deeper diogenitic crust, exposed after excavation by the impact that formed Rheasilvia, and an upper eucritic crust. Evidence for mineralogical stratigraphic layering is observed on crater walls and in ejecta. This is broadly consistent with magma-ocean models, but spectral variability highlights local variations, which suggests that the crust can be a complex assemblage of eucritic basalts and pyroxene cumulates. Overall, Vesta mineralogy indicates a complex magmatic evolution that led to a differentiated crust and mantle.     

Efficacy of a morantel sustained-release bolus for the control of gastrointestinal nematodes in Florida dairy heifers

The effectiveness of a morantel sustained-release bolus (MSRB) in controlling gastrointestinal nematode infections was determined in 70 Holstein heifer calves with no prior grazing experience. Calves were allotted to 2 treatment groups and were maintained in Florida during the grazing season on divided pastures of equal area. One MSRB was administered to each calf in 1 group at the time of turnout onto spring pasture, whereas calves in the other group remained as nonmedicated controls. By the end of the grazing season, treatment resulted in significantly (P less than 0.05) lower worm burdens and significantly improved weight gains. The MSRB-treated calves were able to reach breeding weight 2 to 4 weeks earlier than did nonmedicated calves.     

Phytoextraction Potential of Indian Mustard at Various Levels of Zinc Exposure

ABSTRACT

Indian mustard (Brassica juncea Czern.) has the potential to extract zinc (Zn) and other metals from contaminated soils, but the potential to accumulate metals at different levels of exposure is not well documented. The objectives of this research were to assess plant growth and Zn accumulation for different metal-accumulating accessions of Indian mustard grown with various Zn concentrations. In the experiment, three accessions of Indian mustard (426308, 182921, and 211000) were supplied with 12 levels of Zn (ranging from 0.0 to 7.0 mg L^?1) for three weeks in solution culture. Accession 426308 had a greater capacity for dry-mass accumulation than the others, but differences among accessions lessened as the concentration of Zn in solution increased. Accessions did not differ in Zn concentrations in shoots, but accession 426308 had a greater potential to accumulate Zn than the other accessions. Elevating the Zn supply in solutions had a limited effect on increasing the total Zn accumulation of shoots. Plants suffered Zn-induced iron (Fe) deficiency if the Zn concentration in solution exceeded 2.0 mg Zn L^?1. The level of Zn tolerance of Indian mustard accessions was: 211000 > 182921 > 426308. Maximum Zn accumulation in shoots was approximately 5.0 mg Zn per plant. The phytoextraction potential of Indian mustard may be limited under Zn-contaminated conditions by nutrient disorders and toxic effects of Zn that suppress growth.