The impact of forest management on litter-dwelling invertebrates: a subtropical–temperate contrast

Land use intensification in forests is a main driver of global biodiversity loss. Although historical state of land use differs between subtropical and temperate zones, gradients of land-use intensities similarly range from unmanaged to very intensively managed forests. Irrespective of similar land use forces in both climate zones, comparative studies on land use effects are still rare. Such studies are, however, promising in discovering more general impacts and geographical specifics of land use intensification. We studied litter-dwelling invertebrates along a gradient of increasing land use intensity in subtropical forests in Southern Brazil and temperate forests in Central Europe using similar sampling designs. Effects of land use intensity on the entire community were analyzed on the level of orders and feeding guilds. In both climate zones a similar number of individuals were caught when standardizes to 100 pitfall trap days, but taxa richness was higher in the subtropics. Moreover, community composition differed between both climate zones. In both regions, land use intensity did not affect taxa richness, but invertebrate abundance was affected in opposite ways; while increasing land use intensity resulted in a decrease of invertebrate abundance in the subtropics, an increase was observed in the temperate zone and this was mostly consistent regarding different feeding guilds. Management practices should take into account that the effect of land use intensity on biodiversity can differ drastically among climatic regions.     

A structural and functional perspective on the evolution of the heme–copper oxidases

The heme–copper oxidases (HCOs) catalyze the reduction of O₂ to water, and couple the free energy to proton pumping across the membrane. HCOs are divided into three sub-classes, A, B and C, whose order of emergence in evolution has been controversial. Here we have analyzed recent structural and functional data on HCOs and their homologues, the nitric oxide reductases (NORs). We suggest that the C-type oxidases are ancient enzymes that emerged from the NORs. In contrast, the A-type oxidases are the most advanced from both structural and functional viewpoints, which we interpret as evidence for having evolved later.     

The effects of tautomerization and protonation on the adenine–cytosine mismatches: a density functional theory study

In the present work, we demonstrate the results of a theoretical study concerned with the question how tautomerization and protonation of adenine affect the various properties of adenine–cytosine mismatches. The calculations, in gas phase and in water, are performed at B3LYP/6-311++G(d,p) level. In gas phase, it is observed that any tautomeric form of investigated mismatches is more stabilized when adenine is protonated. As for the neutral mismatches, the mismatches containing amino form of cytosine and imino form of protonated adenine are more stable. The role of aromaticity on the stability of tautomeric forms of mismatches is investigated by NICS(1)_ZZ index. The stability of mispairs decreases by going from gas phase to water. It can be explained using dipole moment parameter. The influence of hydrogen bonds on the stability of mismatches is examined by atoms in molecules and natural bond orbital analyses. In addition to geometrical parameters and binding energies, the study of the topological properties of electron charge density aids in better understanding of these mispairs.     

A mathematical model of tumour growth with Beddington–DeAngelis functional response: a case of cancer without disease

A previously published mathematical model, governing tumour growth with mixed immunotherapy and chemotherapy treatments, is modified and studied. The search time, which is assumed to be neglectable in the previously published model, is incorporated into the functional response for tumour-cell lysis by effector cells. The model exhibits bistability where a tumour-cell population threshold exists. A tumour with an initial cell population below the threshold can be controlled by the immune system and remains microscopic and asymptomatic called cancer without disease while that above the threshold grows to lethal size. Bifurcation analysis shows that (a) the chemotherapy-induced damage may cause a microscopic tumour, which would never grow to become lethal if untreated, to grow to lethal size, (b) applying chemotherapy alone requires a large dosage to be successful, (c) immunotherapy is ineffective, and (d) a combination of chemotherapy and immunotherapy can produce a synergistic effect on the outcome of a treatment.     

Fire modulates the effects of introduced ungulates on plant–insect interactions in a Patagonian temperate forest

Disturbances like biological invasions and fire may affect in unexpected ways plant-animal interactions. In northwestern Patagonia, introduced ungulates (cattle, horses and deers) are widespread and very common occupying more than 50% of forests and shrublands, widely affecting these habitats. In addition, fire play a major role in creating landscape patterns in this region. We evaluated whether fire modify the impacts of introduced ungulates on plant-animal interactions. In a mature forest (unburnt) and in an early post-fire area (burnt) we used structural equation modeling (SEM) to analyzed the impacts of introduced ungulates on insect herbivory, pollination and pre-dispersal seed predation on Berberis darwinii, one of the most common understory shrub of temperate forests. We found that the effects of cattle on pollination and fruit set depended on the habitat condition (i.e. unburnt or burnt). Introduced ungulates in unburnt forest decreased fruit set through a reduction on pollinator visits. Conversely, introduced ungulates in burnt forest increased pollinator visits and flower production without affecting fruit set. On the other hand, damage patterns (herbivory and fruit/seed predation) were unaffected by cattle in both forests types. Either, low browsing pressure or induction of plant defences may explain our results. This study illustrates how modifications on biotic and abiotic conditions produced by fire may affect in complex ways the effect of introduced ungulates on plant-animal interactions.     

Unraveling the molecular effects of mutation L270P on Wiskkot–Aldrich syndrome protein: insights from molecular dynamics approach

Missense mutation L270P disrupts the auto-inhibited state of “Wiskkot–Aldrich syndrome protein” (WASP), thereby constitutively activating the mutant structure, a key event for pathogenesis of X-linked neutropenia (XLN). In this study, we comprehensively deciphered the molecular feature of activated mutant structure by all atom molecular dynamics (MD) approach. MD analysis revealed that mutant structure exposed a wide variation in the spatial environment of atoms, resulting in enhanced residue flexibility. The increased flexibility of residues favored to decrease the number of intra-molecular hydrogen bonding interactions in mutant structure. The reduction of hydrogen bonds in the mutant structure resulted to disrupt the local folding of secondary structural elements that eventually affect the proper folding of mutants. The unfolded state of mutant structure established more number of inter-molecular hydrogen bonding interaction at interface level due to the conformational variability, thus mediated high binding affinity with its interacting partner, Cdc42.     

On the influence of tree size on the climate–growth relationship of New Zealand kauri (Agathis australis): insights from annual, monthly and daily growth patterns

Many tree-ring-based climate reconstructions are based on the assumption that the climate reaction of trees is independent of their size. Here, we test this assumption for New Zealand kauri (Agathis australis), one of the longest tree ring-based proxies for the El Niño-Southern Oscillation (ENSO). The most recent kauri chronology contains a large amount of archaeological material, e.g. timber for which the original tree size is often unknown. We analyzed the climate–growth relationship of different-sized kauri in a pristine forest using different temporal scales, i.e. annually, monthly and daily data on tree growth and climate conditions. Trees of different life stages exhibited approximately the same seasonal growth peaks during austral spring (October and November). The dormancy period overlaps with the period where weekly air temperature maxima are below ca. 17–18 °C, and where the corresponding daily minima are below ca. 8 °C. However, both correlation functions between annual growth and seasonal climate as well as Kalman filter regressions between daily growth and climate conditions suggest an influence of tree size on the climate–growth relationship for kauri. Smaller trees (DBH < 40 cm) contain weaker climate signals than larger trees. Therefore, the precautionary stripping of near-pith material (first 20 cm) from kauri chronologies may result in more uniform responses to climate forcing and thus enhance the reliability of long-term climate reconstructions.     

High-resolution structural insights on the sugar-recognition and fusion tag properties of a versatile β-trefoil lectin domain from the mushroom Laetiporus sulphureus

In this work, we analyzed at high resolution the sugar-binding mode of the recombinant N-terminal ricin-B domain of the hemolytic protein LSLa (LSL(150)) from the mushroom Laetiporus sulphureus and also provide functional in vitro evidence suggesting that, together with its putative receptor-binding role, this module may also increase the solubility of its membrane pore-forming partner. We first demonstrate that recombinant LSL(150) behaves as an autonomous folding unit and an active lectin. We have determined its crystal structure at 1.47?? resolution and also that of the [LSL(150):(lactose)β, γ)] binary complex at 1.67?? resolution. This complex reveals two lactose molecules bound to the β and γ sites of LSL(150), respectively. Isothermal titration calorimetry indicates that LSL(150) binds two lactoses in solution with highly different affinities. Also, we test the working hypothesis that LSL(150) exhibits in vivo properties typical of solubility tags. With this aim, we have fused an engineered version of LSL(150) (LSL(t)) to the N-terminal end of various recombinant proteins. All the designed LSL(150)-tagged fusion proteins were successfully produced at high yield, and furthermore, the target proteins were purified by a straightforward affinity procedure on agarose-based matrices due to the excellent properties of LSL(150) as an affinity tag. An optimized protocol for target protein purification was devised, which involved removal of the LSL(150) tag through in-column cleavage of the fusion proteins with His(6)-tagged TEV endoprotease. These results permitted to set up a novel, lectin-based system for production and purification of recombinant proteins in E. coli cells with attractive biotechnological applications.     

Assessing the effects of architectural variations on light partitioning within virtual wheat–pea mixtures

Background and Aims

Predicting light partitioning in crop mixtures is a critical step in improving the productivity of such complex systems, and light interception has been shown to be closely linked to plant architecture. The aim of the present work was to analyse the relationships between plant architecture and light partitioning within wheat–pea (Triticum aestivum–Pisum sativum) mixtures. An existing model for wheat was utilized and a new model for pea morphogenesis was developed. Both models were then used to assess the effects of architectural variations in light partitioning.

Methods

First, a deterministic model (L-Pea) was developed in order to obtain dynamic reconstructions of pea architecture. The L-Pea model is based on L-systems formalism and consists of modules for ‘vegetative development’ and ‘organ extension’. A tripartite simulator was then built up from pea and wheat models interfaced with a radiative transfer model. Architectural parameters from both plant models, selected on the basis of their contribution to leaf area index (LAI), height and leaf geometry, were then modified in order to generate contrasting architectures of wheat and pea.

Key results

By scaling down the analysis to the organ level, it could be shown that the number of branches/tillers and length of internodes significantly determined the partitioning of light within mixtures. Temporal relationships between light partitioning and the LAI and height of the different species showed that light capture was mainly related to the architectural traits involved in plant LAI during the early stages of development, and in plant height during the onset of interspecific competition.

Conclusions

In silico experiments enabled the study of the intrinsic effects of architectural parameters on the partitioning of light in crop mixtures of wheat and pea. The findings show that plant architecture is an important criterion for the identification/breeding of plant ideotypes, particularly with respect to light partitioning.     

The effects of stabilizing mutations in the central part of the α-chain of tropomyosin on the structural and functional properties of αβ-tropomyosin heterodimers

The effects of the D137L/G126R double mutation in the central part of the tropomyosin α-chain via the simultaneous replacement of two highly conserved non-canonical residues, viz., Asp137 and Gly126, by canonical residues Leu and Arg, respectively, on the properties of the αβ-tropomyosin heterodimer have been studied. It has been shown using circular dichroism that this mutation substantially increases the thermal stability of αβ-tropomyosin heterodimers, which, nevertheless, remains lower than that of αα-tropomyosin homodimers with these mutations in both α-chains. The stability of tropomyosin complexes with F-actin has also been studied by measuring the temperature dependences of their dissociation, which is detected by a decrease in light scattering. It has been revealed that αβ-tropomyosin heterodimers carrying the D137L/G126R mutation in the α-chain dissociate from the surface of actin filaments at a higher temperature than ββ-homodimers but at a lower temperature than αα-homodimers with these mutations in both α-chains. It has also been shown using the in vitro motility assay that D137L/G126R substitution in the α-chain increases the sliding velocity of regulated actin filaments in the case of αα-homodimers, while it noticeably decreases the velocity in the case of αβ-tropomyosin heterodimers. Thus, we can conclude that mutations in one of the chains of the tropomyosin dimeric molecule may have different effects on the properties of tropomyosin homodimers and heterodimers.     

The effects of reindeer grazing on the composition and species richness of vegetation in forest–tundra ecotone

We conducted an 8-year exclosure experiment (1999–2006) in a forest–tundra ecotonal area in northwestern Finnish Lapland to study the effects of reindeer grazing on vegetation in habitats of variable productivity and microhabitat structure. The experimental sites included tundra heath, frost heath and riparian habitats, and the two latter habitats were characterized by hummock-hollow ground forms. The total cover of vegetation, cover of willow (Salix spp.), dwarf birch (Betula nana), dwarf shrubs, forbs and grasses (Poaceae spp.) increased in exclosures in all habitats. The increase in the total cover of vegetation and in the covers of willow and dwarf birch tended to be greatest in the least productive tundra heath. Opposing to the increase in the dominant vascular plant groups, the cover and species number of bryophytes decreased in exclosures. We conclude that the effects of reindeer grazing on vegetation composition depend on environmental heterogeneity and the responses vary among plant groups. Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

Oxidative stress or redox signalling – new insights into the effects of a proprietary multifunctional botanical dietary supplement

Abstract

Recent interest has focused on maintenance of healthy levels of redox signalling and the related oxidants; these parameters are crucial for providing us with concrete nutritional targets that may help us to better understand and maintain “optimal health”. Following the above hypothesis, we performed a pilot double-blind, crossover, placebo-controlled, single dose study to measure the dose-dependent effects of a proprietary plant-based dietary supplement labelled here as S7 (SPECTRA7), related to how it affected the cellular metabolic index (CMI) in healthy human participants (n?=?8). We demonstrated using the electron spin resonance/electron paramagnetic resonance spectrometer NOXYSCAN that the administration S7 resulted in statistically significant, long-term, dose-dependent inhibition of mitochondrial and cellular reactive oxygen species generation by as much as 9.2 or 17.7% as well as 12.0 or 14.8% inhibition in extracellular nicotinamide-dinucleotide-phosphate oxidase system-dependent generation of O₂^??, and 9.5 or 44.5% inhibition of extracellular H₂O₂ formation. This was reflected with dose-dependent 13.4 or 17.6% inhibition of tumour necrosis factor alpha induced cellular inflammatory resistance and also 1.7 or 2.3-times increases of bioavailable NO concentration. In this pilot study, we demonstrated the ability of a natural supplement to affect cellular redox signalling, which is considered by many researchers as oxidative stress. The design and activity of this proprietary plant-based material, in combination with the newly developed “CMI” test, demonstrates the potential of using dietary supplements to modulate redox signalling. This opens the door to future research into the use of S7 for modulation of inflammatory markers, for sports endurance or recovery applications.     

Plant–soil feedback effects on the performance and functional traits of Dodonaea viscosa in a dry-hot valley,China

Plant–soil feedback has been widely studied and may be particularly important in resource-poor areas. However, the roles of direct and indirect biotic effect in affecting plant growth and functional traits in this process still remained unclear. The aim of this study was to explore the roles of soil biota in affecting plant performance and traits by conducting a two-phase feedback experiment in a dry-hot valley, with a conditioning phase during which there were Dodonaea viscosa or no D. viscosa growing in the soil and a feedback phase in which the effect of the conditioned soil biota on D. viscosa performance was measured. Soil N was reduced by the presence of D. viscosa during the conditioning phase. However, D. viscosa showed a positive plant–soil feedback. In the feedback phase, the D. viscosa-conditioned soil increased the stem diameter, total biomass, and leaf dry mass content of D. viscosa, while the specific leaf area was significantly lower in D. viscosa-conditioned soil than that in bare soil. In contrast, soil sterilization had a negative effect on the growth of D. viscosa, with a significant reduction in biomass, especially in D. viscosa-conditioned soil, and soil sterilization significantly increased the root:shoot biomass ratio and litter mass. Furthermore, we showed that although the biota-driven changes in enzyme activities correlated with leaf N and especially P amount, the enzyme activity was not the main reason to promote D. viscosa growth in conditioned soil. These results suggest that the positive biotic feedback effect was superior to the negative nutrient-depleted effect on D. viscosa growth, and the direct biotic feedback effect would drive the positive effect of soil biota to a greater extent than the indirect effect. The positive biotic plant–soil feedback in dry-hot valley plays an important role in ecosystem restoration and helps in understanding plant adaptation to the local environment in this area.

     

Assessing a decade of public health preparedness: progress on the precipice?

September 11 and the subsequent anthrax attacks marked the beginning of significant investment by the federal government to develop a national public health emergency response capability. Recognizing the importance of the public health sector's contribution to the burgeoning homeland security enterprise, this investment was intended to convey a "dual benefit" by strengthening the overall public health infrastructure while building preparedness capabilities. In many instances, federal funds were used successfully for preparedness activities. For example, electronic health information networks, a Strategic National Stockpile, and increased interagency cooperation have all contributed to creating a more robust and prepared enterprise. Additionally, the knowledge of rarely seen or forgotten pathogens has been regenerated through newly established public health learning consortia, which, too, have strengthened relationships between the practice and academic communities. Balancing traditional public health roles with new preparedness responsibilities heightened public health's visibility, but it also presented significant complexities, including expanded lines of reporting and unremitting inflows of new guidance documents. Currently, a rapidly diminishing public health infrastructure at the state and local levels as a result of federal budget cuts and a poor economy serve as significant barriers to sustaining these nascent federal public health preparedness efforts. Sustaining these improvements will require enhanced coordination, collaboration, and planning across the homeland security enterprise; an infusion of innovation and leadership; and sustained transformative investment for governmental public health.     

Toward the smallest active subdomain of a TIM-barrel fold: insights from a truncated α-amylase

AmyTM is a truncated mutant of the α-amylase of Bacillus stearothermophilus US100. It has been derived from the wild type amylase gene via a reading frame shift, following a tandem duplication of the mutant primer, associated to an Adenine base deletion. AmyTM was composed of 720 nucleotides encoding 240 amino acid residues out of 549 of the wild type. The AmyTM protein was devoided of the three catalytic residues but still retains catalytic activity. It is Ca-independent maltotetraose producing amylase, optimally active at pH 6 and 60 °C, under monomeric or multimeric forms.AmyTM is the smallest functional truncated TIM barrel. It contains the βαβα unit as the minimal subdomain associated to an enzymatic function. The enzymatic activity can, until now, be attributed to the presence of the whole domain B, in the structure of AmyTM. This mutant revealed, for the first time, the regeneration of a catalytic site after its abolition. This fact may be considered as the restoration of a primitive active site, which was lost in the course of evolution toward more stable domains.     

Migrants’ connections within and beyond borders: insights from the comparison of three categories of migrants in France

ABSTRACT

Since the mid-1990s, the concept of transnationalism has been increasingly used and discussed. Some authors have contested its novelty, arguing that all types of migrants, including internal ones, tend to remain connected to their home place. In this paper, we provide new quantitative evidence to show that migration, be it internal or international, entails a similar sort of connectedness between places. Using a nationally representative survey carried out in France (TeO, N?=?21,761), we systematically compare the transterritorial connections of international migrants, French migrants born abroad and French migrants born in overseas territories. Our findings show that all migrants maintain transborder ties, with particular intensity among French overseas migrants. Owing to border effects, oversenas migrants exhibit higher levels of sociopolitical and “re-migration” connections and are less engaged in economic relations. The results also show that transterritorial connections are affected by similar determinants across the three categories of migrants.