Exhaled breath condensate pH as a biomarker of COPD severity in ex-smokers

Endogenous airway acidification, as assessed by exhaled breath condensate (EBC) pH, is present in patients with stable COPD. The aim of this study was to measure EBC pH levels in a large cohort of COPD patients and to evaluate associations with functional parameters according to their smoking status.EBC was collected from 161 patients with stable COPD and 112 controls (current and ex-smokers). EBC pH was measured after Argon deaeration and all subjects underwent pulmonary function testing.EBC pH was lower in COPD patients compared to controls [7.21 (7.02, 7.44) vs. 7.50 (7.40, 7.66); p < 0.001] and ex-smokers with COPD had lower EBC pH compared to current smokers [7.16 (6.89, 7.36) vs 7.24 (7.09, 7.54), p = 0.03]. In ex-smokers with COPD, EBC pH was lower in patients with GOLD stage III and IV compared to patients with stage I disease (p = 0.026 and 0.004 respectively). No differences were observed among current smokers with different disease severity. EBC pH levels in ex-smokers were associated with static hyperinflation (as expressed by IC/TLC ratio), air trapping (as expressed by RV/TLC ratio) and diffusing capacity for carbon monoxide, whereas no associations were observed in current smokers.Endogenous airway acidification is related to disease severity and to parameters expressing hyperinflation and air trapping in ex-smokers with COPD. The possible role of EBC pH in COPD needs to be further evaluated in longitudinal studies.     

Isolation, characterization, and localization of beta-tubulin genomic clones of three Drosophila montium subgroup species.

Genomic libraries were constructed from three Drosophila species, namely Drosophila auraria, Drosophila serrata, and Drosophila kikkawai, belonging to the Drosophila montium subgroup of the Drosophila melanogaster species group. Clones containing beta-tubulin specific sequences were isolated, characterized by restriction endonuclease digestions and Southern hybridizations, and mapped by in situ hybridization on the polytene chromosomes of the species studied. The distribution of the beta-tubulin loci was found to be similar in D. montium species and D. melanogaster.     

Caprine PrP variants harboring Asp-146, His-154 and Gln-211 alleles display reduced convertibility upon interaction with pathogenic murine prion protein in scrapie infected cells

Scrapie, the prion disease of sheep and goats, is a devastating malady of small ruminants. Due to its infectious nature, epidemic outbreaks may occur in flocks/herds consisting of highly susceptible animals. Field studies identified scrapie-protective caprine PrP variants, harboring specific single amino acid changes (Met-142, Arg-143, Asp-146, Ser-146, His-154, Gln-211 and Lys-222). Their effects are under further evaluation, and aim to determine the most protective allele. We assessed some of these variants (Asp-146, His-154, Gln-211 and Lys-222), after their exogenous expression as murine-caprine chimeras in a scrapie- infected murine cell line. We report that exogenously expressed PrPs undergo conformational conversion upon interaction with the endogenous pathological murine prion protein (PrP^SC), which results in the detection of goat-specific and partially PK-resistant moieties. These moieties display a PK-resistance pattern distinct from the one detected in natural goat scrapie cases. Within this cellular model, distinct conformational conversion potentials were assigned to the tested variants. Molecules carrying the Asp-146, His-154 and Gln-211 alleles showed significantly lower conversion levels compared to wild type, confirming their protective effects against scrapie. Although we utilized a heterologous conversion system, this is to our knowledge, the first study of caprine PrP variants in a cellular context of scrapie, that confirms the protective effects of some of the studied alleles.     

Genetic diversity among accessions of an ancient olive variety of Cyprus.

To evaluate germplasm variability and to discriminate between accessions of 'Ladolia', an ancient olive variety of Cyprus, different accessions from a germplasm collection were screened with 11 selected oligonucleotide primers in RAPD-PCRs. A total of 49 polymorphic markers were scored, the combination of which resulted in 70 distinct electrophoretic patterns. Based on either unique or combined patterns, all accessions were identified. Seven genotype-specific markers were detected. One RAPD marker could distinguish accessions according to fruit size. Genetic similarities between accessions, estimated using the Dice similarity coefficient, indicated a high degree of genetic diversity among 'Ladolia' accessions. Genetic relationships were estimated by the unweighted pair-group method with arithmetic averaging (UPGMA) and principal components analysis (PCA). Three main groups of accessions were detected. The first group was generally composed of accessions with small-sized fruits and could be further divided into two subgroups. According to PCA, most accessions with medium- or large-sized fruits were clustered together. Our results support previous observations suggesting that 'Ladolia' is actually a highly variable mixture of genetically distinct landraces.     

On the relationship between carbon-to-nitrogen composition ratios of the particulate matter and growth rate of marine phytoplankton from the Northwest African upwelling area

Carbon-to-nitrogen composition ratios of particulate matter ranged between 3.7 and 9.6. High ratios (7.8–9.6) were found at inshore stations located in cold (< 16°C) and nutrient-rich waters, while low ratios (3.7 to 6.6) were observed at offshore stations located mostly in warmer waters. This ratio is inversely related to growth in terms of inorganic carbon and nitrogen (ammonium, nitrate). Such a relationship is similar to those found in steady-state chemostat cultures of various species of marine algae, even though the carbon-to-nitrogen ratio of particulate matter collected in the field can rarely be considered characteristic of phytoplankton only. Correlations between carbon-to-nitrogen composition and carbon-to-nitrogen assimilation ratios were significant. The latter ratios were, however, about an order of magnitude higher than the former.     

Monitoring of ozone pollution and the physiological activity of <Emphasis Type="Italic">Pinus halepensis</Emphasis> (Mill.) by electron paramagnetic resonance and other parameters

An investigation of selected Aleppo pines in the forests of Mt Hymettus and Mt Parnis near Athens (Greece) was undertaken at three different sites in the period 1999–2003, because a considerable proportion of pine trees showed visible signs of chlorotic mottle. This condition is characteristic of high and prolonged levels of ozone exposure. Needles from Aleppo pine trees (Pinus halepensis Mill.) were analyzed for their manganese content in combination with Electron Paramagnetic Resonance (EPR) spectra of Mn²⁺, involved in photosystem II. Manganese is considered as an important bioindicator for the vitality of trees. Also, we investigated the EPR spectrum of the needles in the region of g=2.0045 for healthy and diseased trees. The antioxidant capacity of the needles extract was measured from trees by the DPPH method. Finally, seasonal changes in chlorophyll concentration in the needles were measured to evaluate the effects of ozone. Measurements of ozone concentrations at the three sites showed that there were elevated levels during the summer months. Our experimental results suggest that the concentration of manganese in the needles was lower in the area with higher ozone concentrations, supported by EPR measurements. Higher ozone concentrations also affected the antioxidant potential of the needles and their chlorophyll content during summer months. Our findings also confirmed the resilience of Aleppo pines under stressful conditions and recovery in winter months. Despite the experimental problems, EPR spectra of Mn²⁺ in combination with other methods can be used as a sensitive bioindicator for ozone pollution, and is the result of oxidative stress affecting the growth cycle of the pine trees and their photosynthetic mechanisms.     

Role of acid metabolism in Streptomyces coelicolor morphological differentiation and antibiotic biosynthesis

Studies of citrate synthase (CitA) were carried out to investigate its role in morphological development and biosynthesis of antibiotics in Streptomyces coelicolor. Purification of CitA, the major vegetative enzyme activity, allowed characterization of its kinetic properties. The apparent K(m) values of CitA for acetyl coenzyme A (acetyl-CoA) (32 microM) and oxaloacetate (17 microM) were similar to those of citrate synthases from other gram-positive bacteria and eukaryotes. CitA was not strongly inhibited by various allosteric feedback inhibitors (NAD(+), NADH, ATP, ADP, isocitrate, or alpha-ketoglutarate). The corresponding gene (citA) was cloned and sequenced, allowing construction of a citA mutant (BZ2). BZ2 was a glutamate auxotroph, indicating that citA encoded the major citrate synthase allowing flow of acetyl-CoA into the tricarboxylic acid (TCA) cycle. Interruption of aerobic TCA cycle-based metabolism resulted in acidification of the medium and defects in morphological differentiation and antibiotic biosynthesis. These developmental defects of the citA mutant were in part due to a glucose-dependent medium acidification that was also exhibited by some other bald mutants. Unlike other acidogenic bald strains, citA and bldJ mutants were able to produce aerial mycelia and pigments when the medium was buffered sufficiently to maintain neutrality. Extracellular complementation studies suggested that citA defines a new stage of the Streptomyces developmental cascade.     

Optimization of a high-throughput CTAB-based protocol for the extraction of qPCR-grade DNA from rumen fluid, plant and bacterial pure cultures

The quality and yield of extracted DNA are critical for the majority of downstream applications in molecular biology. Moreover, molecular techniques such as quantitative real-time PCR (qPCR) are becoming increasingly widespread; thus, validation and cross-laboratory comparison of data require standardization of upstream experimental procedures. DNA extraction methods depend on the type and size of starting material(s) used. As such, the extraction of template DNA is arguably the most significant variable when cross-comparing data from different laboratories. Here, we describe a reliable, inexpensive and rapid method of DNA purification that is equally applicable to small or large scale or high-throughput purification of DNA. The protocol relies on a CTAB-based buffer for cell lysis and further purification of DNA with phenol : chloroform : isoamyl alcohol. The protocol has been used successfully for DNA purification from rumen fluid and plant cells. Moreover, after slight alterations, the same protocol was used for large-scale extraction of DNA from pure cultures of Gram-positive and Gram-negative bacteria. The yield of the DNA obtained with this method exceeded that from the same samples using commercial kits, and the quality was confirmed by successful qPCR applications.     

Glutathione S-transferase in the developmental stages of the insect Apis mellifera macedonica

We investigated the pattern of glutathione S-transferase (GST) activity in the course of the development of Apis mellifera macedonica. GST activity is present in all developmental stages of A. mellifera macedonica. The highest activity towards the substrate 1-chloro-2,4-dinitrobenzene (CDNB) is found in the adult stage and the lowest in the egg. The kinetic characteristics of the whole enzyme change as the insect develops. Significant changes are observed in substrate specificity, inhibitor sensitivity and V(max). The number of isoenzymes and their rate of expression vary as the insect develops. However, two main isoenzymes are present in all developmental stages, one in the alkaline area and the other in the acidic. While in the larval stage the acidic isoenzyme is expressed at a slightly higher rate (52.2% over 47.8% for the alkaline isoenzyme), in the adult stage, the rate is reversed dramatically (13.24% and 84.2%, respectively).