Development of a selective and sensitive polymerase chain reaction assay for the detection of Mycoplasma pirum

Abstract A new assay using the polymerase chain reaction to amplify a 173-nucleotide DNA fragment within the 16S ribosomal RNA gene of Mycoplasma pirum has been developed. The assay selectively amplified DNA from all strains of M. pirum tested with a high level of sensitivity, even in a context of human DNA. DNA from other mollicute species, including those closely related to M. pirum , from bacteria phylogenetically close to mollicutes ( Clostridium innocuum, C. ramosum and Bacillus subtilis ), from Escherichia coli and from human peripheral blood mononuclear cells, did not produce the amplified DNA product specific for M. pirum .     

The Brazilian Portuguese Lexicon: An Instrument for Psycholinguistic Research

In this article, we present the Brazilian Portuguese Lexicon, a new word-based corpus for psycholinguistic and computational linguistic research in Brazilian Portuguese. We describe the corpus development, the specific characteristics on the internet site and database for user access. We also perform distributional analyses of the corpus and comparisons to other current databases. Our main objective was to provide a large, reliable, and useful word-based corpus with a dynamic, easy-to-use, and intuitive interface with free internet access for word and word-criteria searches. We used the Núcleo Interinstitucional de Linguística Computacional’s corpus as the basic data source and developed the Brazilian Portuguese Lexicon by deriving and adding metalinguistic and psycholinguistic information about Brazilian Portuguese words. We obtained a final corpus with more than 30 million word tokens, 215 thousand word types and 25 categories of information about each word. This corpus was made available on the internet via a free-access site with two search engines: a simple search and a complex search. The simple engine basically searches for a list of words, while the complex engine accepts all types of criteria in the corpus categories. The output result presents all entries found in the corpus with the criteria specified in the input search and can be downloaded as a.csv file. We created a module in the results that delivers basic statistics about each search. The Brazilian Portuguese Lexicon also provides a pseudoword engine and specific tools for linguistic and statistical analysis. Therefore, the Brazilian Portuguese Lexicon is a convenient instrument for stimulus search, selection, control, and manipulation in psycholinguistic experiments, as also it is a powerful database for computational linguistics research and language modeling related to lexicon distribution, functioning, and behavior.     

Flight Phases in the Song of Skylarks: Impact on Acoustic Parameters and Coding Strategy

Skylarks inhabit open fields and perform an aerial song display which serves as a territorial signal. The particularly long and elaborate structure of this song flight raises questions about the impact of physical and energetic constraints acting on a communication signal. Song produced during the three distinct phases of the flight - ascending, level and descending phase could be subject to different constraints, serve different functions and encode different types of information. We compared song parameters during the ascending and the level phases. We found that the structure of the song varied with the phase of the flight. In particular, song had a higher tempo when skylarks were ascending which might be related to higher oxygen and energetic demands. We also explored which phase of the song flight might encode individuality. Earlier studies reported that skylarks reduced their territorial response to established neighbours if the neighbour song was broadcasted from the correct adjacent boundary, but reacted aggressively if the neighbour songs were broadcasted from an incorrect boundary (mimicking a displaced neighbour). Such differential response provides some evidence for individual recognition. Here, we exposed subjects to playback stimuli of neighbour song in which we had replaced either the song produced during the level or the ascending phase by the relevant song of the neighbour from the incorrect border. Singing response was higher towards stimuli in which the ‘level phase song’ was replaced, indicating that skylarks could be able to recognise their neighbours based on song of this phase. Thus, individuality seems to be primarily coded in the level phase of the flight song.     

Microheterogeneity of human galactose-1-Phosphate uridylyl transferase. Isoelectrofocusing results

Using thin-layer acrylamide gel isoelectrofocusing, several bands of galactose-1-Phosphate uridylyl transferase were found in various human tissues. Liver transferase, as well as that of some other tissues, was resolved into several bands with pHi between 5.30 and 5.80; red cell enzyme was resolved into five bands with pHi between 5.0 and 5.45. The comparison of erythrocytes with their precursors, reticulocytes and erythroblasts, showed a striking difference: the pHi of the erythroblast enzyme was between 5.55 and 5.90 and that of reticulocytes between 5.30 and 5.50. It is possible that molecular aging is the cause of the anodisation of the erythrocyte transferase and the microheterogeneity of the enzyme observed in other tissues.     

Salmonella Contamination of Sheep and Mutton Carcasses Related to Pre-slaughter Holding Conditions

S ummary . When sheep were held in abattoir pens, the fleece became contaminated with salmonellae within 1 day even when there was less than 1 salmonella/g of soil. Salmonellae were first shed in the faeces after 2–3 days. Both the percentage of infected sheep and the number of salmonellae/g of faeces subsequently increased rapidly. Contamination of fleece and carcasses increased with time and with the degree to which the pens were contaminated. The fleece appeared to be a significant source of salmonella contamination of the carcass.     

Conspicuous endolithic algal associations in a mesophotic reef-building coral

Coral Reefs - Understanding how corals and their symbionts specialize across depth gradients allows us to understand biodiversity in shallow and mesophotic coral ecosystems. Here we determined the...     

Genome‐wide evidence for divergent selection between populations of a major agricultural pathogen

The genetic and environmental homogeneity in agricultural ecosystems is thought to impose strong and uniform selection pressures. However, the impact of this selection on plant pathogen genomes remains largely unknown. We aimed to identify the proportion of the genome and the specific gene functions under positive selection in populations of the fungal wheat pathogen Zymoseptoria tritici. First, we performed genome scans in four field populations that were sampled from different continents and on distinct wheat cultivars to test which genomic regions are under recent selection. Based on extended haplotype homozygosity and composite likelihood ratio tests, we identified 384 and 81 selective sweeps affecting 4% and 0.5% of the 35 Mb core genome, respectively. We found differences both in the number and the position of selective sweeps across the genome between populations. Using a XtX‐based outlier detection approach, we identified 51 extremely divergent genomic regions between the allopatric populations, suggesting that divergent selection led to locally adapted pathogen populations. We performed an outlier detection analysis between two sympatric populations infecting two different wheat cultivars to identify evidence for host‐driven selection. Selective sweep regions harboured genes that are likely to play a role in successfully establishing host infections. We also identified secondary metabolite gene clusters and an enrichment in genes encoding transporter and protein localization functions. The latter gene functions mediate responses to environmental stress, including interactions with the host. The distinct gene functions under selection indicate that both local host genotypes and abiotic factors contributed to local adaptation.