Toluidine blue-O staining of prion protein deposits

Prion diseases or transmissible spongiform encephalopathies are a group of fatal neurodegenerative diseases caused by an abnormal form of prion protein (PrP(sc)). In this study, we developed a sensitive histochemical detection of PrP(sc) deposits in a Gertsmann-Str?ussler-Scheinker disease (GSS) patient using toluidine blue-O staining, a specific reagent to stain mucins and mucopolysaccharides. Detection of prion deposits correlated with immunohistochemistry using anti-prion antibodies. Control assays were performed using amyloid-beta (Abeta) plaques from Alzheimer's disease (AD) brains. Our results demonstrated that toluidine blue-O staining allowed to recognize 69.1+/-2.6% of the total plaques recognized by the anti-prion antibody. Furthermore, in the 15 studied brain regions from the GSS patient, toluidine blue-O revealed the same recognition pattern as anti-prion labeling. Toluidine blue-O stained specifically the prion deposits but not the Abeta plaques in AD brains. The specificity of the technique was confirmed in a Creutzfeldt-Jakob disease brain. This method opens several possibilities for postmortem diagnoses. Our results also suggest the relevance of specific post-translational modifications of PrP(sc), identified by toluidine blue-O, that might participate in the transformation of PrP(c) to PrP(sc).     

Measures of entropy and complexity in altered states of consciousness

Quantification of complexity in neurophysiological signals has been studied using different methods, especially those from information or dynamical system theory. These studies have revealed a dependence on different states of consciousness, and in particular that wakefulness is characterized by a greater complexity of brain signals, perhaps due to the necessity for the brain to handle varied sensorimotor information. Thus, these frameworks are very useful in attempts to quantify cognitive states. We set out to analyze different types of signals obtained from scalp electroencephalography (EEG), intracranial EEG and magnetoencephalography recording in subjects during different states of consciousness: resting wakefulness, different sleep stages and epileptic seizures. The signals were analyzed using a statistical (permutation entropy) and a deterministic (permutation Lempel–Ziv complexity) analytical method. The results are presented in complexity versus entropy graphs, showing that the values of entropy and complexity of the signals tend to be greatest when the subjects are in fully alert states, falling in states with loss of awareness or consciousness. These findings were robust for all three types of recordings. We propose that the investigation of the structure of cognition using the frameworks of complexity will reveal mechanistic aspects of brain dynamics associated not only with altered states of consciousness but also with normal and pathological conditions.     

Resource partitioning of the host fungus Coriolus versicolor by two ciid beetles: the role of odour compounds and host ageing

The ciid beetles Octotemnus glabriculus and Cis boleti exploit different developmental stages of fruit bodies of their preferred host fungus Coriolus versicolor . Larvae of the smaller beetle, O. glabriculus , mainly use young, expanding, fruit bodies; adults of O. glabriculus are predominantly found in young fruit bodies. By contrast, adults and larvae of the larger beetle, C. boleti , are prevalent in fully developed fruit bodies of C. versicolor . Because fruit bodies of most genets emerge during spring and early summer and mature by autumn, O. glabriculus and C. boleti breed in separated seasons. Adults and larvae of O. glabriculus are abundant in spring and early summer. By contrast, the number of adults and larvae of C. boleti increases gradually from late spring to summer and peaks in autumn. We conducted a field experiment that suggests that the phenological dynamics of C. versicolor fruit bodies drive the separation of breeding seasons between O. glabriculus and C. boleti . Additionally, laboratory experiments revealed that O. glabriculus and C. boleti have differential behavioural responses to odour compounds from young and mature fruit bodies of C. versicolor . We conclude that age-related changes in the chemical composition of fruit bodies may allow O. glabriculus and C. boleti to discriminate among C. versicolor , thus providing a mechanism for the partitioning of the resource.     

Antifungal performance of extracellular chitinases and culture supernatants of <Emphasis Type="Italic">Streptomyces galilaeus</Emphasis> CFFSUR-B12 against <Emphasis Type="Italic">Mycosphaerella fijiensis</Emphasis> Morelet

The tropical and mycoparasite strain Streptomyces galilaeus CFFSUR-B12 was evaluated as an antagonist of Mycosphaerella fijiensis Morelet, causal agent of the Black Sigatoka Disease (BSD) of banana. On zymograms of CFFSUR-B12 culture supernatants, we detected four chitinases of approximately 32 kDa (Chi32), 20 kDa (Chi20), and two with masses well over 170 kDa (ChiU) that showed little migration during denaturing electrophoresis at different concentrations of polyacrylamide. The thymol-sulphuric acid assay showed that the ChiU were glycosylated chitinases. Moreover, matrix assisted laser desorption ionization time-of-flight MS analysis revealed that the ChiU are the same protein and identical to a family 18 chitinase from Streptomyces sp. S4 (gi|498328075). Chi32 was similar to an extracellular protein from Streptomyces albus J1074 (gi|478687481) and Chi20 was non-significantly similar to chitinases from five different strains of Streptomyces (P > 0.05). Subsequently, Chi32 and Chi20 were partially purified by anion exchange and hydrophobic interaction chromatography and tested against M. fijiensis. Chitinases failed to inhibit ascospore germination, but inhibited up to 35 and 62 % of germ tube elongation and mycelial growth, respectively. We found that crude culture supernatant and living cells of S. galilaeus CFFSUR-B12 were the most effective in inhibiting M. fijiensis and are potential biocontrol agents of BSD.     

Mating system,population growth,and management scenario for Kalanchoe pinnata in an invaded seasonally dry tropical forest

Ecological invasions are a major issue worldwide, where successful invasion depends on traits that facilitate dispersion, establishment, and population growth. The nonnative succulent plant Kalanchoe pinnata, reported as invasive in some countries, is widespread in remnants of seasonally dry tropical forest on a volcanic outcrop with high conservation value in east‐central Mexico where we assessed its mating system and demographic growth and identified management strategies. To understand its local mating system, we conducted hand‐pollination treatments, germination, and survival experiments. Based on the experimental data, we constructed a life‐stage population matrix, identified the key traits for population growth, weighted the contributions of vegetative and sexual reproduction, and evaluated management scenarios. Hand‐pollination treatments had slight effects on fruit and seed setting, as well as on germination. With natural pollination treatment, the successful germination of seeds from only 2/39 fruit suggests occasional effective natural cross‐pollination. The ratios of the metrics for self‐ and cross‐pollinated flowers suggest that K. pinnata is partially self‐compatible. Most of the pollinated flowers developed into fruit, but the seed germination and seedling survival rates were low. Thus, vegetative propagation and juvenile survival are the main drivers of population growth. Simulations of a virtual K. pinnata population suggest that an intense and sustained weeding campaign will reduce the population within at least 10 years. Synthesis and applications. The study population is partially self‐compatible, but sexual reproduction by K. pinnata is limited at the study site, and population growth is supported by vegetative propagation and juvenile survival. Demographic modeling provides key insights and realistic forecasts on invasion process and therefore is useful to design management strategies.     

The Efficient Coding of Speech: Cross-Linguistic Differences

Neural coding in the auditory system has been shown to obey the principle of efficient neural coding. The statistical properties of speech appear to be particularly well matched to the auditory neural code. However, only English has so far been analyzed from an efficient coding perspective. It thus remains unknown whether such an approach is able to capture differences between the sound patterns of different languages. Here, we use independent component analysis to derive information theoretically optimal, non-redundant codes (filter populations) for seven typologically distinct languages (Dutch, English, Japanese, Marathi, Polish, Spanish and Turkish) and relate the statistical properties of these filter populations to documented differences in the speech rhythms (Analysis 1) and consonant inventories (Analysis 2) of these languages. We show that consonant class membership plays a particularly important role in shaping the statistical structure of speech in different languages, suggesting that acoustic transience, a property that discriminates consonant classes from one another, is highly relevant for efficient coding.     

Estimating and interpreting migration of Amazonian forests using spatially implicit and semi‐explicit neutral models

With many sophisticated methods available for estimating migration, ecologists face the difficult decision of choosing for their specific line of work. Here we test and compare several methods, performing sanity and robustness tests, applying to large‐scale data and discussing the results and interpretation. Five methods were selected to compare for their ability to estimate migration from spatially implicit and semi‐explicit simulations based on three large‐scale field datasets from South America (Guyana, Suriname, French Guiana and Ecuador). Space was incorporated semi‐explicitly by a discrete probability mass function for local recruitment, migration from adjacent plots or from a metacommunity. Most methods were able to accurately estimate migration from spatially implicit simulations. For spatially semi‐explicit simulations, estimation was shown to be the additive effect of migration from adjacent plots and the metacommunity. It was only accurate when migration from the metacommunity outweighed that of adjacent plots, discrimination, however, proved to be impossible. We show that migration should be considered more an approximation of the resemblance between communities and the summed regional species pool. Application of migration estimates to simulate field datasets did show reasonably good fits and indicated consistent differences between sets in comparison with earlier studies. We conclude that estimates of migration using these methods are more an approximation of the homogenization among local communities over time rather than a direct measurement of migration and hence have a direct relationship with beta diversity. As betadiversity is the result of many (non)‐neutral processes, we have to admit that migration as estimated in a spatial explicit world encompasses not only direct migration but is an ecological aggregate of these processes. The parameter m of neutral models then appears more as an emerging property revealed by neutral theory instead of being an effective mechanistic parameter and spatially implicit models should be rejected as an approximation of forest dynamics.     

Are all species necessary to reveal ecologically important patterns?

While studying ecological patterns at large scales, ecologists are often unable to identify all collections, forcing them to either omit these unidentified records entirely, without knowing the effect of this, or pursue very costly and time‐consuming efforts for identifying them. These “indets” may be of critical importance, but as yet, their impact on the reliability of ecological analyses is poorly known. We investigated the consequence of omitting the unidentified records and provide an explanation for the results. We used three large‐scale independent datasets, (Guyana/ Suriname, French Guiana, Ecuador) each consisting of records having been identified to a valid species name (identified morpho‐species – IMS) and a number of unidentified records (unidentified morpho‐species – UMS). A subset was created for each dataset containing only the IMS, which was compared with the complete dataset containing all morpho‐species (AMS: = IMS + UMS) for the following analyses: species diversity (Fisher's alpha), similarity of species composition, Mantel test and ordination (NMDS). In addition, we also simulated an even larger number of unidentified records for all three datasets and analyzed the agreement between similarities again with these simulated datasets. For all analyses, results were extremely similar when using the complete datasets or the truncated subsets. IMS predicted ≥91% of the variation in AMS in all tests/analyses. Even when simulating a larger fraction of UMS, IMS predicted the results for AMS rather well. Using only IMS also out‐performed using higher taxon data (genus‐level identification) for similarity analyses. Finding a high congruence for all analyses when using IMS rather than AMS suggests that patterns of similarity and composition are very robust. In other words, having a large number of unidentified species in a dataset may not affect our conclusions as much as is often thought.