Group-specific Patterns Research Articles

Chromium-Picolinate Therapy in Diabetes Care: Molecular and Subcellular Profiling Revealed a Necessity for Individual Outcome Prediction, Personalised Treatment Algorithms & New Guidelines

Global figures clearly demonstrate inadequacy of current diabetes care: every 10 seconds one patient dies of diabetes-related pathologies. Nephropathy is the leading secondary complication of the disease. Nutritional supplement by chromium-picolinate is assumed to have beneficial therapeutic effects. However, potential toxic effects reported increase concerns about safety of chromium-picolinate. The experimental design aimed at determining, whether the treatment with clinically relevant doses of chromium-picolinate can harm through DNA damage and extensive alterations in central detoxification / cell-cycle regulating pathways in treatment of diabetes. Well-acknowledged animal model of db/db-mice and clinically relevant doses of chromium-picolinate were used. As an index of DNA-damage, measurement of DNA-breaks was performed using "Comet Assay"-analysis. Individual and group-specific expression patterns of SOD-1 and P53 were evaluated to give a clue about central detoxification and cell-cycle regulating pathways under treatment conditions. The study was performed in a double-blind manner. Experimental data revealed highly individual reaction under treatment conditions. However, group-specific patterns were monitored: highest amount of damaged DNA--under the longest treatment with high doses, in contrast to groups with low doses of chromium-picolinate. Comet patterns were intermediate between untreated diabetised and control animals. Expression patterns demonstrated a correlation with subcellular imaging and dosage-dependent suppression under chromium-picolinate treatment. This article highlights possible risks for individual long-term effects, when chromium-picolinate is used freely as a therapeutic nutritional modality agent without application of advanced diagnostic tools to predict risks and individual outcomes. Targeted measures require a creation of new guidelines for advanced Diabetes care.

Income Inequality and its Consequences for Life Satisfaction: What Role do Social Cognitions Play?

While it is generally agreed that income inequality affects an individual’s well-being, researchers disagree on whether people living in areas of high income disparity report more or less happiness than those in more equal environments, thereby indicating the need to study how and why income inequality matters to the individual’s well-being. Findings on group-specific reaction patterns to income inequality further fuel this need. Alesina et al. (2004) argue that a preference for inequality and the perception of the possibility of social mobility account for the indistinct relationship between income inequality and subjective well-being. Combining this hypothesis with previous research on social cognition and drawing on social justice theory, this paper aims to demonstrate the mediating nature of perceptions of income inequality. It argues that the perceived legitimacy of distributive outcomes and procedures contributes to how income inequalities affect individuals and their sense of well-being. The empirical analysis is based on data from the International Social Justice Project, developed from face-to-face interviews with a representative sample of the German population. Using structural equation modeling, the paper finds structural biases in the perception of income inequality. The paper concludes that subjective well-being is a product of the individual’s perception and legitimating processes. The results indicate that social cognition is a useful tool for studies of income inequality and subjective well-being.

Convergence in per capita CO 2 emissions: A robust distributional approach

Abstract This paper investigates the convergence hypothesis for per capita CO 2 emissions with a panel of 166 world areas covering the period 1960–2002. The analysis is based on the evolution of the spatial distributions over time. Robust measures of dispersion, asymmetry, peakedness and two nonparametric distributional tests – shape equality and multimodality – are used to assess spatial time differences. A robust normal reference bandwidth is also applied to estimate Markov’s transition laws and its subsequent ergodic (long-run) distributions. Our results point toward non-stationary, flattening and right-skewed spatial distributions before the oil price shocks of the 1970s and more stable and symmetric shapes between 1980 and 2000 at the world level and for many country groupings (similar income, geographic neighbors, institutional partners). In the latter period, group-specific convergence patterns emerge with the clearest single-peaked and compact density shapes being reached in the wealthy, well-integrated and European countries during the last years of the panel. No significant multimodality is formally detected in the world distribution over the whole period. The Markov analysis suggests more divergence and larger per capita emissions for the world in the long run, with a doubling in median emissions and stable pollution gaps during the first 50 years of the transition. A variety of steady state distributions are identified in the country subsets.

Reflections on 'Museality' as a Critical Term in the Aesthetics of Religion

Abstract'Museality' and 'museal' can be viewed as perceptible qualities of a social—and thus also religious—complex of forms of expression, representation, and action, which have become consolidated in modern times in Europe in the institution of the 'museum,' but which are not restricted to it as group-specific and individual representation patterns. The basic aim of this article is to show that there is a 'museal principle' which, like theatrality, permeates both social and individual action, which is not restricted to the European tradition, and which can described by the term 'museality.' Taking a combined perspective of cultural anthropology and the aesthetics of religion the following study understands the 'museal principle' as a social practice, a perceptible and productive gesture and habitus centred around the collecting and exhibiting of artifacts. The prototype of museality is the modern European institution of the 'museum' that is found also in premodern and religious contexts: cathedral treasures, church interiors, cemeteries are types of museal practice and aesthetics, as well as home altars, private collections, or ensembles of sacred buildings.

Food utilization of two pelagic crustaceans in the Greenland Sea: Meganyctiphanes norvegica (Euphausiacea) and Hymenodora glacialis (Decapoda, Caridea)

Large pelagic crustaceans from Greenland Sea waters, the northern krill Meganyc- tiphanes norvegica (Euphausiacea) and the decapod shrimp Hymenodora glacialis (Caridea), were captured in depths down to 1500 m and studied with respect to their physiological food utilization abilities. Both species showed distinct differences in the amount of total lipids (TLs), lipid class and fatty acid (FA) compositions as well as proteolytic enzyme activities. In M. norvegica, the overall amount of TLs and storage lipids was much lower than in H. glacialis, and triacylglycerols formed the major lipid fraction with a mean of 48% TLs. Major FAs comprised the trophic markers 20:1(n-9) and 22:1(n-11), indicating the ingestion of calanid copepods. Additionally, the FAs 22:6(n-3), 18:1(n-9) and 16:0 prevailed. In H. glacialis, TLs (mean = 44% dry mass) were about twice as high as in krill, with wax esters comprising up to 89% TLs. H. glacialis seems to accumulate these lipids as energy reserves to survive periods of food limitation. Moreover, high lipid levels, particularly wax esters, also help to maintain neutral buoyancy. The major FA in H. glacialis was 18:1(n-9); other dominant FAs were 20:1(n-9) and 22:1(n-11), typical of calanid copepods, as well as the diatom trophic marker 16:1(n-7). Both species showed omnivorous feeding behaviour with a strong tendency towards carni- vory. Total proteolytic activities in midgut gland tissue were higher in M. norvegica than in H. glacialis. In M. norvegica, proteinases were dominated by serine proteinases, whereas cysteine proteinases formed the major group in H. glacialis. High proteolytic activity in M. norvegica indicates a high digestive potential for proteins and efficient utilization of prey. The presence of different pro- teinase classes in both species may be due to different group-specific enzyme expression patterns between euphausiids and caridean decapods. Both species follow highly deviating life strategies, as reflected by their specific lipid and enzymatic characteristics.

A treasure trove of gene expression patterns

Combining cell group specific gene expression patterns with recent technologies has provided insights into brain circuitry. A new resource may make it possible for those studying the hypothalamus to use these techniques as well.

Parental Practices and Achievement of Mexican and Chinese Immigrant Children in the USA: Assimilation Patterns?

The authors used the Early Childhood Longitudinal Study, Kindergarten Class of 1998–99 (ECLS-K) data to examine the mathematics and science achievement of two immigrant groups in the United States – Chinese and Mexican students. The authors also assessed variation in parental practices and fifth-grade achievement according to ethnicity and the age at which parents arrived in the United States, i.e. comparing children whose parents were born outside of the United States and immigrated after the age of 17, those whose parents immigrated before the age of 17, and native-born parents. The findings support the segmented assimilation framework: Mexican immigrant parents (both arriving as adults and at younger ages) and Chinese immigrant parents (arriving as adults) reported lower levels of parental involvement at school, enrollment in extra-curricular activities, and provision of literacy materials. However, these behaviors among native-born parents of Mexicans and Chinese more closely resemble those of native-born whites. At the same time, although immigrant parents uniformly expressed higher educational expectations than white parents, the achievement patterns of their children diverged along ethnic lines and varied according to the life stage that the parents immigrated to the United States, indicating a process of increasing assimilation among immigrant families but with group-specific patterns. The authors found decreasing disparities in mathematics and science achievement between immigrant and white students: Chinese students' advantage and Mexican students' disadvantage relative to white students disappeared by the second generation and third generation, respectively.

Biological Signature Characteristics of Primary Isolates from Human Immunodeficiency Virus Type 1 Group O in Ex Vivo Human Tonsil Histocultures

Human immunodeficiency virus type 1 (HIV-1) group M viruses have achieved a global distribution, while HIV-1 group O viruses are endemic only in particular regions of Africa. Here, we evaluated biological characteristics of group O and group M viruses in ex vivo models of HIV-1 infection. The replicative capacity and ability to induce CD4 T-cell depletion of eight group O and seven group M primary isolates were monitored in cultures of human peripheral blood mononuclear cells and tonsil explants. Comparative and longitudinal infection studies revealed HIV-1 group-specific activity patterns: CCR5-using (R5) viruses from group M varied considerably in their replicative capacity but showed similar levels of cytopathicity. In contrast, R5 isolates from group O were relatively uniform in their replicative fitness but displayed a high and unprecedented variability in their potential to deplete CD4 T cells. Two R5 group O isolates were identified that cause massive depletion of CD4 T cells, to an extent comparable to CXCR4-using viruses and not documented for any R5 isolate from group M. Intergroup comparisons found a five- to eightfold lower replicative fitness of isolates from group O than for isolates from group M yet a similar overall intrinsic pathogenicity in tonsil cultures. This study establishes biological ex vivo characteristics of HIV-1 group O primary isolates. The current findings challenge the belief that a grossly reduced replicative fitness or inherently impaired cytopathicity of viruses from this group underlies their low global prevalence.

The Abstracts of the College of Clinical Neuropsychologists 14th Annual Conference

Epilepsy patients can have emotional-social dysfunction and lack of insight. This might be due to organic brain pathology or psycho-social interactions. Emotional-Social Dysfunction was scored from three groups of patients and partners/family (ESDQ); Test of Everyday Attention (TEA); and Executive Functions (D-KEFS) were assessed in patients. Groups were generalized convulsive status epilepticus (GCSE, 6); temporal lobe epilepsy (TLE, 7); or idiopathic generalized epilepsy (IGE, 7). Epilepsy groups were more emotionally dysfunctional than normal controls. Compared to partners’ ratings of them, TLE patients consistently over-estimated their ESDQ ratings while GCSE patients under-estimated. Compared to control ESDQ datasets, TLE patient-partner scores showed significant discrepancy for Anger and Lack of Insight; and GCSE for Anger and Indifference. IGE produced minimal discrepancies. TLE overestimations of Lack of Insight were significantly linked to reduced perseveration errors. GCSE underestimations correlated with increasing distractibility scores. Lack of Insight negatively correlated with vigilant attention in GCSE and TLE. Patient Lack of Insight self-ratings correlated with estimated number of lifetime seizures, suggesting seizure chronicity had an impact. Group specific patterns of insight suggest insight impairment may be mediated by local brain dysfunction rather than a global effect of chronic disease.

Characteristics and Prediction of RNA Editing Sites in Transcripts of the Moss Takakia lepidozioides Chloroplast

RNA editing in land plant organelles is a process primarily involving the conversion of cytidine to uridine in pre-mRNAs. The process is required for gene expression in plant organelles, because this conversion alters the encoded amino acid residues and improves the sequence identity to homologous proteins. A recent study uncovered that proteins encoded in the nuclear genome are essential for editing site recognition in chloroplasts; the mechanisms by which this recognition occurs remain unclear. To understand these mechanisms, we determined the genomic and cDNA sequences of moss Takakia lepidozioides chloroplast genes, then computationally analyzed the sequences within −30 to +10 nucleotides of RNA editing sites (neighbor sequences) likely to be recognized by trans-factors. As the T. lepidozioides chloroplast has many RNA editing sites, the analysis of these sequences provides a unique opportunity to perform statistical analyses of chloroplast RNA editing sites. We divided the 302 obtained neighbor sequences into eight groups based on sequence similarity to identify group-specific patterns. The patterns were then applied to predict novel RNA editing sites in T. lepidozioides transcripts; ∼60% of these predicted sites are true editing sites. The success of this prediction algorithm suggests that the obtained patterns are indicative of key sites recognized by trans-factors around editing sites of T. lepidozioides chloroplast genes.

Phylogenetic and comparative gene expression analysis of barley (Hordeum vulgare) WRKY transcription factor family reveals putatively retained functions between monocots and dicots.

BackgroundWRKY proteins belong to the WRKY-GCM1 superfamily of zinc finger transcription factors that have been subject to a large plant-specific diversification. For the cereal crop barley (Hordeum vulgare), three different WRKY proteins have been characterized so far as regulators in sucrose signaling, pathogen defense, and in response to cold and drought. However, their phylogenetic relationship remained unresolved.ResultsIn this study, we used available sequence information to identify a minimum number of 45 barley WRKY transcription factor (HvWRKY) genes. According to their structural features, the HvWRKY factors were classified into the previously defined polyphyletic WRKY subgroups 1 to 3. Furthermore, we could assign putative orthologs of the HvWRKY proteins in Arabidopsis and rice. While in most cases clades of orthologous proteins were formed within each group or subgroup, other clades were composed of paralogous proteins for the grasses and Arabidopsis only, which is indicative of specific gene radiation events. To gain insight into their putative functions, we examined expression profiles of WRKY genes from publicly available microarray data resources and found group specific expression patterns. While putative orthologs of the HvWRKY transcription factors have been inferred from phylogenetic sequence analysis, we performed a comparative expression analysis of WRKY genes in Arabidopsis and barley. Indeed, highly correlative expression profiles were found between some of the putative orthologs.ConclusionHvWRKY genes have not only undergone radiation in monocot or dicot species, but exhibit evolutionary traits specific to grasses. HvWRKY proteins exhibited not only sequence similarities between orthologs with Arabidopsis, but also relatedness in their expression patterns. This correlative expression is indicative for a putative conserved function of related WRKY proteins in monocot and dicot species.

Between-groups within-gene heterogeneity of residual variances in microarray gene expression data

BackgroundThe analysis of microarray gene expression data typically tries to identify differential gene expression patterns in terms of differences of the mathematical expectation between groups of arrays (e.g. treatments or biological conditions). Nevertheless, the differential expression pattern could also be characterized by group-specific dispersion patterns, although little is known about this phenomenon in microarray data. Commonly, a homogeneous gene-specific residual variance is assumed in hierarchical mixed models for gene expression data, although it could result in substantial biases if this assumption is not true.ResultsIn this manuscript, a hierarchical mixed model with within-gene heterogeneous residual variances is proposed to analyze gene expression data from non-competitive hybridized microarrays. Moreover, a straightforward Bayes factor is adapted to easily check within-gene (between groups) heterogeneity of residual variances when samples are grouped in two different treatments. This Bayes factor only requires the analysis of the complex model (hierarchical mixed model with between-groups heterogeneous residual variances for all analyzed genes) and gene-specific Bayes factors are provided from the output of a simple Markov chain Monte Carlo sampling.ConclusionThis statistical development opens new research possibilities within the gene expression framework, where heterogeneity in residual variability could be viewed as an alternative and plausible characterization of differential expression patterns.

Patterns of gene expression in the limbic system of suicides with and without major depression

The limbic system has consistently been associated with the control of emotions and with mood disorders. The goal of this study was to identify new molecular targets associated with suicide and with major depression using oligonucleotide microarrays in the limbic system (amygdala, hippocampus, anterior cingulate gryus (BA24) and posterior cingulate gyrus (BA29)). A total of 39 subjects were included in this study. They were all male subjects and comprised 26 suicides (depressed suicides=18, non depressed suicides=8) and 13 matched controls. Brain gene expression analysis was carried out on human brain samples using the Affymetrix HG U133 chip set. Differential expression in each of the limbic regions showed group-specific patterns of expression, supporting particular neurobiological mechanisms implicated in suicide and depression. Confirmation of genes selected based on their significance and the interest of their function with reverse transcriptase-polymerase chain reaction showed consistently correlated signals with the results obtained in the microarray analysis. Gene ontology analysis with differentially expressed genes revealed an overrepresentation of transcription and metabolism-related genes in the hippocampus and amygdala, whereas differentially expressed genes in BA24 and BA29 were more generally related to RNA-binding, regulation of enzymatic activity and protein metabolism. Limbic expression patterns were most extensively altered in the hippocampus, where processes related to major depression were associated with altered expression of factors involved with transcription and cellular metabolism. Additionally, our results confirm previous evidence pointing to global alteration of gabaergic neurotransmission in suicide and major depression, offering new avenues in the study and possibly treatment of such complex disorders. Overall, these data suggest that specific patterns of expression in the limbic system contribute to the etiology of depression and suicidal behaviors and highlight the role of the hippocampus in major depression.

A stochastic production frontier model with group-specific temporal variation in technical efficiency

The purpose of this study was to develop a stochastic frontier production model that relaxes the assumption of identical temporal patterns of technical inefficiency, and the restriction of specific forms of temporal pattern, without imposing other restrictions. Specifically, the proposed model allows group-specific patterns of temporal change in technical inefficiency. This is a direct generalization of the model of Lee and Schmidt (1993) [Lee, Y.H., Schmidt, P., 1993. A production frontier model with flexible temporal variation in technical inefficiency. In: Fried, H., Lovell, C.A.K., Schmidt, P. (Eds.), The Measurement of Productive Efficiency: Techniques and Applications. Oxford University Press, Oxford], which imposed an identical temporal pattern of technical inefficiency on all firms. When applied to Indonesian rice farms, the model is shown to be an improvement on the earlier model of Lee and Schmidt (1993), and the changes in the efficiency rankings of farms over time demonstrate the model’s flexibility.

More than just innate immunity: comparative analysis of Chlamydophila pneumoniae and Chlamydia trachomatis effects on host-cell gene regulation.

Chlamydophila pneumoniae and Chlamydia trachomatis cause infections of the respiratory or urogenital tract. In addition, both species have been associated with atherosclerosis or reactive arthritis respectively. For these intracellular pathogens the interaction with their host-cells is of particular importance. To get insight into this relationship, we conducted a comparative analysis of the host-cell gene regulation of human epithelial cells during infection with Chlamydia. In a screening of HeLa cells by Affymetrix-microchips, numerous regulated host-genes were identified. A detailed expression profile was obtained for 14 genes by real-time RT-PCR - comparing C. pneumoniae, C. trachomatis and intracellular S. typhimurium. The transcriptional responses induced by C. pneumoniae were similar (but usually smaller) compared to C. trachomatis, some were absent. UV-inactivated bacteria induced no differential gene expression suggesting that pathomechanisms other than those associated with innate immunity play here an important role. The expression pattern induced by Salmonella differed substantially. These genus- or group-specific transcriptional response patterns elicited by viable intracellular pathogens may considerably contribute to the different pathologies encountered in the clinic.

Evaluation of nested PCR–DGGE (denaturing gradient gel electrophoresis) with group-specific 16S rRNA primers for the analysis of bacterial communities from different wastewater treatment plants

The diversity of bacterial groups of activated sludge samples that received wastewater from four different types of industry was investigated by a nested PCR-DGGE (denaturing gradient gel electrophoresis) approach. Specific 16S rRNA primers were chosen for large bacterial groups (Bacteria and alpha-Proteobacteria in particular), which dominate activated sludge communities, as well as for actinomycetes, ammonium oxidisers and methanotrophs (types I and II). In addition primers for the new Acidobacterium kingdom were used to observe their community structure in activated sludge. After this first PCR amplification, a second PCR with bacterial primers yielded 16S rRNA gene fragments that were subsequently separated by DGGE, thus generating 'group-specific DGGE patterns'. The community structure and diversity of the bacterial groups from the different samples was further analysed using different techniques, such as statistical analysis and Shannon diversity index evaluation of the band patterns. By combining the seven DGGE gels, cluster analysis, multidimensional scaling and principal component analysis clearly clustered two of the four activated sludge types separately. It was shown that the combination of molecular and statistical methods can be very useful to differentiate microbial communities.

Evaluation of nested PCR–DGGE (denaturing gradient gel electrophoresis) with group-specific 16S rRNA primers for the analysis of bacterial communities from different wastewater treatment plants

The diversity of bacterial groups of activated sludge samples that received wastewater from four different types of industry was investigated by a nested PCR–DGGE (denaturing gradient gel electrophoresis) approach. Specific 16S rRNA primers were chosen for large bacterial groups (Bacteria and α-Proteobacteria in particular), which dominate activated sludge communities, as well as for actinomycetes, ammonium oxidisers and methanotrophs (types I and II). In addition primers for the new Acidobacterium kingdom were used to observe their community structure in activated sludge. After this first PCR amplification, a second PCR with bacterial primers yielded 16S rRNA gene fragments that were subsequently separated by DGGE, thus generating ‘group-specific DGGE patterns’. The community structure and diversity of the bacterial groups from the different samples was further analysed using different techniques, such as statistical analysis and Shannon diversity index evaluation of the band patterns. By combining the seven DGGE gels, cluster analysis, multidimensional scaling and principal component analysis clearly clustered two of the four activated sludge types separately. It was shown that the combination of molecular and statistical methods can be very useful to differentiate microbial communities.

Evolutionary classification of homeodomains.

We performed multiple comparisons between available amino acid (aa) sequences of homeodomain(HOM)-containing proteins from a wide spectrum of animals to create an evolutionary classification of the proteins. Based on results of statistical and special computational analyses of over 500 homeodomain aa sequences (HOMs) a novel system of concepts describing complex structural correlations between homologous proteins is proposed. This system includes such notions as differentiated isofunctionality of aa, chemotype, stereotype, local functional motifs, gradual conservativeness of aa positions, and group-specific domain patterns, as well as major categories of the evolutionary classification of HOMs (Division, Type, Branch, Class, Family, Series, Variety, Sort). Using this approach, a complete structural systematics of HOMs belonging to proteomes of eukaryotic animals is proposed. The proposed structural classification of HOMs is in full agreement with the bulk of experimental data revealing complex functional similarities and differences among HOMs in terms of their expression patterns in developing embryos. It turn, this classification can provide answers regarding homology among homeodomains when experimental data are conflicting.

World War I origins of the syphilis epidemic among 20th century black Americans: A biohistorical analysis

Syphilis outbreaks and differentials have been an ongoing issue in modern preventive medicine and public health. Since the early 20th Century, a variety of approaches has been employed to explain demographic and temporal variations in the prevalence of syphilis in the U.S. Public health experts and physicians have tended to rely on case-by-case approaches to explain group-specific patterns. This study, however, shows that population-level disease dynamics cannot be ascertained from these individual-level studies. We offer a biohistorical methodology to study syphilis prevalence differentials in U.S. populations. Using historical health data, this study suggests that the social disruption brought on by World War I was the critical and unique environmental condition which ignited an epidemic of syphilis among black Americans. By establishing this beginning point for the epidemic, this study further shows the persistence of the epidemic for the next 40 years and its decline. This biohistorical methodology could be applied to the analysis of STD epidemics in other populations and regions experiencing mass exposure events.

Identification and classification of autoantibody repertoires (Western blots) with a pattern recognition algorithm by an artificial neural network.

The screening of sera for autoantibodies with Western blots reveals complex repertoires. the compostion of such repertoires depends on genetic control of autoantibody-producing cells, the individual's history of exposure to its own and to foreign antigens, and also on the presence of autoimmune diseases. Our method shows how staining patterns of Western blots can be recoded as binary or grey-value vectors. Vectors are transferred to artificial neural networks for learning. Artificial neural networks are able to recognize group-specific antibody binding patterns. Staining patterns can be attributed to diagnostic groups. This may support diagnostic procedures.