A Canadian Critical Care Trials Group project in collaboration with the international forum for acute care trialists - Collaborative H1N1 Adjuvant Treatment pilot trial (CHAT): study protocol and design of a randomized controlled trial

Background

The Vaccine Assessment using Linked Data (VALiD) trial compared opt-in and opt-out parental consent for a population-based childhood vaccine safety surveillance program using data linkage. A subsequent telephone interview of all households enrolled in the trial elicited parental intent regarding the return or non-return of reply forms for opt-in and opt-out consent. This paper describes the rationale for the trial and provides an overview of the design and methods.

Methods/Design

Single-centre, single-blind, randomised controlled trial (RCT) stratified by firstborn status. Mothers who gave birth at one tertiary South Australian hospital were randomised at six weeks post-partum to receive an opt-in or opt-out reply form, along with information explaining data linkage. The primary outcome at 10 weeks post-partum was parental participation in each arm, as indicated by the respective return or non-return of a reply form (or via telephone or email response). A subsequent telephone interview at 10 weeks post-partum elicited parental intent regarding the return or non-return of the reply form, and attitudes and knowledge about data linkage, vaccine safety, consent preferences and vaccination practices. Enrolment began in July 2009 and 1,129 households were recruited in a three-month period. Analysis has not yet been undertaken. The participation rate and selection bias for each method of consent will be compared when the data are analysed.

Discussion

The VALiD RCT represents the first trial of opt-in versus opt-out consent for a data linkage study that assesses consent preferences and intent compared with actual opting in or opting out behaviour, and socioeconomic factors. The limitations to generalisability are discussed.

Trial registration

Australian New Zealand Clinical Trials Registry ACTRN12610000332022     

Natural Polyphenols: Biological Activity,Pharmacological Potential,Means of Metabolic Engineering (Review)

This review examines the main features of natural phytoalexines of flavonoid and stilbenoid natures, which are secondary metabolism products in numerous plants widely used as biologically active substances in the medicine, pharmacology, and agricultural plants protection. We considered the role of flavonoids and stilbenes in phytoimmune and antistress responses in plants, bactericide antifungul, and antiviral effects towards microorganisms, and the wide medical application for a number of mammalian pathologies. The main achievements in the metabolic engineering of flavonoids in microbial biotechnologies are discussed.     

The results of and prospects for the study of the interphase nucleus of eukaryotes

Being devoted to studies in structural peculiarities of chromatin distribution of interphase nuclei from eucaryote cells, the paper embraces literature data and the authors' results in this field. Main tendencies in development of the method, based on the qualitative and quantitative estimation of hetero- and euchromatin nucleus substance are considered. Basic successes achieved while estimating experimental and clinical materials are indicated. It is determined as promising to put the method into practice.     

Biostratigraphical analysis of the Moscovian–Kasimovian transition at the neostratotype of Kasimovian Stage (Afanasievo section, Moscow Basin, Russia)

The Afanasievo Quarry, approximately 90 km southeast of Moscow and about 5 km southwest of Voskresensk, starts with Late Moscovian limestone of the Peski Formation, which is overlain by shallow-water carbonates of the Krevyakinian Horizon (Substage) (Suvorovo and Voskresensk formations) and the lower part of the Khamovnikian Horizon (Substage) (Ratmirovo and Neverovo formations). These rocks were formed under the strong influence of glacio-eustatic sea-level fluctuations and are separated by the palaeosol horizons and minor stratigraphic gaps. The Moscovian–Kasimovian transition interval contains fusulinids, brachiopods, bryozoans, corals, and conodonts. It was recently proposed [Villa, E., Task Group, 2005. Report of the Task Group to establish GSSPs at the Moscovian–Kasimovian and Kasimovian-Gzhelian boundaries. Newsletter on Carboniferous Stratigraphy 23, 9–10] that the appearance of the conodont Idiognathodus sagittalis Kozitskaya is one of the best markers for definition of the base of the Kasimovian on the global chronostratigraphic scale. The first appearance of this species is 2 m above the base of Neverovo Formation, and is close to the first appearance of the fusulinid Montiparus in the section. The possible ancestor of I. sagittalis occurs in the lower Suvorovo Formation, but is more abundant and more advanced in the middle to upper parts of the Voskresensk Formation. This lineage has potential for defining a GSSP at the first appearance of I. sagittalis.     

Selection of a Mixed Culture of Cellulolytic Thermophilic Anaerobes from Various Natural Sources

Microbial associations capable of converting cellulose-containing substrates to ethanol and organic acids were isolated from natural sources. The resulting mixed cultures utilized cellulose, cellobiose, glucose, maize residue, cotton, and flax boon producing ethanol (up to 0.9 g/l) and acetic acid (up to 0.8 g/l). The most complete conversion of cellulose-containing substrates occurred at 60°C and pH 7.0. The selected association of thermophilic anaerobic bacteria produced 0.64 g of ethanol per g substrate utilized at the ethanol/acetate ratio 4.7 : 1.     

Conditions for forming ethanol during bioconversion of cellulose-containing raw material

Several natural associations composed by thermophilic anaerobic bacteria capable of utilizing various cellulose materials at 60 +/- 2 degrees C and pH 6.0-7.0 were isolated from the sludge of Kamchatka geothermal springs. The rate of ethanol production (up to 1.7 g/l per day) and the concentration of ethanol in the medium (up to 1.2%), as well as the fermentation period (10-15 days) were determined under anaerobic conditions in the presence of cellulose, coniferous sawdust, newsprint, or paper pulp as a carbon source. Microorganisms were found that inhibited the production of ethanol. The initial pH value was found to influence both the ethanol production rate and ethanol/acetate ratio. A pH decrease from 7.0 to 5.0 led to 6.7-fold increased the ethanol production and caused a 23.8-fold increase in the ethanol/acetate ratio.     

Isolation and Characterization of Tightly Coupled Mitochondria from Wild Type and nap Mutant Neurospora crassa

A fast and reproducible procedure was elaborated for isolation of tightly coupled mitochondria from wild type and nap mutant Neurospora crassa cells harvested at different growth stages. The isolated mitochondrial preparations had controlled metabolic states and were tightly coupled, i.e., displayed good respiratory control and had close to the theoretically expected maximal ADP/O ratios upon oxidation of Krebs cycle intermediates and exogenous NADH. They contained the fully competent respiratory chain with all three points of energy conservation. Oxidation of all examined substrates by mitochondria from both wild type and mutant cells was mediated by two alternative terminal oxidative systems, albeit to varying extent, with the more pronounced engagement of the alternative oxidase in the stationary growth phase and with a minor contribution of this non-phosphorylating pathway in the substrate oxidation by mutant mitochondria. Oxidation of NAD-dependent substrates by mitochondria from the two cell types was accommodated via both rotenone-sensitive and rotenone-insensitive pathways, while the level of rotenone-insensitive pathway in mutant cells was lower than in wild type cells. It is suggested that a more limited contribution of alternative non-phosphorylating oxidative pathways to the total respiration in mutant cells, as compared with wild type cells, could, at least partially, explain an elevated ATP level in these cells. However, the absence of principal differences in the arrangement of the respiratory chain in mitochondria of wild type and mutant cells implies that the elevated ATP level in the nap mutant is largely related to reduced ATP expenses for transport processes in these cells.     

Importing statistical measures into Artemis enhances gene identification in the <Emphasis Type="Italic">Leishmania</Emphasis> genome project

Background

Seattle Biomedical Research Institute (SBRI) as part of the Leishmania Genome Network (LGN) is sequencing chromosomes of the trypanosomatid protozoan species Leishmania major. At SBRI, chromosomal sequence is annotated using a combination of trained and untrained non-consensus gene-prediction algorithms with ARTEMIS, an annotation platform with rich and user-friendly interfaces.

Results

Here we describe a methodology used to import results from three different protein-coding gene-prediction algorithms (GLIMMER, TESTCODE and GENESCAN) into the ARTEMIS sequence viewer and annotation tool. Comparison of these methods, along with the CODON USAGE algorithm built into ARTEMIS, shows the importance of combining methods to more accurately annotate the L. major genomic sequence.

Conclusion

An improvised and powerful tool for gene prediction has been developed by importing data from widely-used algorithms into an existing annotation platform. This approach is especially fruitful in the Leishmania genome project where there is large proportion of novel genes requiring manual annotation.

     

The immunophenotypic and cytogenetic characteristics of the blast cells in subvariants of acute myeloid leukemia

The results of study of morpho-cytochemical peculiarities, antigenic profile and peripheric blood and/or bone marrow blast cell karyotype of 21 patients with acute myeloid leukemia are presented. Hemopoietic cell immunophenotyping was carried out with the use of cytofluorometer FACScan and chromosome cytogenetic analysis with the use of analyzer "Metascan". It has been shown that in the AML M1 blast cell plasmatic membrane carries pan-myeloid CD33 and CD13 antigens, the last having high density of expression, and the CD38 antigen, which is a myeloid cell-precursor marker. In these patients tetraploidy, being the testimony of karyotype change, has been ascertained. It has been found out that the AML M2 blasts, except pan-myeloid antigens, express the cell proliferation CD71 marker. Blast cell karyotype peculiarities typical for this leukemia sub-variant have been revealed. In patients with the AML M4 in 3 of 6 cases an anomalous karyotype has been found. It has been also shown that the CD14 antigen, and rather its percentage in blast total population, is the differential-diagnostic criterion for the AML M4 and M5.