Relevance of the amino acid conversions L144R (Zaragoza) and L159P (Zavalla) in the apolipoprotein A-I binding site for haptoglobin

The high-density lipoprotein apolipoprotein A-I (ApoA-I) stimulates the enzyme lecithin-cholesterol acyltransferase (LCAT) in the reverse cholesterol transport pathway. Two ApoA-I variants, Zaragoza (L144R) and Zavalla (L159P), are associated with low levels of HDL-cholesterol but normal LCAT activity. Haptoglobin interacts with ApoA-I, impairing LCAT stimulation. Synthetic peptides matching the haptoglobin-binding site of native or variant ApoA-I (native, P2a; variants, Zav-pep and Zar-pep) bound haptoglobin with different activity: Zar-pep>P2a>Zav-pep. They also differently rescued LCAT in vitro activity in the presence of haptoglobin (P2a=Zar-pep>Zav-pep). Therefore, both amino acid conversions affect haptoglobin binding and LCAT regulation. We highlight the role of haptoglobin in LCAT regulation in subjects with ApoA-I variants.     

Effect of amino acid starvation on glucose transport in two archaeal organisms

When protein synthesis is arrested by amino acid starvation, Escherichia coli wild-type strains show stringent control (SC) over stable RNA (sRNA) accumulation as well as a large number of other growth-related processes. One of the events under SC is transport of metabolites. Thus, under amino acid starvation, E. coli fails to accumulate the non-metabolizable glucose analog alpha-methyl-D-glucoside, whereas isogenic relaxed strains continue to take up this glucose analog. Unlike the Bacteria, most wild-type archaeal strains show relaxed control of sRNA accumulation, although a number of stringent strains have been identified. In order to determine whether stringency in the Archaea affects physiological events different from sRNA accumulation, transport of glucose analogs was examined under amino acid starvation in two stringent archaeal strains, Haloferax volcanii and Sulfolobus acidocaldarius. The experiments were performed with 2-deoxy-D-glucose, which was shown to be transported, but metabolized very limitedly. Unlike E. coli, H. volcanii and S. acidocaldarius continued to transport 2-deoxy-D-glucose under amino acid starvation. Thus, in both Archaea glucose analog transport is not under SC, as it is in E. coli.     

Crystal structure of the Japanese encephalitis virus envelope protein

Japanese encephalitis virus (JEV) is the leading global cause of viral encephalitis. The JEV envelope protein (E) facilitates cellular attachment and membrane fusion and is the primary target of neutralizing antibodies. We have determined the 2.1-Å resolution crystal structure of the JEV E ectodomain refolded from bacterial inclusion bodies. The E protein possesses the three domains characteristic of flavivirus envelopes and epitope mapping of neutralizing antibodies onto the structure reveals determinants that correspond to the domain I lateral ridge, fusion loop, domain III lateral ridge, and domain I-II hinge. While monomeric in solution, JEV E assembles as an antiparallel dimer in the crystal lattice organized in a highly similar fashion as seen in cryo-electron microscopy models of mature flavivirus virions. The dimer interface, however, is remarkably small and lacks many of the domain II contacts observed in other flavivirus E homodimers. In addition, uniquely conserved histidines within the JEV serocomplex suggest that pH-mediated structural transitions may be aided by lateral interactions outside the dimer interface in the icosahedral virion. Our results suggest that variation in dimer structure and stability may significantly influence the assembly, receptor interaction, and uncoating of virions.     

The influence of stochasticity,landscape structure and species traits on abundant–centre relationships

Species have been commonly hypothesized to have high population densities in geographic areas which correspond to either the centre of the species geographic range or climatic niche (abundant–centre hypothesis). However, there is mixed empirical support for this relationship, and little theoretical underpinning. We simulate a species spreading across a set of replicated artificial landscapes to examine the expected level of support for abundant–centre relationships in geographic and niche space. Species niche constraints were modeled as a single axis which was related directly to population growth rates. We found strong evidence for abundant–centre relationships when populations follow deterministic growth, dispersal is high, environmental noise is absent and intraspecific competition is low. However, the incorporation of ecological realism reduced the detectability of abundant–centre relationships considerably. Our results suggest that even in carefully constructed artificial landscapes designed to demonstrate abundant–centre dynamics, the incorporation of small amounts of demographic stochasticity, environmental heterogeneity or landscape structure can strongly influence the relationship between species population density and distance to species geographic range or niche centre. While some simulated relationships were of comparable strength to common empirical support for abundant–centre relationships, our results suggest that these relationships are expected to be fairly variable and weak.     

Exploring co-extinction correlates: the effects of habitat,biogeography and anthropogenic factors on ground squirrels–dung beetles associations

Co-extinction is a recurring topic in conservation biology. Quantification of co-extinction has been generally restricted to parasite–host, predator–prey and herbivore–host plant interactions. The loss of detritivorous insects upon the depletion of herbivore mammals has been poorly explored. Here, we used rarefaction curves to predict co-decline involving the decrease in scarab dung beetles diversity due to a reduction in the number of dens of the Asia minor ground squirrel in the Turkish steppe biome. We also evaluated the potential benefits provided by livestock in mitigating the decline of scarab beetle communities. Rarefaction curves estimated that a 50% reduction in the number of sample units where squirrel faecal pellets are the only available food resource accounts for a reduction of 28% of all the scarab species, and of 24% of the squirrel-linked species. The current decline of ground squirrels, mainly due to intensification of agriculture, may represent a threat for biodiversity in steppic environments because it may affect the specialized insects, and may produce a cascade effect also on their predators, i.e., saker falcon, buzzards, eagles and mustelids. We also showed that the conservation of ground squirrels and their affiliate scarab species may be ensured by a moderate livestock grazing, owing to the higher ecological success of these rodents in the presence of large herbivores keeping low the grass cover.     

Assessment of environmental quality by the diversity of epiphytic lichens in a semi-arid mediterranean area (Val Basento, South Italy)

The results of a bioindication study based on the diversity of epiphytic lichens in a semi-arid area of South Italy are presented. The area features the presence of an industrial zone located in a rural context. The survey was performed in 20 sampling sites. The lichen diversity values (LDV) were determined by the frequencies of all lichen species within a sampling grid placed on tree trunks. Lichens demonstrated a condition of environmental alteration extending to the industrial zone, and tending towards a recovery in the rural surroundings. The survey also showed evidence of eutrophication all over the study area.     

Climate Dynamics: A Network-Based Approach for the Analysis of Global Precipitation

Precipitation is one of the most important meteorological variables for defining the climate dynamics, but the spatial patterns of precipitation have not been fully investigated yet. The complex network theory, which provides a robust tool to investigate the statistical interdependence of many interacting elements, is used here to analyze the spatial dynamics of annual precipitation over seventy years (1941–2010). The precipitation network is built associating a node to a geographical region, which has a temporal distribution of precipitation, and identifying possible links among nodes through the correlation function.The precipitation network reveals significant spatial variability with barely connected regions, as Eastern China and Japan, and highly connected regions, such as the African Sahel, Eastern Australia and, to a lesser extent, Northern Europe. Sahel and Eastern Australia are remarkably dry regions, where low amounts of rainfall are uniformly distributed on continental scales and small-scale extreme events are rare. As a consequence, the precipitation gradient is low, making these regions well connected on a large spatial scale. On the contrary, the Asiatic South-East is often reached by extreme events such as monsoons, tropical cyclones and heat waves, which can all contribute to reduce the correlation to the short-range scale only.Some patterns emerging between mid-latitude and tropical regions suggest a possible impact of the propagation of planetary waves on precipitation at a global scale. Other links can be qualitatively associated to the atmospheric and oceanic circulation. To analyze the sensitivity of the network to the physical closeness of the nodes, short-term connections are broken. The African Sahel, Eastern Australia and Northern Europe regions again appear as the supernodes of the network, confirming furthermore their long-range connection structure. Almost all North-American and Asian nodes vanish, revealing that extreme events can enhance high precipitation gradients, leading to a systematic absence of long-range patterns.