Crossing the threshold: Invasive grasses inhibit forest restoration on Hawaiian islands.

Forest removal for livestock grazing is a striking example of human-caused state change leading to a stable, undesirable invasive grass system that is resistant to restoration efforts. Understanding which factors lead to resilience to the alternative grass state can greatly benefit managers when planning forest restoration. We address how thresholds of grass cover and seed rain might influence forest recovery in a restoration project on Hawai'i Island, USA.

Can the impact of canopy trees on soil and understory be altered using litter additions?

Trees can have large effects on soil nutrients in ways that alter succession, particularly in the case of nitrogen-(N)-fixing trees. In Hawai'i, forest restoration relies heavily on use of a native N-fixing tree, Acacia koa (koa), but this species increases soil-available N and likely facilitates competitive dominance of exotic pasture grasses. In contrast, Metrosideros polymorpha ('ōhi'a), the dominant native tree in Hawai'i, is less often planted because it is slow growing; yet it is typically associated with lower soil N and grass biomass, and greater native understory recruitment.

Polar Ocean Observations: A Critical Gap in the Observing System and Its Effect on Environmental Predictions From Hours to a Season.

There is a growing need for operational oceanographic predictions in both the Arctic and Antarctic polar regions. In the former, this is driven by a declining ice cover accompanied by an increase in maritime traffic and exploitation of marine resources. Oceanographic predictions in the Antarctic are also important, both to support Antarctic operations and also to help elucidate processes governing sea ice and ice shelf stability.

Animal movement drives variation in seed dispersal distance in a plant-animal network.

Frugivores play differing roles in shaping dispersal patterns yet seed dispersal distance is rarely quantified across entire communities. We model seed dispersal distance using gut passage times and bird movement for the majority (39 interactions) of known bird-tree interactions on the island of Saipan to highlight differences in seed dispersal distances provided by the five avian frugivores. One bird species was found to be a seed predator rather than a disperser.

A multi-method autonomous assessment of primary productivity and export efficiency in the springtime North Atlantic.

Fixation of organic carbon by phytoplankton is the foundation of nearly all open-ocean ecosystems and a critical part of the global carbon cycle. But quantification and validation of ocean primary productivity at large scale remains a major challenge, due to limited coverage of ship-based measurements and the difficulty of validating diverse measurement techniques. Accurate primary productivity measurements from autonomous platforms would be highly desirable, due to much greater potential coverage.

Seedling transplants reveal species-specific responses of high-elevation tropical treeline trees to climate change.

The elevations at which tropical treelines occur are believed to represent the point where low mean temperatures limit the growth of upright woody trees. Consequently, tropical treelines are predicted to shift to higher elevations with global warming. However, treelines throughout the tropics have remained stationary despite increasing global mean temperatures.

Losing your edge: climate change and the conservation value of range-edge populations.

Populations occurring at species' range edges can be locally adapted to unique environmental conditions. From a species' perspective, range-edge environments generally have higher severity and frequency of extreme climatic events relative to the range core. Under future climates, extreme climatic events are predicted to become increasingly important in defining species' distributions.

Freezing temperatures as a limit to forest recruitment above tropical Andean treelines.

The elevation of altitudinal treelines is generally believed to occur where low mean temperatures during the growing season limit growth and prevent trees from establishing at higher elevations. Accordingly, treelines should move upslope with increasing global temperatures. Contrary to this prediction, tropical treelines have remained stable over the past several decades despite increasing mean temperatures.

Comparative analysis of regulatory information and circuits across distant species.

Despite the large evolutionary distances between metazoan species, they can show remarkable commonalities in their biology, and this has helped to establish fly and worm as model organisms for human biology. Although studies of individual elements and factors have explored similarities in gene regulation, a large-scale comparative analysis of basic principles of transcriptional regulatory features is lacking. Here we map the genome-wide binding locations of 165 human, 93 worm and 52 fly transcription regulatory factors, generating a total of 1,019 data sets from diverse cell types, developmental stages, or conditions in the three species, of which 498 (48.

Diverse patterns of genomic targeting by transcriptional regulators in Drosophila melanogaster.

Annotation of regulatory elements and identification of the transcription-related factors (TRFs) targeting these elements are key steps in understanding how cells interpret their genetic blueprint and their environment during development, and how that process goes awry in the case of disease. One goal of the modENCODE (model organism ENCyclopedia of DNA Elements) Project is to survey a diverse sampling of TRFs, both DNA-binding and non-DNA-binding factors, to provide a framework for the subsequent study of the mechanisms by which transcriptional regulators target the genome. Here we provide an updated map of the Drosophila melanogaster regulatory genome based on the location of 84 TRFs at various stages of development.

Estimation of hyperspectral inherent optical properties from in-water radiometry: error analysis and application to in situ data.

An inverse algorithm is developed to retrieve hyperspectral absorption and backscattering coefficients from measurements of hyperspectral upwelling radiance and downwelling irradiance in vertically homogeneous waters. The forward model is the azimuthally averaged radiative transfer equation, efficiently solved by the EcoLight radiative transfer model, which includes the effects of inelastic scattering. Although this inversion problem is ill posed (the solution is ambiguous for retrieval of total scattering coefficients), unique and stable solutions can be found for absorption and backscattering coefficients.

Inherent optical property estimation in deep waters.

We develop two algorithms for determining two inherent optical properties (IOPs) from radiometric measurements in vertically homogeneous waters. The first algorithm is for estimation of the ratio of the backscattering to absorption coefficients from measurements of only the vertically upward radiance and the downward planar irradiance at depths where the light field is in the asymptotic regime. The second algorithm enables estimation of the absorption coefficient from measurement of the diffuse attenuation coefficient in the asymptotic regime after use of the first algorithm.

Recovery of DNA sequences flanking P-element insertions in Drosophila: inverse PCR and plasmid rescue.

The Drosophila melanogaster P-transposable element is a powerful and widely used research tool. Sequences flanking the P-element can be recovered and the site of insertion can be mapped to the nucleotide, to connect the genetic and physical maps and facilitate molecular analysis of the gene of interest. The Berkeley Drosophila Genome Project (BDGP) has assembled a well-characterized collection of lethal mutations induced by single P-element insertions generated by a number of laboratories.

Quick preparation of genomic DNA from Drosophila.

This protocol describes a standard miniprep for Drosophila melanogaster that requires very few flies and produces high-quality DNA. This method can also be used to isolate RNA when RNase-free conditions are utilized; an extra step must be taken to rid the sample of genomic DNA (e.g.

In situ hybridization of labeled RNA probes to fixed Parhyale hawaiensis embryos.

The great diversity of arthropod body plans, together with our detailed understanding of fruit fly development, makes arthropods a premier taxon for examining the evolutionary diversification of developmental patterns and hence the diversity of extant life. Crustaceans, in particular, show a remarkable range of morphologies and provide a useful outgroup to the insects. The amphipod crustacean Parhyale hawaiensis is becoming established as a model organism for developmental studies within the arthropods.

Antibody staining of Parhyale hawaiensis embryos.

The great diversity of arthropod body plans, together with our detailed understanding of fruit fly development, makes arthropods a premier taxon for examining the evolutionary diversification of developmental patterns and hence the diversity of extant life. Crustaceans, in particular, show a remarkable range of morphologies and provide a useful outgroup to the insects. The amphipod crustacean Parhyale hawaiensis is becoming established as a model organism for developmental studies within the arthropods.

Injection of Parhyale hawaiensis blastomeres with fluorescently labeled tracers.

The great diversity of arthropod body plans, together with our detailed understanding of fruit fly development, makes arthropods a premier taxon for examining the evolutionary diversification of developmental patterns and hence the diversity of extant life. Crustaceans, in particular, show a remarkable range of morphologies and provide a useful outgroup to the insects. The amphipod crustacean Parhyale hawaiensis is becoming established as a model organism for developmental studies within the arthropods.

Fixation and dissection of Parhyale hawaiensis embryos.

The great diversity of arthropod body plans, together with our detailed understanding of fruit fly development, makes arthropods a premier taxon for examining the evolutionary diversification of developmental patterns and hence the diversity of extant life. Crustaceans, in particular, show a remarkable range of morphologies and provide a useful outgroup to the insects. The amphipod crustacean Parhyale hawaiensis is becoming established as a model organism for developmental studies within the arthropods.

The crustacean Parhyale hawaiensis: a new model for arthropod development.

The great diversity of arthropod body plans, together with our detailed understanding of fruit fly development, makes arthropods a premier taxon for examining the evolutionary diversification of developmental patterns and hence the diversity of extant life. Crustaceans, in particular, show a remarkable range of morphologies and provide a useful outgroup to the insects. The amphipod crustacean Parhyale hawaiensis is becoming established as a model organism for developmental studies within the arthropods.

Phytoplankton calcification in a high-CO2 world.

Ocean acidification in response to rising atmospheric CO2 partial pressures is widely expected to reduce calcification by marine organisms. From the mid-Mesozoic, coccolithophores have been major calcium carbonate producers in the world's oceans, today accounting for about a third of the total marine CaCO3 production. Here, we present laboratory evidence that calcification and net primary production in the coccolithophore species Emiliania huxleyi are significantly increased by high CO2 partial pressures.

sidestep encodes a target-derived attractant essential for motor axon guidance in Drosophila.

At specific choice points in the periphery, subsets of motor axons defasciculate from other axons in the motor nerves and steer into their muscle target regions. Using a large-scale genetic screen in Drosophila, we identified the sidestep (side) gene as essential for motor axons to leave the motor nerves and enter their muscle targets. side encodes a target-derived transmembrane protein (Side) that is a novel member of the immunoglobulin superfamily (IgSF).