Plant species richness–productivity relationships in a low-productive boreal region

Local species richness–productivity (SR–P) relationship is usually reported as unimodal if long productivity gradients are sampled. However, it tends to be monotonically increasing in low-productive environments due to the decreasing part of the SR–P curve being truncated. Previous work indicated that this can hold true for forest herb layers, because of an upper bound on productivity caused mainly by canopy shading. Here, we ask whether the same pattern exists in a region with an upper bound on productivity caused by a harsh climate. We sampled herbaceous vegetation of boreal forests and grasslands in a low-productive region of central Yakutia (NE Siberia) with dry and winter-cool continental climate. We collected data on species composition, herb-layer productivity (aboveground herbaceous biomass), soil chemistry and light availability. We applied regression models to discriminate between monotonically increasing, decreasing and unimodal responses of herb-layer species richness to measured variables and analysed trends in the species-pool size and beta diversity along the productivity gradient. Our expectation of the monotonically increasing SR–P relationship was confirmed for neither forest herb layers nor grasslands. In the forest herb layers, no relationship was detected. In grasslands, the relationship was unimodal with species richness decline starting at much lower productivity levels than in more productive temperate grasslands. Potential causes for this decline are either limitation of local species richness by the species pool, which contains few species adapted to more productive habitats, or competitive exclusion, which can become an important control of species richness under lower levels of productivity than is the case in temperate grasslands.     

Irreversible prey diapause as an optimal strategy of a physiologically extended Lotka–Volterra model

We propose an optimal control framework to describe intra-seasonal predator–prey interactions, which are characterized by a continuous-time dynamical model comprising predator and prey density, as well as the energy budget of the prey over the length of a season. The model includes a time-dependent decision variable for the prey, representing the portion of the prey population in time that is active, as opposed to diapausing (a state of physiological rest). The predator follows autonomous dynamics and accordingly it remains active during the season. The proposed model is a generalization of the classical Lotka–Volterra predator–prey model towards non-autonomous dynamics that furthermore includes the effect of an energy variable. The model has been inspired by a specific biological system of predatory mites (Acari: Phytoseiidae) and prey mites (so-called fruit-tree red spider mites) (Acari: Tetranychidae) that feed on leaves of apple trees—its parameters have been instantiated based on laboratory and field studies. The goal of the work is to understand the decisions of the prey mites to enter diapause (a state of physiological rest) given the dynamics of the predatory mites: this is achieved by solving an optimization problem hinging on the maximization of the prey population contribution to the next season. The main features of the optimal strategy for the prey are shown to be that (1) once in diapause, the prey does not become active again within the same season and hence diapause is an irreversible process; (2) for the vast majority of parameter space, the portion of prey individuals entering diapause within the season does not decrease in time; (3) with an increased number of predators, the optimal population strategy for the prey is to start diapause earlier and to enter diapause more gradually. This optimal population strategy will be studied for its ESS properties in a sequel to the work presented in this article.     

Chlorophyll a fluorescence as a tool for a study of the Potato virus Y effects on photosynthesis of nontransgenic and transgenic Pssu-ipt tobacco

The effect of Potato virus Y ^NTN (PVY) infection upon photosynthesis was analysed in transgenic Pssu-ipt tobacco overproducing endogenous cytokinins in comparison with control, nontransgenic Nicotiana tabacum plants. The course of the infection from the early to the late stage was monitored by measuring of photosynthetic gas exchange and fast chlorophyll (Chl) a fluorescence induction kinetics. Leaf photosynthesis was also analysed using Chl fluorescence imaging (Chl-FI). From the different fluorescence parameters obtained using Chl-FI, the nonphotochemical quenching (NPQ) proved to be the most useful parameter to assess the effect of PVY infection. On the other hand, Chl-FI was found to be inapplicable for any presymptomatic detection of PVY infection in tobacco. The lower accumulation of the virus was found in transgenic plants and corresponded also with the presence of visible symptoms of PVY infection. The net photosynthetic rate (P _N), transpiration rate (E), and stomatal conductance (g _s) significantly decreased with the progress of the infection in both control plant types and transgenic rooted plants, while transgenic grafts were much less affected. The analysis of the Chl fluorescence transient revealed higher number of silent dissipative reaction centres, higher nonphotochemical dissipation, and significantly lower performance index, PI_(abs), in the healthy transgenic grafts. Chl-FI also confirmed significantly higher NPQ in transgenic grafts.     

Nonplanar DNA Base Pairs

Abstract

Three-dimensional structures of a representative set of more than 30 hydrogen-bonded nucleic acids base pairs have been studied by reliable ab initio quantum mechanical methods. We show that many hydrogen-bonded nucleic acid base pairs are intrinsically nonplanar, mainly due to the partial sp³ hybridization of nitrogen atoms of their amino groups and secondary electrostatic interactions. This finding extends the variability of intermolecular interactions of DNA bases in that i) flexibility of the base pairs is larger than has been assumed before, and ii) attractive proton-proton acceptor interactions oriented out of the base pair plane are allowed. For example, all four G…A mismatch base pairs are propeller twisted, and the energy preferences for the nonplanar structures range from less than 0.1 kcal/mol to 1.8 kcal/mol. We predict that nonplanarity of the amino group of guanine in the G(anti)…A(anti) pair of the ApG step of the d(CCAAGATTGG)₂ crystal structure is an important stabilizing factor that improves the energy of this structure by almost 3 kcal/mol. Currently used empirical potentials are not accurate enough to properly cover the interactions associated with amino-group and base-pair nonplanarity.     

Dynamics and Binding Modes of Free cdk2 and its Two Complexes with Inhibitors Studied by Computer Simulations

Abstract

This article presents a molecular dynamics (MD) study of the cdk2 enzyme and its two complexes with the inhibitors isopentenyladenine and roscovitine using the Cornell et al. force field from the AMBER software package. The results show that inserting an inhibitor into the enzyme active site does not considerably change enzyme structure but it seemingly changes the distribution of internal motions. The inhibitor causes differences in the domain motions in free cdk2 and in its complexes. It was found out that repulsion of roscovitine N9 substituent causes conformational change on Lys 33 side chain. Isopentenyladenine forms with Lys 33 side chain terminal amino group a hydrogen bond. It implies that the cavity, where N9 substituent of roscovitine is buried, can adopt larger substituent due to Lys 33 side chain flexibility. The composition of electrostatic and van der Waals interactions between the inhibitor and the enzyme were also calculated along both cdk2/inhibitor MD trajectories together with MM-PB/GBSA analysis. These results show that isopentenyladenine-like inhibitors could be more effective after modifications leading to an increase in their van der Waals contact with the enzyme. We suggest that a way leading to better inhibitors occupying isopentenyladenine binding mode could be: to keep N9 and N7 purine positions free, to keep 3,3-dimethylallylamino group at C6 position, and to add, e.g., benzylamino group at C2 position. The results support the idea that the isopentenyladenine binding mode can be used for cdk2 inhibitors design and that all possibilities to improve this binding mode were not uncovered yet.     

Description of the larvae of Dicronocephalus wallichi bourgoini Coleoptera: Scarabaeidae: Cetoniinae) with observations on nesting behavior and life cycle of two Dicronocephalus species under laboratory conditions

Larva of the fruit beetle Dicronocephalus wallichi bourgoini Pouillaude 1914 is described and illustrated. The following unique morphological characters within Cetoniinae are discussed: shape of claw, spindle-shaped last antennomera, general body shape. The presence of metathoracic egg-bursters in the first instar larva has been found. Its significance for distinguishing the first instar larvae of Cetoniinae is discussed. The nesting behaviours of D. wallichi bourgoini and D. adamsi(Pascoe 1863) are described. The course of the life cycle of both species under laboratory condition is presented and discussed.     

Nitrogen, organic carbon and sulphur cycling in terrestrial ecosystems: linking nitrogen saturation to carbon limitation of soil microbial processes

Elevated and chronic nitrogen (N) deposition to N-limited terrestrial ecosystems can lead to ‘N saturation’, with resultant ecosystem damage and leaching of nitrate (NO₃ ^?) to surface waters. Present-day N deposition, however, is often a poor predictor of NO₃ ^? leaching, and the pathway of the ecosystem transition from N-limited to N-saturated remains incompletely understood. The dynamics of N cycling are intimately linked to the associated carbon (C) and sulphur (S) cycles. We hypothesize that N saturation is associated with shifts in the microbial community, manifest by a decrease in the fungi-to-bacteria ratio and a transition from N to C limitation. Three mechanisms could lead to lower amount of bioavailable dissolved organic C (DOC) for the microbial community and to C limitation of N-rich systems: (1) Increased abundance of N for plant uptake, causing lower C allocation to plant roots; (2) chemical suppression of DOC solubility by soil acidification; and (3) enhanced mineralisation of DOC due to increased abundance of electron acceptors in the form of ${{\text{SO}}_{ 4}}^{ 2-}$ SO 4 2 ? and NO₃ ^? in anoxic soil micro-sites. Here we consider each of these mechanisms, the extent to which their hypothesised impacts are consistent with observations from intensively-monitored sites, and the potential to improve biogeochemical models by incorporating mechanistic links to the C and S cycles.     

The impact of vegetation characteristics and prey availability on breeding habitat use and diet of Little Owls Athene noctua in Central European farmland

Capsule Foraging habitats are determined by vegetation characteristics rather than the availability of insect prey.

Aims To determine the diet composition of Little Owls in relation to the availability of insects at foraging sites, and to elucidate the main factors determining the owls’ habitat choice.

Methods The feeding ecology of Little Owls was studied during the 2002 breeding season in the agricultural landscape of western Bohemia (Czech Republic), where its population is in decline. Diet composition was determined by pellet analysis. Insect availability was studied using pitfall traps in the two most important Little Owl foraging habitats. For both habitats, we assessed the main vegetative characteristics (average and maximum vegetation height, vegetation density).

Results Based on number, insects were the most dominant prey, followed by small mammals; based on weight, insects comprised only a minor part of the diet. Among insect prey, Carabidae beetles were the most abundant. The proportion of insect numbers was strongly positively correlated with advancing day of the season and negatively correlated with the proportion of vertebrates. Although the highest densities of Carabidae were found in cornfields Little Owls significantly preferred grassland habitats, probably because of the lower vegetation cover.

Conclusions The availability of short sward vegetation in grassland habitats during the breeding season may play a key role in the conservation of Little Owls in central European farmland.