Plant genetics: gene transfer from parasitic to host plants

Plant mitochondrial genes are transmitted horizontally across mating barriers with surprising frequency, but the mechanism of transfer is unclear. Here we describe two new cases of horizontal gene transfer, from parasitic flowering plants to their host flowering plants, and present phylogenetic and biogeographic evidence that this occurred as a result of direct physical contact between the two. Our findings complement the discovery that genes can be transferred in the opposite direction, from host to parasite plant.     

Correlation between neural spike trains increases with firing rate

Populations of neurons in the retina, olfactory system, visual and somatosensory thalamus, and several cortical regions show temporal correlation between the discharge times of their action potentials (spike trains). Correlated firing has been linked to stimulus encoding, attention, stimulus discrimination, and motor behaviour. Nevertheless, the mechanisms underlying correlated spiking are poorly understood, and its coding implications are still debated. It is not clear, for instance, whether correlations between the discharges of two neurons are determined solely by the correlation between their afferent currents, or whether they also depend on the mean and variance of the input. We addressed this question by computing the spike train correlation coefficient of unconnected pairs of in vitro cortical neurons receiving correlated inputs. Notably, even when the input correlation remained fixed, the spike train output correlation increased with the firing rate, but was largely independent of spike train variability. With a combination of analytical techniques and numerical simulations using 'integrate-and-fire' neuron models we show that this relationship between output correlation and firing rate is robust to input heterogeneities. Finally, this overlooked relationship is replicated by a standard threshold-linear model, demonstrating the universality of the result. This connection between the rate and correlation of spiking activity links two fundamental features of the neural code.     

Chemical glycosylation in the synthesis of glycoconjugate antitumour vaccines

Therapeutic vaccines derived from carbohydrate antigen-adjuvant combinations are a promising approach for cancer immunotherapy. One of the critical limitations in this area is access to sufficient quantities of tumour-associated carbohydrate antigens and glycoconjugate adjuvants. At present, availability of the complex oligosaccharide constructs that are needed for the systematic design and evaluation of novel vaccine formulations relies on de novo chemical synthesis. The use of both state-of-the-art and emerging glycosylation technologies has led to significant advances in this field, allowing the clinical exploration of carbohydrate-based antigens in the treatment of cancer.     

Controlling cavity reflectivity with a single quantum dot

Solid-state cavity quantum electrodynamics (QED) systems offer a robust and scalable platform for quantum optics experiments and the development of quantum information processing devices. In particular, systems based on photonic crystal nanocavities and semiconductor quantum dots have seen rapid progress. Recent experiments have allowed the observation of weak and strong coupling regimes of interaction between the photonic crystal cavity and a single quantum dot in photoluminescence. In the weak coupling regime, the quantum dot radiative lifetime is modified; in the strong coupling regime, the coupled quantum dot also modifies the cavity spectrum. Several proposals for scalable quantum information networks and quantum computation rely on direct probing of the cavity-quantum dot coupling, by means of resonant light scattering from strongly or weakly coupled quantum dots. Such experiments have recently been performed in atomic systems and superconducting circuit QED systems, but not in solid-state quantum dot-cavity QED systems. Here we present experimental evidence that this interaction can be probed in solid-state systems, and show that, as expected from theory, the quantum dot strongly modifies the cavity transmission and reflection spectra. We show that when the quantum dot is coupled to the cavity, photons that are resonant with its transition are prohibited from entering the cavity. We observe this effect as the quantum dot is tuned through the cavity and the coupling strength between them changes. At high intensity of the probe beam, we observe rapid saturation of the transmission dip. These measurements provide both a method for probing the cavity-quantum dot system and a step towards the realization of quantum devices based on coherent light scattering and large optical nonlinearities from quantum dots in photonic crystal cavities.     

Snapshots of nuclear pore complexes in action captured by cryo-electron tomography

Nuclear pore complexes reside in the nuclear envelope of eukaryotic cells and mediate the nucleocytoplasmic exchange of macromolecules. Traffic is regulated by mobile transport receptors that target their cargo to the central translocation channel, where phenylalanine-glycine-rich repeats serve as binding sites. The structural analysis of the nuclear pore is a formidable challenge given its size, its location in a membranous environment and its dynamic nature. Here we have used cryo-electron tomography to study the structure of nuclear pore complexes in their functional environment, that is, in intact nuclei of Dictyostelium discoideum. A new image-processing strategy compensating for deviations of the asymmetric units (protomers) from a perfect eight-fold symmetry enabled us to refine the structure and to identify new features. Furthermore, the superposition of a large number of tomograms taken in the presence of cargo, which was rendered visible by gold nanoparticles, has yielded a map outlining the trajectories of import cargo. Finally, we have performed single-molecule Monte Carlo simulations of nuclear import to interpret the experimentally observed cargo distribution in the light of existing models for nuclear import.     

Distribution of the meadow lizard in Europe and its realized ecological niche model

One of the most interesting but elusive members of the European herpetofauna is the meadow lizard (Darevskia praticola). It is a small, ground dwelling, predominantly forest living lacertid, for which many ecological and biological data are still missing. Moreover, at least for the western part of the species range (south-eastern Europe) its distribution and environmental associations are insufficiently known, likely due to difficulties in detection even with intensive field sampling. Here, we complemented the available literature records with our personal observations and explored the effects of environmental factors shaping the species ecological niche and distribution in Europe using the ecological niche modelling approach from Maxent software. The new records of the meadow lizard fill a gap in its known distribution. The most suitable habitats are in central and eastern Serbia, south-western Romania, and central, southern and south-western Bulgaria. Mean temperature of the coldest quarter, vegetation and slope had the strongest effect in defining the meadow lizard’s ecological niche. Niche suitability increased with the increase in forest cover and slope, while the temperature showed a bell-shaped response with a rather narrow tolerance range for temperature. Contrary to expectations, precipitation seemed to have no contribution to the species occurrence. Ecological niche model performance increased with a higher resolution of predictor variables despite the lower number of available occurrence records, although the slope variable had a greater predictive power when calculated at a lower resolution. Interestingly, high resolution vegetation variables (30 m) were able to show some level of habitat fragmentation, which likely resulted from deforestation. Overall, our results epitomize the effects of limited sampling on the biogeography inference of elusive species while having significant repercussions on conservation priorities and management of the species.     

Threat status and distribution of the endemic species Allolobophora kosowensis kosowensis Karaman, 1968 (Oligochaeta: Lumbricidae) in the Balkans

Allolobophora kosowensis kosowensis Karaman, 1968 is an earthworm species exclusively endemic to the state of Serbia. Although it was described almost half a century ago, there are fewer than 20 known locations. The aim of this paper is to present the data from our own collecting and, by analysing the whole list of records, to trace a synthetic outline of the distribution and threat status of A. kosowensis kosowensis in the Balkans. Despite intensive faunistic investigations in Serbia, it was only registered in the Vojvodina Province 5 years ago. Nevertheless, this represents a considerable range extension for A. kosowensis kosowensis, defining at the same time the northernmost point of its occurrence in the Balkans. The analysis based on the IUCN 2011 Red List Categories shows that A. kosowensis kosowensis has an Endangered status (B2b (ii, iii, iv, v) c (ii, iii, iv, iv)) in the Balkans.     

Application of species-richness estimators for the assessment of earthworm diversity

This paper includes the current knowledge of earthworm distribution and richness in the central part of the Balkans, in the state of Serbia. The work is based on data obtained from fieldwork in the western part of Serbia. The aim is to follow a methodological and theoretical framework for the application of species-richness estimators in earthworm biodiversity research. We have evaluated the performance of various estimation techniques to assess the different species-richness estimators in EstimateS. The following estimators (EstimateS 8.2) were used to extrapolate species richness beyond our own data: ACE, ICE, Chao 1, Chao 2, Jackknife 1, Jackknife 2, Bootstrap, and Michaelis–Menten richness estimator. The Chao 2 and Jackknife 2 richness estimators were considered most appropriate to predict the number of earthworm species and can serve to provide a quantitative basis for assessing long-term changes in species richness.     

α-Actinin structure and regulation

Alpha-actinin is a cytoskeletal actin-binding protein and a member of the spectrin superfamily, which comprises spectrin, dystrophin and their homologues and isoforms. It forms an anti-parallel rod-shaped dimer with one actin-binding domain at each end of the rod and bundles actin filaments in multiple cell-type and cytoskeleton frameworks. In non-muscle cells, alpha-actinin is found along the actin filaments and in adhesion sites. In striated, cardiac and smooth muscle cells, it is localized at the Z-disk and analogous dense bodies, where it forms a lattice-like structure and stabilizes the muscle contractile apparatus. Besides binding to actin filaments alpha-actinin associates with a number of cytoskeletal and signaling molecules, cytoplasmic domains of transmembrane receptors and ion channels, rendering it important structural and regulatory roles in cytoskeleton organization and muscle contraction. This review reports on the current knowledge on structure and regulation of alpha-actinin.     

Rheological behavior of mammalian cells

Rheological properties of living cells determine how cells interact with their mechanical microenvironment and influence their physiological functions. Numerous experimental studies have show that mechanical contractile stress borne by the cytoskeleton and weak power-law viscoelasticity are governing principles of cell rheology, and that the controlling physics is at the level of integrative cytoskeletal lattice properties. Based on these observations, two concepts have emerged as leading models of cytoskeletal mechanics. One is the tensegrity model, which explains the role of the contractile stress in cytoskeletal mechanics, and the other is the soft glass rheology model, which explains the weak power-law viscoelasticity of cells. While these two models are conceptually disparate, the phenomena that they describe are often closely associated in living cells for reasons that are largely unknown. In this review, we discuss current understanding of cell rheology by emphasizing the underlying biophysical mechanism and critically evaluating the existing rheological models. Received 25 May 2008; received after revision 19 June 2008; accepted 1 July 2008