Transformation of stimulus correlations by the retina

Redundancies and correlations in the responses of sensory neurons seem to waste neural resources but can carry cues about structured stimuli and may help the brain to correct for response errors. To assess how the retina negotiates this tradeoff, we measured simultaneous responses from populations of ganglion cells presented with natural and artificial stimuli that varied greatly in correlation structure. We found that pairwise correlations in the retinal output remained similar across stimuli with widely different spatio-temporal correlations including white noise and natural movies. Meanwhile, purely spatial correlations tended to increase correlations in the retinal response. Responding to more correlated stimuli, ganglion cells had faster temporal kernels and tended to have stronger surrounds. These properties of individual cells, along with gain changes that opposed changes in effective contrast at the ganglion cell input, largely explained the similarity of pairwise correlations across stimuli where receptive field measurements were possible.Comment: author list corrected in metadat

Enhancing incomes and livelihoods through improved farmers’ practices on goat production and marketing

The role of livestock in rural communities is changing rapidly. Goats are increasingly used to augment cash income and enhance food security, thus serving as an important component in household’s livelihood strategies, particularly in drought-prone areas. While much has been done to improve agricultural production in the small-scale sector, little is known and documented about the current state of goat production and marketing in the communal areas of Zimbabwe. This report aims to set a baseline of the current status of goat production and marketing in southwestern Zimbabwe. The report illustrates the main functions of goats. Basic statistics describe goat ownership patterns with regard to the socioeconomic profi les of goat keepers, and the responsibilities of different household members in day-to-day goat management and marketing. The current productivity of goat fl ocks and seasonal trends are illustrated, indicating major challenges that farmers face in goat production and marketing. The report then provides a detailed description of the current management practices and existing marketing systems, and illustrates differences between districts, proximity to markets, flock sizes, levels of education and gender. Goat mortality has been found to be the most important constraint. Farmers with few goats are unable to sustain their fl ocks, whereas those with larger fl ocks do not realize the potential benefits from goats due to high mortality rates. Poor access to animal health support, dry season feed shortages and inadequate housing are the most important immediate factors contributing to high mortalities and can generally be ascribed to a lack of information and poor service structures, both resulting from limited support given to the small stock sector by government and NGO support services. The study also shows that although many farmers attempt to sell goats, markets are underdeveloped, infrastructure is inadequate and market information is not readily available. This results in poor confi dence in markets, high transaction costs and low prices for goats. It is hypothesized that improved market access will act as an incentive for farmers to invest more in goat production. Market development is thus singled out as the next important step in further developing the goat industry in Zimbabwe. Practical options to enhance the contribution of goats to food security and income growth are discussed, and priority interventions are recommended to service providers, development agents and policymakers in Zimbabwe

Vertical pairing of identical particles suspended in the plasma sheath

It is shown experimentally that vertical pairing of two identical microspheres suspended in the sheath of a radio-frequency (rf) discharge at low gas pressures (a few Pa), appears at a well defined instability threshold of the rf power. The transition is reversible, but with significant hysteresis on the second stage. A simple model, which uses measured microsphere resonance frequencies and takes into account besides Coulomb interaction between negatively charged microspheres also their interaction with positive ion wake charges, seems to explain the instability threshold quite well.Comment: 4 pages, 6 figures. to appear in Phys. Rev. Lett. 86, May 14th (2001

β-TrCP is dispensable for Vpu's ability to overcome the CD317/Tetherin-imposed restriction to HIV-1 release

<p>Abstract</p> <p>Background</p> <p>The cellular transmembrane protein CD317/BST-2/HM1.24/Tetherin restricts HIV-1 infection by physically tethering mature virions to the surface of infected cells. HIV-1 counteracts this restriction by expressing the accessory protein Vpu, yet the mechanism of this antagonism is incompletely understood. β-TrCP is the substrate recognition domain of an E3 ubiquitin ligase complex that interacts with the di-serine motif S52/S56 in the cytoplasmic tail of Vpu to target the CD4 receptor for proteasomal degradation. Recently, it has been suggested that β-TrCP is also critically involved in Vpu's ability to overcome the CD317-mediated virion release block.</p> <p>Results</p> <p>To test this model, we analyzed the consequences of several experimental strategies to interfere with the Vpu-β-TrCP protein-protein interaction. Under these conditions, we studied effects of Vpu on expression and localization of CD317 and CD4, as well as on its ability to promote HIV-1 release. Our results demonstrate a strict requirement for Vpu's di-serine motif for degradation of CD4 and also CD317, reduction of cell surface exposure of CD317, and HIV-1 release enhancement. We further show a critical role of β-TrCP2, but not of the structurally related β-TrCP1 isoform, for Vpu-mediated degradation of both receptors. Most importantly, Vpu remained active in downregulating CD317 from the cell surface and in overcoming the HIV-1 release restriction in β-TrCP-depleted cells.</p> <p>Conclusions</p> <p>These results demonstrate that β-TrCP is not strictly required for Vpu's ability to counteract the CD317-imposed virion release block and support the relevance of cell surface down-modulation of the restriction factor as a central mechanism of Vpu antagonism. Moreover, we propose the existence of a critical, yet to be identified cellular factor that interacts with Vpu via its di-serine motif to alter the trafficking of the restriction factor.</p

Explicit kinetic heterogeneity: mechanistic models for interpretation of labeling data of heterogeneous cell populations

Estimation of division and death rates of lymphocytes in different conditions is vital for quantitative understanding of the immune system. Deuterium, in the form of deuterated glucose or heavy water, can be used to measure rates of proliferation and death of lymphocytes in vivo. Inferring these rates from labeling and delabeling curves has been subject to considerable debate with different groups suggesting different mathematical models for that purpose. We show that the three models that are most commonly used are in fact mathematically identical and differ only in their interpretation of the estimated parameters. By extending these previous models, we here propose a more mechanistic approach for the analysis of data from deuterium labeling experiments. We construct a model of "kinetic heterogeneity" in which the total cell population consists of many sub-populations with different rates of cell turnover. In this model, for a given distribution of the rates of turnover, the predicted fraction of labeled DNA accumulated and lost can be calculated. Our model reproduces several previously made experimental observations, such as a negative correlation between the length of the labeling period and the rate at which labeled DNA is lost after label cessation. We demonstrate the reliability of the new explicit kinetic heterogeneity model by applying it to artificially generated datasets, and illustrate its usefulness by fitting experimental data. In contrast to previous models, the explicit kinetic heterogeneity model 1) provides a mechanistic way of interpreting labeling data; 2) allows for a non-exponential loss of labeled cells during delabeling, and 3) can be used to describe data with variable labeling length

Biological Soil Crusts as Modern Analogues for the Archean Continental Biosphere: Insights from Carbon and Nitrogen Isotopes

5 pagesInternational audienceStable isotope signatures of elements related to life such as carbon and nitrogen can be powerful biomarkers that provide key information on the biological origin of organic remains and their paleoenvironments. Marked advances have been achieved in the last decade in our understanding of the coupled evolution of biological carbon and nitrogen cycling and the chemical evolution of the early Earth thanks, in part, to isotopic signatures preserved in fossilized microbial mats and organic matter of marine origin. However, the geologic record of the early continental biosphere, as well as its evolution and biosignatures, is still poorly constrained. Following a recent report of direct fossil evidence of life on land at 3.22 Ga, we compare here the carbon and nitrogen isotopic signals of this continental Archean biosphere with biosignatures of cyanobacteria biological soil crusts (cyanoBSCs) colonizing modern arid environments. We report the first extended δ13C and δ15N data set from modern cyanoBSCs and show that these modern communities harbor specific isotopic biosignatures that compare well with continental Archean organic remains. We therefore suggest that cyanoBSCs are likely relevant analogs for the earliest continental ecosystems. As such, they can provide key information on the timing, extent, and possibly mechanism of colonization of the early Earth's emergent landmasses

Fully developed turbulence and the multifractal conjecture

We review the Parisi-Frisch MultiFractal formalism for Navier--Stokes turbulence with particular emphasis on the issue of statistical fluctuations of the dissipative scale. We do it for both Eulerian and Lagrangian Turbulence. We also show new results concerning the application of the formalism to the case of Shell Models for turbulence. The latter case will allow us to discuss the issue of Reynolds number dependence and the role played by vorticity and vortex filaments in real turbulent flows.Comment: Special Issue dedicated to E. Brezin and G. Paris

Fast, scalable, Bayesian spike identification for multi-electrode arrays

We present an algorithm to identify individual neural spikes observed on high-density multi-electrode arrays (MEAs). Our method can distinguish large numbers of distinct neural units, even when spikes overlap, and accounts for intrinsic variability of spikes from each unit. As MEAs grow larger, it is important to find spike-identification methods that are scalable, that is, the computational cost of spike fitting should scale well with the number of units observed. Our algorithm accomplishes this goal, and is fast, because it exploits the spatial locality of each unit and the basic biophysics of extracellular signal propagation. Human intervention is minimized and streamlined via a graphical interface. We illustrate our method on data from a mammalian retina preparation and document its performance on simulated data consisting of spikes added to experimentally measured background noise. The algorithm is highly accurate

Phenotypic microarrays suggest Escherichia coli ST131 is not a metabolically distinct lineage of extra-intestinal pathogenic E. coli

Extraintestinal pathogenic E. coli (ExPEC) are the major aetiological agent of urinary tract infections (UTIs) in humans. The emergence of the CTX-M producing clone E. coli ST131 represents a major challenge to public health worldwide. A recent study on the metabolic potential of E. coli isolates demonstrated an association between the E. coli ST131 clone and enhanced utilisation of a panel of metabolic substrates. The studies presented here investigated the metabolic potential of ST131 and other major ExPEC ST isolates using 120 API test reagents and found that ST131 isolates demonstrated a lower metabolic activity for 5 of 120 biochemical tests in comparison to non-ST131 ExPEC isolates. Furthermore, comparative phenotypic microarray analysis showed a lack of specific metabolic profile for ST131 isolates countering the suggestion that these bacteria are metabolically fitter and therefore more successful human pathogens

Understanding Community Perceptions of Land Use Changes in the Rangelands, Zimbabwe

The objective of this study was to investigate the user communities’ understanding and interpretation of changes in rangeland use and productivity in the communal lands of Zimbabwe. While external knowledge has been instrumental in defining the drivers and effects of ecological changes hitherto, the role of local knowledge is becoming increasingly important in explaining factors that inform user community perceptions and guide their decisions on the use of rangeland resources. Data on community perceptions were collected in four villages, using Participatory Rural Appraisals in each village and household surveys with a total of 104 households. This study showed that user communities in Nkayi district differentiate rangelands among seven categories of livestock feed resources and how these have changed over time. Communities viewed rangelands not as one continuous, designated and specialized land parcel, but differentiated the land by location, productivity, management and uses in different times of the year. Although land use changes affecting these livestock feed resources were considered to be widespread and multi-directional (both negative and positive) they did not cause widespread degradation. Rangelands converted to croplands were not completely lost, but became important dual purpose land parcels fulfilling both household food security needs and dry season livestock feed requirements. The importance of croplands as a feed resource is reflected in the emergence of new institutions governing their use for livestock grazing and to guarantee security of tenure. On the other hand institutions governing the use of common property rangelands decreased or weakened in their application. The study concludes that while this situation presents ecological challenges for the rangelands, it offers opportunities to find innovative ways of utilizing croplands as the new frontier in the provision of dry season feed resources to smallholder farmers in highly variable environments. Implications for livestock water productivity need to be investigated and water saving technologies should be promoted in the land use intensification processes