Pollen productivity estimates of key European plant taxa for quantitative reconstruction of past vegetation: a review

International audienceInformation on the spatial distribution of past vegetation on local, regional and global scales is increasingly used within climate modelling, nature conservancy and archaeology. It is possible to obtain such information from fossil pollen records in lakes and bogs using the landscape reconstruction algorithm (LRA) and its two models, REVEALS and LOVE. These models assume that reliable pollen productivity estimates (PPEs) are available for the plant taxa involved in the quantitative reconstruc -tions of past vegetation, and that PPEs are constant through time. This paper presents and discusses the PPEs for 15 tree and 18 herb taxa obtained in nine study areas of Europe. Observed differences in PPEs between regions may be explained by methodological issues and environmental variables, of which climate and related factors such as reproduction strategies and growth forms appear to be the most important. An evaluation of the PPEs at hand so far suggests that they can be used in modelling applications and quantitative reconstructions of pastvegetation, provided that consideration of past environmental variability within the region is used to inform selection of PPEs, and bearing in mind that PPEs might have changed through time as a response to climate change. Application of a range of possible PPEs will allow a better evaluation of the results

Modern and fossil non-pollen palynomorphs from the Basque mountains (western Pyrenees, France): the use of coprophilous fungi to reconstruct pastoral activity

International audienceThis paper presents results from a modern dataset of non-pollen palynomorphs and its application to aca. 2,000 year peat record from the same area in the western Pyrenees (Basque Country, France). The modern dataset is composed of 35 surface samples (moss polsters) from a mountainous pasture-woodland landscape. Airborne fungal spores (ascospores and conidia), found dominant in the dataset, are linked to the degree of landscape openness and grazing pressure. The complete spectrum of 13 selected spore-types of dung-related Ascomycetes is positively linked with grazing pressure. However, different dung affinities between the spore-types have been identified. These are types clearly related to high grazing pressure and types with no or unclear dung indicative value. The modern dataset is used to aid interpretation of the local fossil pollen record as an independent 'proxy' to assess past pastoral dynamics. This study confirms the utility of modern nonpollen palynomorphs from terrestrial ecosystems in the reconstruction of historical local pastoral activities but also shows their limitation. It may be necessary to extend such study to wetland ecosystems and to investigate the spatial dimension of some fungal spores

Multidisciplinary approach to reconstructing local pastoral activities: an example from the Pyrenean Mountains (Pays Basque)

International audienceIn this study archaeology, history and palaeoecology (modern and fossil data sets of pollen and nonpollen palynomorphs) were used to reconstruct small-scale pastoral activities in the Pyrenees Mountains during the last two millennia. Modern pollen assemblages from the major vegetation units (both natural andanthropogenic) are studied on one restricted watershed area. A correlative model (RDA) of 61 modern pollen spectra and 35 external variables distinguishes two groups of taxa, providing information on the nature and spatial extent of human impact on the landscape. The first pool indicates local pastoral activities, and the second one implies regional input from outside the studied watershed, and is not characteristic of a specific land use. These pools are described as 'Local Pastoral Pollen Indicators' (LPPI) for this particular mountain region on crystalline bedrock and 'Regional Human Activities Pollen Indicators' (RHAPI). The modern data set is used to aid interpretation of the local pollen sequence of Sourzay that covers the last 2000 calendar years BP, using RDA reconstructions, and best modern analogues as a means of comparing modern and fossil spectra. The study also demonstrates agreement between the independent interpretations of two fossil proxies, LPPI and coprophilous fungi

Discourse Semantics for the Analysis of Change in Language

This paper purports to elaborate and address several issues which lie at the intersection of computational linguistics and psychology. The first issue addressed is that of the interaction between discourse and semantics by virtue of empirical linguistic and psychotherapeutic evidence. This paper then gives a formal account of the knowledge representation and reasoning processes involved in the construction of an XML knowledge base for use in the sematic analysis of psychotherapeutic transcripts. Computational methods for the automatic mark-up and inference of the psychotherapeutic phenomena under investigation are detailed in order to further develop intuitions behind a particular pragmatic theory of language known as the Metamodel. The work presented here ultimately aims to produce a sustainable system for the evaluation of the effectiveness of any given psychotherapeutic technique. The possibility exists for such a system to recognise successful therapeutic mechanisms and further still, to infer new ones, or suggest improvements, or offer novel explanations as to the success or failure of the therapy itself. The work discussed here stems from research in computational linguistics, psychotherapy, and philosophy. The corpus used is a culmination of client transcripts taken before, during, and after therapy. The particular therapeutic technique used here is known as the Metamodel (Bandler and Grinder, 1975). The Metamodel was originally proffered as a method of language analysis suitable for use by practitioners of any psychotherapeutic technique. It theorises that speech utterances are related to a clients deep structure through three primary mechanisms, namely generalisation, deletion, and distortion. Previous hand tagging of our data has proven support for such claims. It is our aim to automate the identification and reasoning process. The issues and processes involved in the automation of such tagging are discussed here. Architectural and philosophical issues relating syntax (or grammar), semantics (Larson and Segal, 1995), and pragmatics (Grice, 1989; Searle, 1969) are raised. Discourse Representation Theory (Kamp, 1981; Asher and Lascarides, 1995) is discussed and used here in order to infer discourse relations.Hosted by the Scholarly Text and Imaging Service (SETIS), the University of Sydney Library, and the Research Institute for Humanities and Social Sciences (RIHSS), the University of Sydney

Inhibitory Effect of TNF-α on Malaria Pre-Erythrocytic Stage Development: Influence of Host Hepatocyte/Parasite Combinations

BACKGROUND: The liver stages of malaria parasites are inhibited by cytokines such as interferon-gamma or Interleukin (IL)-6. Binding of these cytokines to their receptors at the surface of the infected hepatocytes leads to the production of nitric oxide (NO) and radical oxygen intermediates (ROI), which kill hepatic parasites. However, conflicting results were obtained with TNF-alpha possibly because of differences in the models used. We have reassessed the role of TNF-alpha in the different cellular systems used to study the Plasmodium pre-erythrocytic stages. METHODS AND FINDINGS: Human or mouse TNF-alpha were tested against human and rodent malaria parasites grown in vitro in human or rodent primary hepatocytes, or in hepatoma cell lines. Our data demonstrated that TNF-alpha treatment prevents the development of malaria pre-erythrocytic stages. This inhibitory effect however varies with the infecting parasite species and with the nature and origin of the cytokine and hepatocytes. Inhibition was only observed for all parasite species tested when hepatocytes were pre-incubated 24 or 48 hrs before infection and activity was directed only against early hepatic parasite. We further showed that TNF-alpha inhibition was mediated by a soluble factor present in the supernatant of TNF-alpha stimulated hepatocytes but it was not related to NO or ROI. Treatment TNF-alpha prevents the development of human and rodent malaria pre-erythrocytic stages through the activity of a mediator that remains to be identified. CONCLUSIONS: Treatment TNF-alpha prevents the development of human and rodent malaria pre-erythrocytic stages through the activity of a mediator that remains to be identified. However, the nature of the cytokine-host cell-parasite combination must be carefully considered for extrapolation to the human infection

Retrotransposon vectors for gene delivery in plants

<p>Abstract</p> <p>Background</p> <p>Retrotransposons are abundant components of plant genomes, and although some plant retrotransposons have been used as insertional mutagens, these mobile genetic elements have not been widely exploited for plant genome manipulation. In vertebrates and yeast, retrotransposons and retroviruses are routinely altered to carry additional genes that are copied into complementary (c)DNA through reverse transcription. Integration of cDNA results in gene delivery; recombination of cDNA with homologous chromosomal sequences can create targeted gene modifications. Plant retrotransposon-based vectors, therefore, may provide new opportunities for plant genome engineering.</p> <p>Results</p> <p>A retrotransposon vector system was developed for gene delivery in plants based on the Tnt1 element from <it>Nicotiana tabacum</it>. Mini-Tnt1 transfer vectors were constructed that lack coding sequences yet retain the 5' and 3' long terminal repeats (LTRs) and adjacent <it>cis </it>sequences required for reverse transcription. The internal coding region of Tnt1 was replaced with a neomycin phosphotransferase gene to monitor replication by reverse transcription. Two different mini-Tnt1 s were developed: one with the native 5' LTR and the other with a chimeric 5' LTR that had the first 233 bp replaced by the CaMV 35 S promoter. After transfer into tobacco protoplasts, both vectors undergo retrotransposition using GAG and POL proteins provided in <it>trans </it>by endogenous Tnt1 elements. The transposition frequencies of mini-Tnt1 vectors are comparable with native Tnt1 elements, and like the native elements, insertion sites are within or near coding sequences. In this paper, we provide evidence that template switching occurs during mini-Tnt1 reverse transcription, indicating that multiple copies of Tnt1 mRNA are packaged into virus-like particles.</p> <p>Conclusions</p> <p>Our data demonstrate that mini-Tnt1 vectors can replicate efficiently in tobacco cells using GAG and POL proteins provided in <it>trans </it>by native Tnt1 elements. This suggests that helper Tnt1 constructs can be developed to enable a Tnt1-based two-component vector system that could be used in other plant species. Such a vector system may prove useful for gene delivery or the production of cDNA that can serve as a donor molecule for gene modification through homologous recombination.</p

Holocene land cover and population dynamics in southern France

International audienceThis paper describes long-term changes in human population andvegetation cover in southern France, using summed radiocarbon probabilitydistributions and site count data as population proxies and informationfrom fossil pollen cores as a proxy for past land cover. Southern France isparticularly well-suited to this type of study as a result of previousprogrammes of intensive survey work and excavation in advance of largescale construction. These make it possible to calibrate the larger scale occupation patterns in the light of the visibility issues created by the burial of archaeological sites beneath alluvial sediments. For purposes of analysis the region was divided into three biogeographical zones, going from the Mediterranean coast to the middle Rhône valley. All the different population proxies in a given zone show broadly similar patterns of fluctuation, though with varying levels of resolution. The long-term patterns in the different zones all show significant differences from the overall regional pattern but this is especially the case for the non-mediterranean middle Rhône area. Cluster analysis of pollen samples has been carried out to identify the mainregional land cover types through the Holocene, which are increasingly dominated by open types over time. A variety of other pollen indicators show evidence of increasing human impact through time. Measures of human impact correlate strongly with the population proxies. A series of thresholds are identified in the population-human impact trajectory that are related to other changes in the cultural sequence. The lack of independent climate data for the region means that its impact cannot currently be assessed with confidence. However, for the later periods it is clear that the incorporation of southern France into larger regional systems played a major role in accounting for changes in land cover and settlement

Temperature Shift and Host Cell Contact Up-Regulate Sporozoite Expression of Plasmodium falciparum Genes Involved in Hepatocyte Infection

Plasmodium sporozoites are deposited in the skin by Anopheles mosquitoes. They then find their way to the liver, where they specifically invade hepatocytes in which they develop to yield merozoites infective to red blood cells. Relatively little is known of the molecular interactions during these initial obligatory phases of the infection. Recent data suggested that many of the inoculated sporozoites invade hepatocytes an hour or more after the infective bite. We hypothesised that this pre-invasive period in the mammalian host prepares sporozoites for successful hepatocyte infection. Therefore, the genes whose expression becomes modified prior to hepatocyte invasion would be those likely to code for proteins implicated in the subsequent events of invasion and development. We have used P. falciparum sporozoites and their natural host cells, primary human hepatocytes, in in vitro co-culture system as a model for the pre-invasive period. We first established that under co-culture conditions, sporozoites maintain infectivity for an hour or more, in contrast to a drastic loss in infectivity when hepatocytes were not included. Thus, a differential transcriptome of salivary gland sporozoites versus sporozoites co-cultured with hepatocytes was established using a pan-genomic P. falciparum microarray. The expression of 532 genes was found to have been up-regulated following co-culture. A fifth of these genes had no orthologues in the genomes of Plasmodium species used in rodent models of malaria. Quantitative RT-PCR analysis of a selection of 21 genes confirmed the reliability of the microarray data. Time-course analysis further indicated two patterns of up-regulation following sporozoite co-culture, one transient and the other sustained, suggesting roles in hepatocyte invasion and liver stage development, respectively. This was supported by functional studies of four hitherto uncharacterized proteins of which two were shown to be sporozoite surface proteins involved in hepatocyte invasion, while the other two were predominantly expressed during hepatic parasite development. The genome-wide up-regulation of expression observed supports the hypothesis that the shift from the mosquito to the mammalian host contributes to activate quiescent salivary gland sporozoites into a state of readiness for the hepatic stages. Functional studies on four of the up-regulated genes validated our approach as one means to determine the repertoire of proteins implicated during the early events of the Plasmodium infection, and in this case that of P. falciparum, the species responsible for the severest forms of malaria

Recent climatic and anthropogenic imprints on lacustrine systems in the Pyrenean Mountains inferred from minerogenic and organic clastic supply (Vicdessos valley, Pyrenees, France)

High-resolution seismic profiling has been combined with geochemical analyses of both watershed samples and five lacustrine cores retrieved from two natural lacustrine basins of glacial origin: Lake Majeur and Lake Sigriou (1630 m a.s.l. and 1995 m a.s.l., respectively, Eastern French Pyrenees). Identifying specific minerogenic and organic markers of autochthonous and allochthonous supply, data allow documenting past climatic and anthropogenic pressures. Over the past century, the lacustrine sediment of Lake Majeur has been essentially composed of algae, drastically contrasting with the natural sedimentary infill of the basin, mainly resulting from soil erosion from the mid–late Holocene. Since ad 1907, the Lake Majeur has been used for hydroelectricity production. Human-induced lake-level regulations, affecting up to 37% of the lacustrine surface, have increased by fourfold the accumulation rate of the lake and favoured water enrichment. Rubidium abundance within the lacustrine sediments of the two lakes reflects the mid–late Holocene palaeohydrology. After dam construction in ad 1907, greater quantities of rubidium found in Lake Majeur sedimentary infills indicate drier climatic periods, such as from ad 1975 to ad 1982, during which water reservoirs were particularly in demand. Inversely, before the dam was built, rubidium fluctuations were correlated with wetter conditions and hydrological events were recorded as sandy layers deposited by canyon reactivation, synchronous with European climatic deterioration phases. We notably document that the Mediaeval Climate Anomaly was interrupted by some humid periods dated c. ad 940, ad 1080, ad 1100 and ad 1250. We also date the onset of the ‘Little Ice Age’ c. ad 1360 and identify that this period was wetter after c. ad 1500

Mid-Holocene European climate revisited: new high-resolution regional climate model simulations using pollen-based land-cover

International audienceLand-cover changes have a clear impact on local climates via biophysical effects. European land cover has been affected by human activities for at least 6000 years, but possibly longer. It is thus highly probable that humans altered climate before the industrial revolution (AD1750e1850). In this study, climate and vegetation 6000 years (6 ka) ago is investigated using one global climate model, two regional climate models, one dynamical vegetation model, pollen-based reconstruction of past vegetation cover using a model of the pollen-vegetation relationship and a statistical model for spatial interpolation of the reconstructed land cover. This approach enables us to study 6 ka climate with potential natural and reconstructed land cover, and to determine how differences in land cover impact upon simulated climate. The use of two regional climate models enables us to discuss the robustness of the results. This is the first experiment with two regional climate models of simulated palaeo-climate based on regional climate models. Different estimates of 6 ka vegetation are constructed: simulated potential vegetation and recon- structed vegetation. Potential vegetation is the natural climate-induced vegetation as simulated by a dynamical vegetation model driven by climate conditions from a climate model. Bayesian spatial model interpolated point estimates of pollen-based plant abundances combined with estimates of climate- induced potential un-vegetated land cover were used for reconstructed vegetation. The simulated potential vegetation is heavily dominated by forests: evergreen coniferous forests dominate in northern and eastern Europe, while deciduous broadleaved forests dominate central and western Europe. In contrast, the reconstructed vegetation cover has a large component of open land in most of Europe. The simulated 6 ka climate using reconstructed vegetation was 0-5° C warmer than the pre-industrial (PI) climate, depending on season and region. The largest differences are seen in north-eastern Europe in winter with about 4e6 C, and the smallest differences (close to zero) in southwestern Europe in winter. The simulated 6 ka climate had 10-20% more precipitation than PI climate in northern Europe and 10 -20% less precipitation in southern Europe in summer. The results are in reasonable agreement with proxy-based climate reconstructions and previous similar climate modelling studies. As expected, the global model and regional models indicate relatively similar climates albeit with regional differences indicating that, models response to land-cover changes differently