Louisiana's Oysters, America's Wetlands, and the Storms of 2005

When Katrina made landfall near Empire, Louisiana's "oyster capital," it devastated the public and private oyster grounds of Plaquemines and St. Bernard parishes. Rita followed with similar damage in parishes to the west of the Mississippi River. These storms thus struck at a core of Louisiana's maritime heritage. Much attention has focused on the physical and social destruction these events have caused in New Orleans and on the failures of the public response efforts. Social scientists are in a position to assess such damages and to critique this collective failure of response. In this article, I seek to contribute to a parallel assessment of the potential of the oyster industry to recover from the storms of 2005, after a decade of substantial diminishment in political and economic power and public support.     

Gerometabolites: The pseudohypoxic aging side of cancer oncometabolites

Oncometabolites are defined as small-molecule components (or enantiomers) of normal metabolism whose accumulation causes signaling dysregulation to establish a milieu that initiates carcinogenesis. In a similar manner, we propose the term “gerometabolites” to refer to small-molecule components of normal metabolism whose depletion causes signaling dysregulation to establish a milieu that drives aging. In an investigation of the pathogenic activities of the currently recognized oncometabolites R(-)-2-hydroxyglutarate (2-HG), fumarate, and succinate, which accumulate due to mutations in isocitrate dehydrogenases (IDH), fumarate hydratase (FH), and succinate dehydrogenase (SDH), respectively, we illustrate the fact that metabolic pseudohypoxia, the accumulation of hypoxia-inducible factor (HIFα) under normoxic conditions, and the subsequent Warburg-like reprogramming that shifts glucose metabolism from the oxidative pathway to aerobic glycolysis are the same mechanisms through which the decline of the “gerometabolite” nicotinamide adenine dinucleotide (NAD)⁺ reversibly disrupts nuclear–mitochondrial communication and contributes to the decline in mitochondrial function with age. From an evolutionary perspective, it is reasonable to view NAD⁺-driven mitochondrial homeostasis as a conserved response to changes in energy supplies and oxygen levels. Similarly, the natural ability of 2-HG to significantly alter epigenetics might reflect an evolutionarily ancient role of certain metabolites to signal for elevated glutamine/glutamate metabolism and/or oxygen deficiency. However, when chronically altered, these responses become conserved causes of aging and cancer. Because HIFα-driven pseudohypoxia might drive the overproduction of 2-HG, the intriguing possibility exists that the decline of gerometabolites such as NAD⁺ could promote the chronic accumulation of oncometabolites in normal cells during aging. If the sole activation of a Warburg-like metabolic reprogramming in normal tissues might be able to significantly increase the endogenous production of bona fide etiological determinants in cancer, such as oncometabolites, this undesirable trade-off between mitochondrial dysfunction and activation of oncometabolites production might then pave the way for the epigenetic initiation of carcinogenesis in a strictly metabolic-dependent manner. Perhaps it is time to definitely adopt the view that aging and aging diseases including cancer are governed by a pivotal regulatory role of metabolic reprogramming in cell fate decisions.     

Influence of simulated climate change and eutrophication on three‐spined stickleback populations: a large scale mesocosm experiment

1. Shallow lakes and their ectothermic inhabitants are particularly vulnerable to the effects of climatic warming. These impacts are likely to depend on nutrient loading, especially if the combination of warming and eutrophication leads to severe hypoxia. 2. To investigate effects of realistic warming and nutrient loading on a fish species with high tolerance of warming and hypoxia, we observed population changes and timing of reproduction of three‐spined sticklebacks in 24 outdoor shallow freshwater ecosystems with combinations of temperature (ambient and ambient +4 °C) and three nutrient treatments over 16 months. 3. Warming reduced stickleback population biomass by 60% (population size by 76%) and nutrient‐addition reduced biomass by about 80% (population size 95%). Nutrients and warming together resulted in extinction of the stickleback populations. These losses were mainly attributed to the increased likelihood of severe hypoxia in heated and nutrient‐addition mesocosms. 4. Warming of nutrient‐rich waters can thus have dire consequences for freshwater ectotherm populations. The loss even of a hardy fish suggests a precarious future for many less tolerant species in such eutrophic systems under current climate change predictions.     

Sex combs,allometry, and asymmetry in Drosophila

There has been recent debate about the expected allometry of sexually‐selected traits. Although sexually‐selected traits exhibit a diversity of allometric patterns, signalling characters are frequently positively allometric. By contrast, insect genitalia tend to be negatively allometric, although the allometry of nongenital sexually‐selected characters in insects is largely unknown (with some notable exceptions). It has also been suggested that there should be a negative association between the asymmetry and size of bilaterally‐paired, sexually‐selected traits, although this claim is controversial. We assessed the allometry and asymmetry (fluctuating asymmetry, FA) of a nongenital contact–courtship structure, the sex comb, in replicate populations of three species of Drosophila (we also measured wing FA). Sex combs are sexually‐selected characters used to grasp the female's abdomen and genitalia and to spread her wings prior to and during copulation. Although species differed in the size of the sex combs, all combs were positively allometric, and comb allometry did not generally differ significantly between species or populations. Comb and wing asymmetry did vary across species, although not across populations of the same species. However, FA was trait specific and was never negatively associated with trait size. © 2011 The Linnean Society of London, Biological Journal of the Linnean Society, 2011, 103 , 923–934.     

The ecological significance of exchange processes between rivers and groundwater

1. This review focuses on the connectivity between river and groundwater ecosystems, viewing them as linked components of a hydrological continuum. Ecological processes that maintain the integrity of both systems and those that are mediated by their ecotones are evaluated. 2. The hyporheic zone, as the connecting ecotone, shows diverse gradients. Thus it can be characterized by hydrological, chemical, zoological and metabolic criteria. However, the characteristics of the hyporheic zone tend to vary widely in space and time as well as from system to system. The exact limits are difficult to designate and the construction of static concepts is inadequate for the representation of ecological processes. The hyporheic interstices are functionally a part of both the fluvial and groundwater ecosystems. 3. The permeability of the ecotone depends on the hydraulic conductivity of the sediment layers which, because of their heterogeneity, form many flowpath connections between the stream and the catchment, from the small scale of a single microhabitat to the large scale of an entire alluvial aquifer. Local up- and downwellings are determined by geomorphologic features such as streambed topography, whereas large-scale exchange processes are determined mainly by the geological properties of the catchment. Colmation—clogging of the top layer of the channel sediments—includes all processes leading to a reduction of pore volume, consolidation of the sediment matrix, and decreased permeability of the stream bed. Consequently, colmation can hinder exchange processes between surface water and groundwater. 4. Physicochemical gradients in the interstices result from several processes: (i) hyporheic flow pattern and the different properties of surface and groundwaters; (ii) retention, caused by the filtering effect of pore size and lithologic sorption as well as the transient storage of solutes caused by diminished water velocities; (iii) biogeochemical transformations in conjunction with local residence time. Each physicochemical parameter may develop its own vertical dynamics laterally from the active channel into the banks as well as longitudinally because of geomorphologic changes. 5. The river–groundwater interface can act as a source or sink for dissolved organic matter, depending on the volume and direction of flow, dissolved organic carbon concentrations and biotic activity. Interstitial storage of particulate organic matter is influenced mainly by grain size distribution and by spates involving bedload movement that may import or release matter, depending on the season. After initial transient and abiotic storage, hyporheic organic matter is mobilized and transformed by the biota. Micro-organisms account for over 90% of the community respiration. In subterranean waters most bacteria are attached to surfaces and remain in a biofilm. 6. Hyporheic interstices are functionally significant for phreatic and riverine metazoans because they act as a refuge against adverse conditions. The net flow direction exerts a dominant influence on interstitial colonization, but many other factors also seem to be important in structuring the hyporheos. 7. The hyporheic corridor concept emphasizes connectivity and interactions between subterranean and surface flow on an ecosystem level for floodplain rivers. It is a complementary concept to others which focus on surficial processes in the lateral and longitudinal dimensions. 8. The ecological integrity of groundwater and fluvial systems is often threatened by human activities: (i) by reducing connectivity; (ii) by altering exchange processes; and (iii) by toxic or organic contamination.     

Warming promotes cold-adapted phytoplankton in temperate lakes and opens a loophole for Oscillatoriales in spring

The effects of the recent warming trend in many northern temperate lakes on the species composition of spring phytoplankton remain poorly understood, especially because a recent change in nutrients has complicated efforts, and previous studies have defined spring according to the calendar. We analysed data from 1979 to 2004 from Lake Müggelsee (Berlin, Germany), using physical and biological parameters to define the spring period. We show that a change in timing of spring plankton events in warm years led to the paradox of lower mean water temperatures during the growth period, favouring cold-adapted diatoms over cyanobacteria, and within the diatoms, some cold-adapted centric forms over pennate forms. Under high P : Si ratios, the increased time between phytoplankton and cladoceran peaks opened a loophole for filamentous cyanobacteria (Oscillatoriales) in warm years to establish dominance after the diatoms, which are silicate limited. Therefore, the warming trend promotes filamentous cyanobacteria, a well-known nuisance in eutrophic lakes, and surprisingly, cold-adapted diatoms.     

A select panel of polymorphic microsatellite loci for individual identification of snow leopards (Panthera uncia)

Snow leopards (Panthera uncia) are elusive endangered carnivores found in remote mountain regions of Central Asia. New methods for identifying and counting snow leopards are needed for conservation and management efforts. To develop molecular genetic tools for individual identification of hair and faecal samples, we screened 50 microsatellite loci developed for the domestic cat (Felis catus) in 19 captive snow leopards. Forty‐eight loci were polymorphic with numbers of alleles per locus ranging from two to 11. The probability of observing matching genotypes for unrelated individuals (2.1 × 10^?11) and siblings (7.5 × 10^?5) using the 10 most polymorphic loci was low, suggesting that this panel would easily discriminate among individuals in the wild.     

Missing methane emissions from leaves of terrestrial plants

The controversial claim that attached leaves of terrestrial plants emit CH₄ aerobically remains to be corroborated. Here, we report CH₄ fluxes and CO₂ exchange rates for leaves of the C₄ species Zea mays using a high-accuracy traceable online analytical system. In contrast to earlier results for Z. mays , our measurements provide no evidence for substantial aerobic CH₄ emissions from photosynthesizing leaves illuminated with photosynthetically active radiation ( λ =400–700 nm), or from dark-respiring leaves. Preliminary measurements with the same system indicated a similar lack of aerobic CH₄ emissions in the light or dark from leaves of the C₃ species Nicotiana tabacum . These findings are supported by independent high-precision ¹³C-labeling studies that also failed to confirm substantial aerobic CH₄ emissions from plants. Nevertheless, we are not able to exclude the possibility that CH₄ emissions from plants may be linked to nonenzymatic processes with an action spectrum lying outside the wavelength range for photosynthesis.     

Extensive expression regulation and lack of heterologous enzymatic activity of the Class II trehalose metabolism proteins from Arabidopsis thaliana

Trehalose metabolism has profound effects on plant growth and metabolism, but the mechanisms involved are unclear. In Arabidopsis , 21 putative trehalose biosynthesis genes are classified in three subfamilies based on their similarity with yeast TPS1 (encoding a trehalose-6-phosphate synthase, TPS) or TPS2 (encoding a trehalose-6-phosphate phosphatase, TPP). Although TPS1 (Class I) and TPPA and TPPB (Class III) proteins have established TPS and TPP activity, respectively, the function of the Class II proteins (AtTPS5-AtTPS11) remains elusive. A complete set of promoter- β -glucurinidase/green fluorescent protein reporters demonstrates their remarkably differential tissue-specific expression and responsiveness to carbon availability and hormones. Heterologous expression in yeast furthermore suggests that none of the encoded enzymes displays significant TPS or TPP activity, consistent with a regulatory rather than metabolic function for this remarkable class of proteins.     

Phylogenetic diversity of Sri Lankan freshwater crabs and its implications for conservation

As part of a Global Biodiversity Hotspot, the conservation of Sri Lanka's endemic biodiversity warrants special attention. With 51 species (50 of them endemic) occurring in the island, the biodiversity of freshwater crabs is unusually high for such a small area (65 600 km²). Freshwater crabs have successfully colonized most moist habitats and all climatic and elevational zones in Sri Lanka. We assessed the biodiversity of these crabs in relation to the different elevational zones (lowland, upland and highland) based on both species richness and phylogenetic diversity. Three different lineages appear to have radiated simultaneously, each within a specific elevational zone, with little interchange thereafter. The lowland and upland zones show a higher species richness than the highland zone while – unexpectedly – phylogenetic diversity is highest in the lowland zone, illustrating the importance of considering both these measures in conservation planning. The diversity indices for the species in the various IUCN Red List categories in each of the three zones suggest that risk of extinction may be related to elevational zone. Our results also show that overall more than 50% of Sri Lanka's freshwater crab species (including several as yet undescribed ones), or approximately 72 million years of evolutionary history, are threatened with extinction.